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Conserved domains on  [gi|1907165828|ref|XP_036021336|]
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ATP-dependent RNA helicase DDX55 isoform X1 [Mus musculus]

Protein Classification

Graphical summary

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List of domain hits

 Name Accession Description Interval E-value
SrmB super family cl33924
Superfamily II DNA and RNA helicase [Replication, recombination and repair];
1-247 9.39e-65

Superfamily II DNA and RNA helicase [Replication, recombination and repair];


The actual alignment was detected with superfamily member COG0513:

Pssm-ID: 440279 [Multi-domain]  Cd Length: 420  Bit Score: 214.24  E-value: 9.39e-65
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1907165828   1 MFRRKAegLDLascvKSLDVLVLDEADRLLDMGFEASINTILEFLPKQRRTGLFSATQTQEVENLVRAGLRNPVRISVKE 80
Cdd:COG0513   135 LIERGA--LDL----SGVETLVLDEADRMLDMGFIEDIERILKLLPKERQTLLFSATMPPEIRKLAKRYLKNPVRIEVAP 208

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1907165828  81 KgvaasstQKTPSRLENHYMICKADEKFNQLVHFLRSRQQEKHLVFFSTCACVEYYGKALEAllKKVKILCIHGKM-KYK 159
Cdd:COG0513   209 E-------NATAETIEQRYYLVDKRDKLELLRRLLRDEDPERAIVFCNTKRGADRLAEKLQK--RGISAAALHGDLsQGQ 279

                         170       180       190       200       210       220       230       240
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1907165828 160 RNKIFMEFRKLQSGILVCTDVMARGIDIPEVNWVLQYDPPSNASAFVHRCGRTARIGHGGSALVFLLPMEEAYINFL--A 237
Cdd:COG0513   280 RERALDAFRNGKIRVLVATDVAARGIDIDDVSHVINYDLPEDPEDYVHRIGRTGRAGAEGTAISLVTPDERRLLRAIekL 359

                         250
                  ....*....|
gi 1907165828 238 INQKCPLQEM 247
Cdd:COG0513   360 IGQKIEEEEL 369
DUF4217 pfam13959
Domain of unknown function (DUF4217); This short domain is found at the C-terminus of many ...
 258-315 2.46e-21

Domain of unknown function (DUF4217); This short domain is found at the C-terminus of many helicase proteins.


:

Pssm-ID: 464056 [Multi-domain]  Cd Length: 59  Bit Score: 87.07  E-value: 2.46e-21
                          10        20        30        40        50
                  ....*....|....*....|....*....|....*....|....*....|....*...
gi 1907165828 258 PKLRAMALADRAVFEKGMKAFVSFVQAYAKHECSLIFRLKDLDFAGLARGFALLRMPR 315
Cdd:pfam13959   2 LQLEKLVLKDRELKELAQKAFVSYVRAYSKHLAKSIFNVKKLDLGHLAKSFGLLRAPK 59
 
Name Accession Description Interval E-value
SrmB COG0513
Superfamily II DNA and RNA helicase [Replication, recombination and repair];
1-247 9.39e-65

Superfamily II DNA and RNA helicase [Replication, recombination and repair];


Pssm-ID: 440279 [Multi-domain]  Cd Length: 420  Bit Score: 214.24  E-value: 9.39e-65
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1907165828   1 MFRRKAegLDLascvKSLDVLVLDEADRLLDMGFEASINTILEFLPKQRRTGLFSATQTQEVENLVRAGLRNPVRISVKE 80
Cdd:COG0513   135 LIERGA--LDL----SGVETLVLDEADRMLDMGFIEDIERILKLLPKERQTLLFSATMPPEIRKLAKRYLKNPVRIEVAP 208

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1907165828  81 KgvaasstQKTPSRLENHYMICKADEKFNQLVHFLRSRQQEKHLVFFSTCACVEYYGKALEAllKKVKILCIHGKM-KYK 159
Cdd:COG0513   209 E-------NATAETIEQRYYLVDKRDKLELLRRLLRDEDPERAIVFCNTKRGADRLAEKLQK--RGISAAALHGDLsQGQ 279

                         170       180       190       200       210       220       230       240
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1907165828 160 RNKIFMEFRKLQSGILVCTDVMARGIDIPEVNWVLQYDPPSNASAFVHRCGRTARIGHGGSALVFLLPMEEAYINFL--A 237
Cdd:COG0513   280 RERALDAFRNGKIRVLVATDVAARGIDIDDVSHVINYDLPEDPEDYVHRIGRTGRAGAEGTAISLVTPDERRLLRAIekL 359

                         250
                  ....*....|
gi 1907165828 238 INQKCPLQEM 247
Cdd:COG0513   360 IGQKIEEEEL 369
SF2_C_DEAD cd18787
C-terminal helicase domain of the DEAD box helicases; DEAD-box helicases comprise a diverse ...
 95-225 1.02e-48

C-terminal helicase domain of the DEAD box helicases; DEAD-box helicases comprise a diverse family of proteins involved in ATP-dependent RNA unwinding, needed in a variety of cellular processes including splicing, ribosome biogenesis, and RNA degradation. They are superfamily (SF)2 helicases that, similar to SF1, do not form toroidal structures like SF3-6 helicases. Their helicase core consists of two similar protein domains that resemble the fold of the recombination protein RecA. This model describes the C-terminal domain, also called HelicC.


Pssm-ID: 350174 [Multi-domain]  Cd Length: 131  Bit Score: 162.68  E-value: 1.02e-48
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1907165828  95 LENHYMICKADEKFNQL-VHFLRSRQQEKHLVFFSTCACVEYYGKALEALlkKVKILCIHGKMKYK-RNKIFMEFRKLQS 172
Cdd:cd18787     1 IKQLYVVVEEEEKKLLLlLLLLEKLKPGKAIIFVNTKKRVDRLAELLEEL--GIKVAALHGDLSQEeRERALKKFRSGKV 78

                          90       100       110       120       130
                  ....*....|....*....|....*....|....*....|....*....|...
gi 1907165828 173 GILVCTDVMARGIDIPEVNWVLQYDPPSNASAFVHRCGRTARIGHGGSALVFL 225
Cdd:cd18787    79 RVLVATDVAARGLDIPGVDHVINYDLPRDAEDYVHRIGRTGRAGRKGTAITFV 131
PRK11776 PRK11776
ATP-dependent RNA helicase DbpA; Provisional
 9-245 4.24e-38

ATP-dependent RNA helicase DbpA; Provisional


Pssm-ID: 236977 [Multi-domain]  Cd Length: 460  Bit Score: 143.79  E-value: 4.24e-38
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1907165828   9 LDLAScvksLDVLVLDEADRLLDMGFEASINTILEFLPKQRRTGLFSATQTQEVENLVRAGLRNPVRISVKekgvaasST 88
Cdd:PRK11776  143 LDLDA----LNTLVLDEADRMLDMGFQDAIDAIIRQAPARRQTLLFSATYPEGIAAISQRFQRDPVEVKVE-------ST 211

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1907165828  89 QKTPSrLENHYMICKADEKFNQLVHFLRSRQQEKHLVFFSTCA-CVEYYgKALEAllKKVKILCIHGKM-KYKRNKIFME 166
Cdd:PRK11776  212 HDLPA-IEQRFYEVSPDERLPALQRLLLHHQPESCVVFCNTKKeCQEVA-DALNA--QGFSALALHGDLeQRDRDQVLVR 287

                         170       180       190       200       210       220       230
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....
gi 1907165828 167 FRKLQSGILVCTDVMARGIDIPEVNWVLQYDPPSNASAFVHRCGRTARIGHGGSALVFLLPMEEAYINFLAINQKCPLQ 245
Cdd:PRK11776  288 FANRSCSVLVATDVAARGLDIKALEAVINYELARDPEVHVHRIGRTGRAGSKGLALSLVAPEEMQRANAIEDYLGRKLN 366
Helicase_C pfam00271
Helicase conserved C-terminal domain; The Prosite family is restricted to DEAD/H helicases, ...
 106-216 7.07e-28

Helicase conserved C-terminal domain; The Prosite family is restricted to DEAD/H helicases, whereas this domain family is found in a wide variety of helicases and helicase related proteins. It may be that this is not an autonomously folding unit, but an integral part of the helicase.


Pssm-ID: 459740 [Multi-domain]  Cd Length: 109  Bit Score: 106.53  E-value: 7.07e-28
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1907165828 106 EKFNQLVHFLRSRQQEKHLVFFSTCACVEyygkaLEALLKK--VKILCIHGKMKYK-RNKIFMEFRKLQSGILVCTDVMA 182
Cdd:pfam00271   1 EKLEALLELLKKERGGKVLIFSQTKKTLE-----AELLLEKegIKVARLHGDLSQEeREEILEDFRKGKIDVLVATDVAE 75

                          90       100       110
                  ....*....|....*....|....*....|....
gi 1907165828 183 RGIDIPEVNWVLQYDPPSNASAFVHRCGRTARIG 216
Cdd:pfam00271  76 RGLDLPDVDLVINYDLPWNPASYIQRIGRAGRAG 109
HELICc smart00490
helicase superfamily c-terminal domain;
140-216 4.42e-23

helicase superfamily c-terminal domain;


Pssm-ID: 197757 [Multi-domain]  Cd Length: 82  Bit Score: 92.66  E-value: 4.42e-23
                           10        20        30        40        50        60        70        80
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1907165828  140 LEALLKK--VKILCIHGKMKYK-RNKIFMEFRKLQSGILVCTDVMARGIDIPEVNWVLQYDPPSNASAFVHRCGRTARIG 216
Cdd:smart00490   3 LAELLKElgIKVARLHGGLSQEeREEILDKFNNGKIKVLVATDVAERGLDLPGVDLVIIYDLPWSPASYIQRIGRAGRAG 82
DUF4217 pfam13959
Domain of unknown function (DUF4217); This short domain is found at the C-terminus of many ...
 258-315 2.46e-21

Domain of unknown function (DUF4217); This short domain is found at the C-terminus of many helicase proteins.


Pssm-ID: 464056 [Multi-domain]  Cd Length: 59  Bit Score: 87.07  E-value: 2.46e-21
                          10        20        30        40        50
                  ....*....|....*....|....*....|....*....|....*....|....*...
gi 1907165828 258 PKLRAMALADRAVFEKGMKAFVSFVQAYAKHECSLIFRLKDLDFAGLARGFALLRMPR 315
Cdd:pfam13959   2 LQLEKLVLKDRELKELAQKAFVSYVRAYSKHLAKSIFNVKKLDLGHLAKSFGLLRAPK 59
mfd TIGR00580
transcription-repair coupling factor (mfd); All proteins in this family for which functions ...
 133-191 6.10e-06

transcription-repair coupling factor (mfd); All proteins in this family for which functions are known are DNA-dependent ATPases that function in the process of transcription-coupled DNA repair in which the repair of the transcribed strand of actively transcribed genes is repaired at a higher rate than the repair of non-transcribed regions of the genome and than the non-transcribed strand of the same gene. This family is based on the phylogenomic analysis of JA Eisen (1999, Ph.D. Thesis, Stanford University). This family is closely related to the RecG and UvrB families. [DNA metabolism, DNA replication, recombination, and repair]


Pssm-ID: 273152 [Multi-domain]  Cd Length: 926  Bit Score: 48.89  E-value: 6.10e-06
                          10        20        30        40        50        60
                  ....*....|....*....|....*....|....*....|....*....|....*....|
gi 1907165828 133 VEYYGKALEALLKKVKILCIHGKM-KYKRNKIFMEFRKLQSGILVCTDVMARGIDIPEVN 191
Cdd:TIGR00580 673 IEKLATQLRELVPEARIAIAHGQMtENELEEVMLEFYKGEFQVLVCTTIIETGIDIPNAN 732
 
Name Accession Description Interval E-value
SrmB COG0513
Superfamily II DNA and RNA helicase [Replication, recombination and repair];
1-247 9.39e-65

Superfamily II DNA and RNA helicase [Replication, recombination and repair];


Pssm-ID: 440279 [Multi-domain]  Cd Length: 420  Bit Score: 214.24  E-value: 9.39e-65
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1907165828   1 MFRRKAegLDLascvKSLDVLVLDEADRLLDMGFEASINTILEFLPKQRRTGLFSATQTQEVENLVRAGLRNPVRISVKE 80
Cdd:COG0513   135 LIERGA--LDL----SGVETLVLDEADRMLDMGFIEDIERILKLLPKERQTLLFSATMPPEIRKLAKRYLKNPVRIEVAP 208

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1907165828  81 KgvaasstQKTPSRLENHYMICKADEKFNQLVHFLRSRQQEKHLVFFSTCACVEYYGKALEAllKKVKILCIHGKM-KYK 159
Cdd:COG0513   209 E-------NATAETIEQRYYLVDKRDKLELLRRLLRDEDPERAIVFCNTKRGADRLAEKLQK--RGISAAALHGDLsQGQ 279

                         170       180       190       200       210       220       230       240
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1907165828 160 RNKIFMEFRKLQSGILVCTDVMARGIDIPEVNWVLQYDPPSNASAFVHRCGRTARIGHGGSALVFLLPMEEAYINFL--A 237
Cdd:COG0513   280 RERALDAFRNGKIRVLVATDVAARGIDIDDVSHVINYDLPEDPEDYVHRIGRTGRAGAEGTAISLVTPDERRLLRAIekL 359

                         250
                  ....*....|
gi 1907165828 238 INQKCPLQEM 247
Cdd:COG0513   360 IGQKIEEEEL 369
SF2_C_DEAD cd18787
C-terminal helicase domain of the DEAD box helicases; DEAD-box helicases comprise a diverse ...
 95-225 1.02e-48

C-terminal helicase domain of the DEAD box helicases; DEAD-box helicases comprise a diverse family of proteins involved in ATP-dependent RNA unwinding, needed in a variety of cellular processes including splicing, ribosome biogenesis, and RNA degradation. They are superfamily (SF)2 helicases that, similar to SF1, do not form toroidal structures like SF3-6 helicases. Their helicase core consists of two similar protein domains that resemble the fold of the recombination protein RecA. This model describes the C-terminal domain, also called HelicC.


Pssm-ID: 350174 [Multi-domain]  Cd Length: 131  Bit Score: 162.68  E-value: 1.02e-48
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1907165828  95 LENHYMICKADEKFNQL-VHFLRSRQQEKHLVFFSTCACVEYYGKALEALlkKVKILCIHGKMKYK-RNKIFMEFRKLQS 172
Cdd:cd18787     1 IKQLYVVVEEEEKKLLLlLLLLEKLKPGKAIIFVNTKKRVDRLAELLEEL--GIKVAALHGDLSQEeRERALKKFRSGKV 78

                          90       100       110       120       130
                  ....*....|....*....|....*....|....*....|....*....|...
gi 1907165828 173 GILVCTDVMARGIDIPEVNWVLQYDPPSNASAFVHRCGRTARIGHGGSALVFL 225
Cdd:cd18787    79 RVLVATDVAARGLDIPGVDHVINYDLPRDAEDYVHRIGRTGRAGRKGTAITFV 131
DEADc_DDX55 cd17960
DEAD-box helicase domain of DEAD box protein 55; DDX55 is a member of the DEAD-box helicases, ...
 1-77 1.84e-40

DEAD-box helicase domain of DEAD box protein 55; DDX55 is a member of the DEAD-box helicases, a diverse family of proteins involved in ATP-dependent RNA unwinding, needed in a variety of cellular processes including splicing, ribosome biogenesis and RNA degradation. The name derives from the sequence of the Walker B motif (motif II). This domain contains the ATP-binding region.


Pssm-ID: 350718 [Multi-domain]  Cd Length: 202  Bit Score: 143.49  E-value: 1.84e-40
                          10        20        30        40        50        60        70
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*..
gi 1907165828   1 MFRRKAEgldlASCVKSLDVLVLDEADRLLDMGFEASINTILEFLPKQRRTGLFSATQTQEVENLVRAGLRNPVRIS 77
Cdd:cd17960   130 LLSRKAD----KVKVKSLEVLVLDEADRLLDLGFEADLNRILSKLPKQRRTGLFSATQTDAVEELIKAGLRNPVRVV 202
PRK11776 PRK11776
ATP-dependent RNA helicase DbpA; Provisional
 9-245 4.24e-38

ATP-dependent RNA helicase DbpA; Provisional


Pssm-ID: 236977 [Multi-domain]  Cd Length: 460  Bit Score: 143.79  E-value: 4.24e-38
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1907165828   9 LDLAScvksLDVLVLDEADRLLDMGFEASINTILEFLPKQRRTGLFSATQTQEVENLVRAGLRNPVRISVKekgvaasST 88
Cdd:PRK11776  143 LDLDA----LNTLVLDEADRMLDMGFQDAIDAIIRQAPARRQTLLFSATYPEGIAAISQRFQRDPVEVKVE-------ST 211

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1907165828  89 QKTPSrLENHYMICKADEKFNQLVHFLRSRQQEKHLVFFSTCA-CVEYYgKALEAllKKVKILCIHGKM-KYKRNKIFME 166
Cdd:PRK11776  212 HDLPA-IEQRFYEVSPDERLPALQRLLLHHQPESCVVFCNTKKeCQEVA-DALNA--QGFSALALHGDLeQRDRDQVLVR 287

                         170       180       190       200       210       220       230
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....
gi 1907165828 167 FRKLQSGILVCTDVMARGIDIPEVNWVLQYDPPSNASAFVHRCGRTARIGHGGSALVFLLPMEEAYINFLAINQKCPLQ 245
Cdd:PRK11776  288 FANRSCSVLVATDVAARGLDIKALEAVINYELARDPEVHVHRIGRTGRAGSKGLALSLVAPEEMQRANAIEDYLGRKLN 366
PTZ00110 PTZ00110
helicase; Provisional
 21-227 1.01e-36

helicase; Provisional


Pssm-ID: 240273 [Multi-domain]  Cd Length: 545  Bit Score: 141.45  E-value: 1.01e-36
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1907165828  21 LVLDEADRLLDMGFEASINTILEFLPKQRRTGLFSATQTQEVENLVRAGLRN-PVRISVkekgvaASSTQKTPSRLENHY 99
Cdd:PTZ00110  281 LVLDEADRMLDMGFEPQIRKIVSQIRPDRQTLMWSATWPKEVQSLARDLCKEePVHVNV------GSLDLTACHNIKQEV 354

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1907165828 100 MICKADEKFNQLVHFLRS--RQQEKHLVFFSTCACVEYYGKALEalLKKVKILCIHG-KMKYKRNKIFMEFRKLQSGILV 176
Cdd:PTZ00110  355 FVVEEHEKRGKLKMLLQRimRDGDKILIFVETKKGADFLTKELR--LDGWPALCIHGdKKQEERTWVLNEFKTGKSPIMI 432

                         170       180       190       200       210
                  ....*....|....*....|....*....|....*....|....*....|.
gi 1907165828 177 CTDVMARGIDIPEVNWVLQYDPPSNASAFVHRCGRTARIGHGGSALVFLLP 227
Cdd:PTZ00110  433 ATDVASRGLDVKDVKYVINFDFPNQIEDYVHRIGRTGRAGAKGASYTFLTP 483
PRK11192 PRK11192
ATP-dependent RNA helicase SrmB; Provisional
 16-221 9.95e-33

ATP-dependent RNA helicase SrmB; Provisional


Pssm-ID: 236877 [Multi-domain]  Cd Length: 434  Bit Score: 128.52  E-value: 9.95e-33
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1907165828  16 KSLDVLVLDEADRLLDMGFEASINTILEFLPKQRRTGLFSATQTQE-VENLVRAGLRNPVRISVKekgvaasstqktPSR 94
Cdd:PRK11192  146 RAVETLILDEADRMLDMGFAQDIETIAAETRWRKQTLLFSATLEGDaVQDFAERLLNDPVEVEAE------------PSR 213

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1907165828  95 LEN---HYMICKADE---KFNQLVHFLRSRQQEKHLVFFSTCACVEYygkaLEALLKKVKILC--IHGKM-KYKRNKIFM 165
Cdd:PRK11192  214 RERkkiHQWYYRADDlehKTALLCHLLKQPEVTRSIVFVRTRERVHE----LAGWLRKAGINCcyLEGEMvQAKRNEAIK 289

                         170       180       190       200       210
                  ....*....|....*....|....*....|....*....|....*....|....*.
gi 1907165828 166 EFRKLQSGILVCTDVMARGIDIPEVNWVLQYDPPSNASAFVHRCGRTARIGHGGSA 221
Cdd:PRK11192  290 RLTDGRVNVLVATDVAARGIDIDDVSHVINFDMPRSADTYLHRIGRTGRAGRKGTA 345
PRK04537 PRK04537
ATP-dependent RNA helicase RhlB; Provisional
 19-248 1.97e-32

ATP-dependent RNA helicase RhlB; Provisional


Pssm-ID: 235307 [Multi-domain]  Cd Length: 572  Bit Score: 129.69  E-value: 1.97e-32
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1907165828  19 DVLVLDEADRLLDMGFEASINTILEFLPKQ--RRTGLFSATQTQEVENLVRAGLRNPvrisvkEKGVAASSTqKTPSRLE 96
Cdd:PRK04537  161 EICVLDEADRMFDLGFIKDIRFLLRRMPERgtRQTLLFSATLSHRVLELAYEHMNEP------EKLVVETET-ITAARVR 233

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1907165828  97 NHYMICKADEKFNQLVHFLRSRQQEKHLVFFSTCACVEYYGKALEALLKKVKILCIHGKMKyKRNKIFMEFRKLQSGILV 176
Cdd:PRK04537  234 QRIYFPADEEKQTLLLGLLSRSEGARTMVFVNTKAFVERVARTLERHGYRVGVLSGDVPQK-KRESLLNRFQKGQLEILV 312

                         170       180       190       200       210       220       230
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....
gi 1907165828 177 CTDVMARGIDIPEVNWVLQYDPPSNASAFVHRCGRTARIGHGGSALVFL-------LPMEEAYinflaINQKCPLQEMS 248
Cdd:PRK04537  313 ATDVAARGLHIDGVKYVYNYDLPFDAEDYVHRIGRTARLGEEGDAISFAceryamsLPDIEAY-----IEQKIPVEPVT 386
PTZ00424 PTZ00424
helicase 45; Provisional
 15-229 6.16e-28

helicase 45; Provisional


Pssm-ID: 185609 [Multi-domain]  Cd Length: 401  Bit Score: 114.54  E-value: 6.16e-28
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1907165828  15 VKSLDVLVLDEADRLLDMGFEASINTILEFLPKQRRTGLFSATQTQEVENLVRAGLRNPVRISVKEKgvaasstQKTPSR 94
Cdd:PTZ00424  168 VDDLKLFILDEADEMLSRGFKGQIYDVFKKLPPDVQVALFSATMPNEILELTTKFMRDPKRILVKKD-------ELTLEG 240

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1907165828  95 LENHYMICKADE-KFNQLVHFLRSRQQEKHLVFFSTCACVEYYGKALEAllKKVKILCIHGKMKYK-RNKIFMEFRKLQS 172
Cdd:PTZ00424  241 IRQFYVAVEKEEwKFDTLCDLYETLTITQAIIYCNTRRKVDYLTKKMHE--RDFTVSCMHGDMDQKdRDLIMREFRSGST 318

                         170       180       190       200       210
                  ....*....|....*....|....*....|....*....|....*....|....*..
gi 1907165828 173 GILVCTDVMARGIDIPEVNWVLQYDPPSNASAFVHRCGRTARIGHGGSALVFLLPME 229
Cdd:PTZ00424  319 RVLITTDLLARGIDVQQVSLVINYDLPASPENYIHRIGRSGRFGRKGVAINFVTPDD 375
Helicase_C pfam00271
Helicase conserved C-terminal domain; The Prosite family is restricted to DEAD/H helicases, ...
 106-216 7.07e-28

Helicase conserved C-terminal domain; The Prosite family is restricted to DEAD/H helicases, whereas this domain family is found in a wide variety of helicases and helicase related proteins. It may be that this is not an autonomously folding unit, but an integral part of the helicase.


Pssm-ID: 459740 [Multi-domain]  Cd Length: 109  Bit Score: 106.53  E-value: 7.07e-28
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1907165828 106 EKFNQLVHFLRSRQQEKHLVFFSTCACVEyygkaLEALLKK--VKILCIHGKMKYK-RNKIFMEFRKLQSGILVCTDVMA 182
Cdd:pfam00271   1 EKLEALLELLKKERGGKVLIFSQTKKTLE-----AELLLEKegIKVARLHGDLSQEeREEILEDFRKGKIDVLVATDVAE 75

                          90       100       110
                  ....*....|....*....|....*....|....
gi 1907165828 183 RGIDIPEVNWVLQYDPPSNASAFVHRCGRTARIG 216
Cdd:pfam00271  76 RGLDLPDVDLVINYDLPWNPASYIQRIGRAGRAG 109
PRK01297 PRK01297
ATP-dependent RNA helicase RhlB; Provisional
 18-225 1.57e-27

ATP-dependent RNA helicase RhlB; Provisional


Pssm-ID: 234938 [Multi-domain]  Cd Length: 475  Bit Score: 114.62  E-value: 1.57e-27
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1907165828  18 LDVLVLDEADRLLDMGFEASINTILEFLPK--QRRTGLFSATQTQEVENLVRAGLRNPVRISVKEKGVAASStqktpsrL 95
Cdd:PRK01297  238 VEVMVLDEADRMLDMGFIPQVRQIIRQTPRkeERQTLLFSATFTDDVMNLAKQWTTDPAIVEIEPENVASDT-------V 310

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1907165828  96 ENH-YMICKADeKFNQLVHFLRSRQQEKHLVFFSTCACVeyygKALEALLKK--VKILCIHGKM-KYKRNKIFMEFRKLQ 171
Cdd:PRK01297  311 EQHvYAVAGSD-KYKLLYNLVTQNPWERVMVFANRKDEV----RRIEERLVKdgINAAQLSGDVpQHKRIKTLEGFREGK 385

                         170       180       190       200       210
                  ....*....|....*....|....*....|....*....|....*....|....
gi 1907165828 172 SGILVCTDVMARGIDIPEVNWVLQYDPPSNASAFVHRCGRTARIGHGGSALVFL 225
Cdd:PRK01297  386 IRVLVATDVAGRGIHIDGISHVINFTLPEDPDDYVHRIGRTGRAGASGVSISFA 439
PRK10590 PRK10590
ATP-dependent RNA helicase RhlE; Provisional
 18-222 1.91e-25

ATP-dependent RNA helicase RhlE; Provisional


Pssm-ID: 236722 [Multi-domain]  Cd Length: 456  Bit Score: 108.36  E-value: 1.91e-25
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1907165828  18 LDVLVLDEADRLLDMGFEASINTILEFLPKQRRTGLFSATQTQEVENLVRAGLRNPVRISVKEKGVAAsstqktpSRLEN 97
Cdd:PRK10590  150 VEILVLDEADRMLDMGFIHDIRRVLAKLPAKRQNLLFSATFSDDIKALAEKLLHNPLEIEVARRNTAS-------EQVTQ 222

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1907165828  98 HYMICKADEKFNQLVHFLRSRQQEKHLVFFSTcacvEYYGKALEALLKK--VKILCIHG-KMKYKRNKIFMEFRKLQSGI 174
Cdd:PRK10590  223 HVHFVDKKRKRELLSQMIGKGNWQQVLVFTRT----KHGANHLAEQLNKdgIRSAAIHGnKSQGARTRALADFKSGDIRV 298

                         170       180       190       200
                  ....*....|....*....|....*....|....*....|....*...
gi 1907165828 175 LVCTDVMARGIDIPEVNWVLQYDPPSNASAFVHRCGRTARIGHGGSAL 222
Cdd:PRK10590  299 LVATDIAARGLDIEELPHVVNYELPNVPEDYVHRIGRTGRAAATGEAL 346
PRK04837 PRK04837
ATP-dependent RNA helicase RhlB; Provisional
 15-234 3.50e-25

ATP-dependent RNA helicase RhlB; Provisional


Pssm-ID: 235314 [Multi-domain]  Cd Length: 423  Bit Score: 106.98  E-value: 3.50e-25
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1907165828  15 VKSLDVLVLDEADRLLDMGFEASINTILEFLP--KQRRTGLFSATQTQEVENLVRAGLRNPVRISVKEKgvaasstQKTP 92
Cdd:PRK04837  155 LGAIQVVVLDEADRMFDLGFIKDIRWLFRRMPpaNQRLNMLFSATLSYRVRELAFEHMNNPEYVEVEPE-------QKTG 227

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1907165828  93 SRLENHYMICKADEKFNQLVHFLRSRQQEKHLVFFST-CACVEYYGKaLEALLKKVKILCIHGKMKyKRNKIFMEFRKLQ 171
Cdd:PRK04837  228 HRIKEELFYPSNEEKMRLLQTLIEEEWPDRAIIFANTkHRCEEIWGH-LAADGHRVGLLTGDVAQK-KRLRILEEFTRGD 305

                         170       180       190       200       210       220       230
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1907165828 172 SGILVCTDVMARGIDIPEVNWVLQYDPPSNASAFVHRCGRTARIGHGGSALVFL-------LPMEEAYIN 234
Cdd:PRK04837  306 LDILVATDVAARGLHIPAVTHVFNYDLPDDCEDYVHRIGRTGRAGASGHSISLAceeyalnLPAIETYIG 375
DEADc_DDX47 cd17954
DEAD-box helicase domain of DEAD box protein 47; DDX47 (also called E4-DEAD box protein) can ...
 16-77 2.42e-23

DEAD-box helicase domain of DEAD box protein 47; DDX47 (also called E4-DEAD box protein) can shuttle between the nucleus and the cytoplasm, and has an RNA-independent ATPase activity. DX47 is a member of the DEAD-box helicases, a diverse family of proteins involved in ATP-dependent RNA unwinding, needed in a variety of cellular processes including splicing, ribosome biogenesis and RNA degradation. The name derives from the sequence of the Walker B motif (motif II). This domain contains the ATP-binding region.


Pssm-ID: 350712 [Multi-domain]  Cd Length: 203  Bit Score: 97.00  E-value: 2.42e-23
                          10        20        30        40        50        60
                  ....*....|....*....|....*....|....*....|....*....|....*....|..
gi 1907165828  16 KSLDVLVLDEADRLLDMGFEASINTILEFLPKQRRTGLFSATQTQEVENLVRAGLRNPVRIS 77
Cdd:cd17954   142 KSLKFLVMDEADRLLNMDFEPEIDKILKVIPRERTTYLFSATMTTKVAKLQRASLKNPVKIE 203
PRK11634 PRK11634
ATP-dependent RNA helicase DeaD; Provisional
 9-225 2.73e-23

ATP-dependent RNA helicase DeaD; Provisional


Pssm-ID: 236941 [Multi-domain]  Cd Length: 629  Bit Score: 102.62  E-value: 2.73e-23
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1907165828   9 LDLAScvksLDVLVLDEADRLLDMGFEASINTILEFLPKQRRTGLFSATQTQEVENLVRAGLRNP--VRISvkekgvaaS 86
Cdd:PRK11634  145 LDLSK----LSGLVLDEADEMLRMGFIEDVETIMAQIPEGHQTALFSATMPEAIRRITRRFMKEPqeVRIQ--------S 212

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1907165828  87 STQKTPSrLENHYMICKADEKFNQLVHFLRSRQQEKHLVFFSTCACVEYYGKALEalLKKVKILCIHGKMkykrNKIFME 166
Cdd:PRK11634  213 SVTTRPD-ISQSYWTVWGMRKNEALVRFLEAEDFDAAIIFVRTKNATLEVAEALE--RNGYNSAALNGDM----NQALRE 285

                         170       180       190       200       210       220
                  ....*....|....*....|....*....|....*....|....*....|....*....|....
gi 1907165828 167 --FRKLQSG---ILVCTDVMARGIDIPEVNWVLQYDPPSNASAFVHRCGRTARIGHGGSALVFL 225
Cdd:PRK11634  286 qtLERLKDGrldILIATDVAARGLDVERISLVVNYDIPMDSESYVHRIGRTGRAGRAGRALLFV 349
HELICc smart00490
helicase superfamily c-terminal domain;
140-216 4.42e-23

helicase superfamily c-terminal domain;


Pssm-ID: 197757 [Multi-domain]  Cd Length: 82  Bit Score: 92.66  E-value: 4.42e-23
                           10        20        30        40        50        60        70        80
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1907165828  140 LEALLKK--VKILCIHGKMKYK-RNKIFMEFRKLQSGILVCTDVMARGIDIPEVNWVLQYDPPSNASAFVHRCGRTARIG 216
Cdd:smart00490   3 LAELLKElgIKVARLHGGLSQEeREEILDKFNNGKIKVLVATDVAERGLDLPGVDLVIIYDLPWSPASYIQRIGRAGRAG 82
DEADc_DDX10 cd17941
DEAD-box helicase domain of DEAD box protein 10; Fusion of the DDX10 gene and the nucleoporin ...
 18-78 5.91e-22

DEAD-box helicase domain of DEAD box protein 10; Fusion of the DDX10 gene and the nucleoporin gene, NUP98, by inversion 11 (p15q22) chromosome translocation is found in the patients with de novo or therapy-related myeloid malignancies. Diseases associated with DDX10 (also known as DDX10-NUP98 Fusion Protein Type 2) include myelodysplastic syndrome and leukemia, acute myeloid. DDX10 is a member of the DEAD-box helicases, a diverse family of proteins involved in ATP-dependent RNA unwinding, needed in a variety of cellular processes including splicing, ribosome biogenesis and RNA degradation. The name derives from the sequence of the Walker B motif (motif II). This domain contains the ATP-binding region.


Pssm-ID: 350699 [Multi-domain]  Cd Length: 198  Bit Score: 93.12  E-value: 5.91e-22
                          10        20        30        40        50        60
                  ....*....|....*....|....*....|....*....|....*....|....*....|.
gi 1907165828  18 LDVLVLDEADRLLDMGFEASINTILEFLPKQRRTGLFSATQTQEVENLVRAGLRNPVRISV 78
Cdd:cd17941   137 LQMLVLDEADRILDMGFKETLDAIVENLPKSRQTLLFSATQTKSVKDLARLSLKNPEYISV 197
DEADc cd00268
DEAD-box helicase domain of DEAD box helicases; DEAD-box helicases comprise a diverse family ...
 1-77 2.23e-21

DEAD-box helicase domain of DEAD box helicases; DEAD-box helicases comprise a diverse family of proteins involved in ATP-dependent RNA unwinding, needed in a variety of cellular processes including splicing, ribosome biogenesis and RNA degradation. The name derives from the sequence of the Walker B motif (motif II). This domain contains the ATP-binding region.


Pssm-ID: 350669 [Multi-domain]  Cd Length: 196  Bit Score: 91.35  E-value: 2.23e-21
                          10        20        30        40        50        60        70
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*..
gi 1907165828   1 MFRRKAegLDLascvKSLDVLVLDEADRLLDMGFEASINTILEFLPKQRRTGLFSATQTQEVENLVRAGLRNPVRIS 77
Cdd:cd00268   126 LIERGK--LDL----SNVKYLVLDEADRMLDMGFEEDVEKILSALPKDRQTLLFSATLPEEVKELAKKFLKNPVRIE 196
DUF4217 pfam13959
Domain of unknown function (DUF4217); This short domain is found at the C-terminus of many ...
 258-315 2.46e-21

Domain of unknown function (DUF4217); This short domain is found at the C-terminus of many helicase proteins.


Pssm-ID: 464056 [Multi-domain]  Cd Length: 59  Bit Score: 87.07  E-value: 2.46e-21
                          10        20        30        40        50
                  ....*....|....*....|....*....|....*....|....*....|....*...
gi 1907165828 258 PKLRAMALADRAVFEKGMKAFVSFVQAYAKHECSLIFRLKDLDFAGLARGFALLRMPR 315
Cdd:pfam13959   2 LQLEKLVLKDRELKELAQKAFVSYVRAYSKHLAKSIFNVKKLDLGHLAKSFGLLRAPK 59
DEADc_DDX27 cd17947
DEAD-box helicase domain of DEAD box protein 27; DDX27 (also called RHLP, deficiency of ...
 15-77 4.49e-21

DEAD-box helicase domain of DEAD box protein 27; DDX27 (also called RHLP, deficiency of ribosomal subunits protein 1 homolog, and probable ATP-dependent RNA helicase DDX27) is involved in the processing of 5.8S and 28S ribosomal RNAs. More specifically, the encoded protein localizes to the nucleolus, where it interacts with the PeBoW complex to ensure proper 3' end formation of 47S rRNA. DDX27 is a member of the DEAD-box helicases, a diverse family of proteins involved in ATP-dependent RNA unwinding, needed in a variety of cellular processes including splicing, ribosome biogenesis and RNA degradation. The name derives from the sequence of the Walker B motif (motif II). This domain contains the ATP-binding region.


Pssm-ID: 350705 [Multi-domain]  Cd Length: 196  Bit Score: 90.78  E-value: 4.49e-21
                          10        20        30        40        50        60
                  ....*....|....*....|....*....|....*....|....*....|....*....|...
gi 1907165828  15 VKSLDVLVLDEADRLLDMGFEASINTILEFLPKQRRTGLFSATQTQEVENLVRAGLRNPVRIS 77
Cdd:cd17947   134 LDSIEILVLDEADRMLEEGFADELKEILRLCPRTRQTMLFSATMTDEVKDLAKLSLNKPVRVF 196
PLN00206 PLN00206
DEAD-box ATP-dependent RNA helicase; Provisional
 20-225 8.66e-19

DEAD-box ATP-dependent RNA helicase; Provisional


Pssm-ID: 215103 [Multi-domain]  Cd Length: 518  Bit Score: 88.69  E-value: 8.66e-19
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1907165828  20 VLVLDEADRLLDMGFEASINTILEFLPkQRRTGLFSATQTQEVENLVRAGLRNPVRISVKEKGVAASSTQKTPSRLEnhy 99
Cdd:PLN00206  273 VLVLDEVDCMLERGFRDQVMQIFQALS-QPQVLLFSATVSPEVEKFASSLAKDIILISIGNPNRPNKAVKQLAIWVE--- 348

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1907165828 100 mickADEKFNQLVHFLRSRQQEK--HLVFFSTCACVEYYGKALeALLKKVKILCIHGK--MKyKRNKIFMEFRKLQSGIL 175
Cdd:PLN00206  349 ----TKQKKQKLFDILKSKQHFKppAVVFVSSRLGADLLANAI-TVVTGLKALSIHGEksMK-ERREVMKSFLVGEVPVI 422

                         170       180       190       200       210
                  ....*....|....*....|....*....|....*....|....*....|
gi 1907165828 176 VCTDVMARGIDIPEVNWVLQYDPPSNASAFVHRCGRTARIGHGGSALVFL 225
Cdd:PLN00206  423 VATGVLGRGVDLLRVRQVIIFDMPNTIKEYIHQIGRASRMGEKGTAIVFV 472
DEADc_DDX18 cd17942
DEAD-box helicase domain of DEAD box protein 18; This DDX18 gene encodes a DEAD box protein ...
 15-73 4.73e-17

DEAD-box helicase domain of DEAD box protein 18; This DDX18 gene encodes a DEAD box protein and is activated by Myc protein. DDX18 is a member of the DEAD-box helicases, a diverse family of proteins involved in ATP-dependent RNA unwinding, needed in a variety of cellular processes including splicing, ribosome biogenesis and RNA degradation. The name derives from the sequence of the Walker B motif (motif II). This domain contains the ATP-binding region.


Pssm-ID: 350700 [Multi-domain]  Cd Length: 198  Bit Score: 79.33  E-value: 4.73e-17
                          10        20        30        40        50
                  ....*....|....*....|....*....|....*....|....*....|....*....
gi 1907165828  15 VKSLDVLVLDEADRLLDMGFEASINTILEFLPKQRRTGLFSATQTQEVENLVRAGLRNP 73
Cdd:cd17942   135 YKNLQCLIIDEADRILEIGFEEEMRQIIKLLPKRRQTMLFSATQTRKVEDLARISLKKK 193
DEADc_MSS116 cd17964
DEAD-box helicase domain of DEAD-box helicase Mss116; Mss116 is an RNA chaperone important for ...
 16-71 2.11e-15

DEAD-box helicase domain of DEAD-box helicase Mss116; Mss116 is an RNA chaperone important for mitochondrial group I and II intron splicing, translational activation, and RNA end processing. Mss116 is a member of the DEAD-box helicases, a diverse family of proteins involved in ATP-dependent RNA unwinding, needed in a variety of cellular processes including splicing, ribosome biogenesis and RNA degradation. The name derives from the sequence of the Walker B motif (motif II). This domain contains the ATP-binding region.


Pssm-ID: 350722 [Multi-domain]  Cd Length: 211  Bit Score: 74.93  E-value: 2.11e-15
                          10        20        30        40        50        60
                  ....*....|....*....|....*....|....*....|....*....|....*....|
gi 1907165828  16 KSLDVLVLDEADRLLDMGFEASINTILEFLPK----QRRTGLFSATQTQEVENLVRAGLR 71
Cdd:cd17964   145 TDLDYLVLDEADRLLDMGFRPDLEQILRHLPEknadPRQTLLFSATVPDEVQQIARLTLK 204
DEADc_DDX54 cd17959
DEAD-box helicase domain of DEAD box protein 54; DDX54 interacts in a hormone-dependent manner ...
 8-76 7.10e-14

DEAD-box helicase domain of DEAD box protein 54; DDX54 interacts in a hormone-dependent manner with nuclear receptors, and represses their transcriptional activity. DDX54 is a member of the DEAD-box helicases, a diverse family of proteins involved in ATP-dependent RNA unwinding, needed in a variety of cellular processes including splicing, ribosome biogenesis and RNA degradation. The name derives from the sequence of the Walker B motif (motif II). This domain contains the ATP-binding region.


Pssm-ID: 350717 [Multi-domain]  Cd Length: 205  Bit Score: 70.41  E-value: 7.10e-14
                          10        20        30        40        50        60
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....
gi 1907165828   8 GLDLascvKSLDVLVLDEADRLLDMGFEASINTILEFLPKQRRTGLFSATQTQEVENLVRAGLRNPVRI 76
Cdd:cd17959   140 NLKL----SSVEYVVFDEADRLFEMGFAEQLHEILSRLPENRQTLLFSATLPKLLVEFAKAGLNEPVLI 204
DEADc_DDX31 cd17949
DEAD-box helicase domain of DEAD box protein 31; DDX31 (also called helicain or G2 helicase) ...
 15-77 9.31e-14

DEAD-box helicase domain of DEAD box protein 31; DDX31 (also called helicain or G2 helicase) plays a role in ribosome biogenesis and TP53/p53 regulation through its interaction with NPM1. DDX31 is a member of the DEAD-box helicases, a diverse family of proteins involved in ATP-dependent RNA unwinding, needed in a variety of cellular processes including splicing, ribosome biogenesis and RNA degradation. The name derives from the sequence of the Walker B motif (motif II). This domain contains the ATP-binding region.


Pssm-ID: 350707 [Multi-domain]  Cd Length: 214  Bit Score: 69.92  E-value: 9.31e-14
                          10        20        30        40        50        60        70
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*.
gi 1907165828  15 VKSLDVLVLDEADRLLDMGFEASINTILEFL-------------PKQRRTGLFSATQTQEVENLVRAGLRNPVRIS 77
Cdd:cd17949   139 VSNLRWLVLDEADRLLDMGFEKDITKILELLddkrskaggekskPSRRQTVLVSATLTDGVKRLAGLSLKDPVYID 214
DEAD pfam00270
DEAD/DEAH box helicase; Members of this family include the DEAD and DEAH box helicases. ...
 9-65 9.85e-14

DEAD/DEAH box helicase; Members of this family include the DEAD and DEAH box helicases. Helicases are involved in unwinding nucleic acids. The DEAD box helicases are involved in various aspects of RNA metabolism, including nuclear transcription, pre mRNA splicing, ribosome biogenesis, nucleocytoplasmic transport, translation, RNA decay and organellar gene expression.


Pssm-ID: 425570 [Multi-domain]  Cd Length: 165  Bit Score: 68.81  E-value: 9.85e-14
                          10        20        30        40        50
                  ....*....|....*....|....*....|....*....|....*....|....*..
gi 1907165828   9 LDLASCVKSLDVLVLDEADRLLDMGFEASINTILEFLPKQRRTGLFSATQTQEVENL 65
Cdd:pfam00270 109 LQERKLLKNLKLLVLDEAHRLLDMGFGPDLEEILRRLPKKRQILLLSATLPRNLEDL 165
DEADc_DDX41 cd17951
DEAD-box helicase domain of DEAD box protein 41; DDX41 (also called ABS and MPLPF) interacts ...
 17-76 1.87e-13

DEAD-box helicase domain of DEAD box protein 41; DDX41 (also called ABS and MPLPF) interacts with several spliceosomal proteins and may recognize the bacterial second messengers cyclic di-GMP and cyclic di-AMP, resulting in the induction of genes involved in the innate immune response. Diseases associated with DDX41 include "myeloproliferative/lymphoproliferative neoplasms, familial" and "Ddx41-related susceptibility to familial myeloproliferative/lymphoproliferative neoplasms". DDX41 is a member of the DEAD-box helicases, a diverse family of proteins involved in ATP-dependent RNA unwinding, needed in a variety of cellular processes including splicing, ribosome biogenesis and RNA degradation. The name derives from the sequence of the Walker B motif (motif II). This domain contains the ATP-binding region.


Pssm-ID: 350709 [Multi-domain]  Cd Length: 206  Bit Score: 68.90  E-value: 1.87e-13
                          10        20        30        40        50        60
                  ....*....|....*....|....*....|....*....|....*....|....*....|...
gi 1907165828  17 SLDV---LVLDEADRLLDMGFEASINTILEFLPKQRRTGLFSATQTQEVENLVRAGLRNPVRI 76
Cdd:cd17951   143 NLDIcryLCLDEADRMIDMGFEEDIRTIFSYFKGQRQTLLFSATMPKKIQNFAKSALVKPVTV 205
DEADc_DDX49 cd17955
DEAD-box helicase domain of DEAD box protein 49; DDX49 (also called Dbp8) is a member of the ...
 10-74 2.32e-13

DEAD-box helicase domain of DEAD box protein 49; DDX49 (also called Dbp8) is a member of the DEAD-box helicases, a diverse family of proteins involved in ATP-dependent RNA unwinding, needed in a variety of cellular processes including splicing, ribosome biogenesis and RNA degradation. The name derives from the sequence of the Walker B motif (motif II). This domain contains the ATP-binding region.


Pssm-ID: 350713 [Multi-domain]  Cd Length: 204  Bit Score: 68.79  E-value: 2.32e-13
                          10        20        30        40        50        60
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*
gi 1907165828  10 DLASCVKSLDVLVLDEADRLLDMGFEASINTILEFLPKQRRTGLFSATQTQEVENLVRAGLRNPV 74
Cdd:cd17955   137 DTTKVLSRVKFLVLDEADRLLTGSFEDDLATILSALPPKRQTLLFSATLTDALKALKELFGNKPF 201
DEXDc smart00487
DEAD-like helicases superfamily;
15-81 2.96e-13

DEAD-like helicases superfamily;


Pssm-ID: 214692 [Multi-domain]  Cd Length: 201  Bit Score: 68.29  E-value: 2.96e-13
                           10        20        30        40        50        60
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*..
gi 1907165828   15 VKSLDVLVLDEADRLLDMGFEASINTILEFLPKQRRTGLFSATQTQEVENLVRAGLRNPVRISVKEK 81
Cdd:smart00487 127 LSNVDLVILDEAHRLLDGGFGDQLEKLLKLLPKNVQLLLLSATPPEEIENLLELFLNDPVFIDVGFT 193
DEADc_EIF4A cd17939
DEAD-box helicase domain of eukaryotic initiation factor 4A; The eukaryotic initiation ...
 14-76 6.89e-13

DEAD-box helicase domain of eukaryotic initiation factor 4A; The eukaryotic initiation factor-4A (eIF4A) family consists of 3 proteins EIF4A1, EIF4A2, and EIF4A3. These factors are required for the binding of mRNA to 40S ribosomal subunits. In addition these proteins are helicases that function to unwind double-stranded RNA. EIF4A proteins are members of the DEAD-box helicases, a diverse family of proteins involved in ATP-dependent RNA unwinding, needed in a variety of cellular processes including splicing, ribosome biogenesis and RNA degradation. The name derives from the sequence of the Walker B motif (motif II). This domain contains the ATP-binding region.


Pssm-ID: 350697 [Multi-domain]  Cd Length: 199  Bit Score: 67.35  E-value: 6.89e-13
                          10        20        30        40        50        60
                  ....*....|....*....|....*....|....*....|....*....|....*....|...
gi 1907165828  14 CVKSLDVLVLDEADRLLDMGFEASINTILEFLPKQRRTGLFSATQTQEVENLVRAGLRNPVRI 76
Cdd:cd17939   136 RTDKIKMFVLDEADEMLSRGFKDQIYDIFQFLPPETQVVLFSATMPHEVLEVTKKFMRDPVRI 198
DEADc_DDX23 cd17945
DEAD-box helicase domain of DEAD box protein 23; DDX23 (also called U5 snRNP 100kD protein and ...
 21-77 7.52e-13

DEAD-box helicase domain of DEAD box protein 23; DDX23 (also called U5 snRNP 100kD protein and PRP28 homolog) is involved in pre-mRNA splicing and its phosphorylated form (by SRPK2) is required for spliceosomal B complex formation. Diseases associated with DDX23 include distal hereditary motor neuropathy, type II. DDX23 is a member of the DEAD-box helicases, a diverse family of proteins involved in ATP-dependent RNA unwinding, needed in a variety of cellular processes including splicing, ribosome biogenesis and RNA degradation. The name derives from the sequence of the Walker B motif (motif II). This domain contains the ATP-binding region.


Pssm-ID: 350703 [Multi-domain]  Cd Length: 220  Bit Score: 67.73  E-value: 7.52e-13
                          10        20        30        40        50        60        70
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*..
gi 1907165828  21 LVLDEADRLLDMGFEASINTILEFLP--------------------KQRRTGLFSATQTQEVENLVRAGLRNPVRIS 77
Cdd:cd17945   144 VVLDEADRMIDMGFEPQVTKILDAMPvsnkkpdteeaeklaasgkhRYRQTMMFTATMPPAVEKIAKGYLRRPVVVT 220
DEADc_DDX5_DDX17 cd17966
DEAD-box helicase domain of ATP-dependent RNA helicases DDX5 and DDX17; DDX5 and DDX17 are ...
 21-77 8.01e-13

DEAD-box helicase domain of ATP-dependent RNA helicases DDX5 and DDX17; DDX5 and DDX17 are members of the DEAD-box helicases, a diverse family of proteins involved in ATP-dependent RNA unwinding, needed in a variety of cellular processes including splicing, ribosome biogenesis and RNA degradation. The name derives from the sequence of the Walker B motif (motif II). This domain contains the ATP-binding region.


Pssm-ID: 350724 [Multi-domain]  Cd Length: 197  Bit Score: 67.01  E-value: 8.01e-13
                          10        20        30        40        50
                  ....*....|....*....|....*....|....*....|....*....|....*..
gi 1907165828  21 LVLDEADRLLDMGFEASINTILEFLPKQRRTGLFSATQTQEVENLVRAGLRNPVRIS 77
Cdd:cd17966   141 LVLDEADRMLDMGFEPQIRKIVDQIRPDRQTLMWSATWPKEVRRLAEDFLKDYIQVN 197
DEADc_DDX52 cd17957
DEAD-box helicase domain of DEAD box protein 52; DDX52 (also called ROK1 and HUSSY19) is ...
 5-78 8.16e-13

DEAD-box helicase domain of DEAD box protein 52; DDX52 (also called ROK1 and HUSSY19) is ubiquitously expressed in testis, endometrium, and other tissues in humans. DDX52 is a member of the DEAD-box helicases, a diverse family of proteins involved in ATP-dependent RNA unwinding, needed in a variety of cellular processes including splicing, ribosome biogenesis and RNA degradation. The name derives from the sequence of the Walker B motif (motif II). This domain contains the ATP-binding region.


Pssm-ID: 350715 [Multi-domain]  Cd Length: 198  Bit Score: 66.84  E-value: 8.16e-13
                          10        20        30        40        50        60        70
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*
gi 1907165828   5 KAEGLDLAScvksLDVLVLDEADRLLDMGFEASINTILEFLP-KQRRTGLFSATQTQEVENLVRAGLRNPVRISV 78
Cdd:cd17957   127 KQGPIDLSS----VEYLVLDEADKLFEPGFREQTDEILAACTnPNLQRSLFSATIPSEVEELARSVMKDPIRIIV 197
DEADc_DDX3_DDX4 cd17967
DEAD-box helicase domain of ATP-dependent RNA helicases DDX3 and DDX4; This subfamily includes ...
 21-78 1.72e-12

DEAD-box helicase domain of ATP-dependent RNA helicases DDX3 and DDX4; This subfamily includes Drosophila melanogaster Vasa, which is essential for development. DEAD box protein 3 (DDX3) has been reported to display a high level of RNA-independent ATPase activity stimulated by both RNA and DNA. DEAD box protein 4 (DDX4, also known as VASA homolog) is an ATP-dependent RNA helicase required during spermatogenesis and is essential for the germline integrity. DDX3 and DDX4 are members of the DEAD-box helicases, a diverse family of proteins involved in ATP-dependent RNA unwinding, needed in a variety of cellular processes including splicing, ribosome biogenesis and RNA degradation. The name derives from the sequence of the Walker B motif (motif II). This domain contains the ATP-binding region.


Pssm-ID: 350725 [Multi-domain]  Cd Length: 221  Bit Score: 66.36  E-value: 1.72e-12
                          10        20        30        40        50        60
                  ....*....|....*....|....*....|....*....|....*....|....*....|..
gi 1907165828  21 LVLDEADRLLDMGFEASINTILEF--LPK--QRRTGLFSATQTQEVENLVRAGLRNPVRISV 78
Cdd:cd17967   156 LVLDEADRMLDMGFEPQIRKIVEHpdMPPkgERQTLMFSATFPREIQRLAADFLKNYIFLTV 217
DEADc_DDX46 cd17953
DEAD-box helicase domain of DEAD box protein 46; DDX46 (also called Prp5-like DEAD-box protein) ...
 21-76 4.76e-12

DEAD-box helicase domain of DEAD box protein 46; DDX46 (also called Prp5-like DEAD-box protein) is a component of the 17S U2 snRNP complex. It plays an important role in pre-mRNA splicing and has a role in antiviral innate immunity. DDX46 is a member of the DEAD-box helicases, a diverse family of proteins involved in ATP-dependent RNA unwinding, needed in a variety of cellular processes including splicing, ribosome biogenesis and RNA degradation. The name derives from the sequence of the Walker B motif (motif II). This domain contains the ATP-binding region.


Pssm-ID: 350711 [Multi-domain]  Cd Length: 222  Bit Score: 65.09  E-value: 4.76e-12
                          10        20        30        40        50
                  ....*....|....*....|....*....|....*....|....*....|....*.
gi 1907165828  21 LVLDEADRLLDMGFEASINTILEFLPKQRRTGLFSATQTQEVENLVRAGLRNPVRI 76
Cdd:cd17953   166 VVLDEADRMFDMGFEPQIMKIVNNIRPDRQTVLFSATFPRKVEALARKVLHKPIEI 221
DEADc_DDX42 cd17952
DEAD-box helicase domain of DEAD box protein 42; DDX42 (also called Splicing Factor ...
 21-77 6.75e-12

DEAD-box helicase domain of DEAD box protein 42; DDX42 (also called Splicing Factor 3B-Associated 125 kDa Protein, RHELP, or RNAHP) is an NTPase with a preference for ATP, the hydrolysis of which is enhanced by various RNA substrates. It acts as a non-processive RNA helicase with protein displacement and RNA annealing activities. DDX42 is a member of the DEAD-box helicases, a diverse family of proteins involved in ATP-dependent RNA unwinding, needed in a variety of cellular processes including splicing, ribosome biogenesis and RNA degradation. The name derives from the sequence of the Walker B motif (motif II). This domain contains the ATP-binding region.


Pssm-ID: 350710 [Multi-domain]  Cd Length: 197  Bit Score: 64.36  E-value: 6.75e-12
                          10        20        30        40        50
                  ....*....|....*....|....*....|....*....|....*....|....*..
gi 1907165828  21 LVLDEADRLLDMGFEASINTILEFLPKQRRTGLFSATQTQEVENLVRAGLRNPVRIS 77
Cdd:cd17952   141 LVLDEADRMFDMGFEYQVRSIVGHVRPDRQTLLFSATFKKKIEQLARDILSDPIRVV 197
DEADc_DDX3 cd18051
DEAD-box helicase domain of DEAD box protein 3; DDX3 (also called helicase-like protein, DEAD ...
 1-72 1.48e-10

DEAD-box helicase domain of DEAD box protein 3; DDX3 (also called helicase-like protein, DEAD box, X isoform, or DDX14) has been reported to display a high level of RNA-independent ATPase activity stimulated by both RNA and DNA. This protein has multiple conserved domains and is thought to play roles in both the nucleus and cytoplasm. Nuclear roles include transcriptional regulation, mRNP assembly, pre-mRNA splicing, and mRNA export. In the cytoplasm, this protein is thought to be involved in translation, cellular signaling, and viral replication. Misregulation of this gene has been implicated in tumorigenesis. Diseases associated with DDX3 include mental retardation, X-linked 102 and agenesis of the corpus callosum, with facial anomalies and robin sequence. DDX3 is a member of the DEAD-box helicases, a diverse family of proteins involved in ATP-dependent RNA unwinding, needed in a variety of cellular processes including splicing, ribosome biogenesis and RNA degradation. The name derives from the sequence of the Walker B motif (motif II). This domain contains the ATP-binding region.


Pssm-ID: 350809 [Multi-domain]  Cd Length: 249  Bit Score: 61.21  E-value: 1.48e-10
                          10        20        30        40        50        60        70
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*.
gi 1907165828   1 MFRRKAEGLDlasCVKsldVLVLDEADRLLDMGFEASINTILE--FLPK--QRRTGLFSATQTQEVENLVRAGLRN 72
Cdd:cd18051   169 MLERGKIGLD---YCK---YLVLDEADRMLDMGFEPQIRRIVEqdTMPPtgERQTLMFSATFPKEIQMLARDFLDN 238
DEADc_DDX6 cd17940
DEAD-box helicase domain of DEAD box protein 6; DEAD box protein 6 (DDX6, also known as Rck or ...
 10-76 3.83e-10

DEAD-box helicase domain of DEAD box protein 6; DEAD box protein 6 (DDX6, also known as Rck or p54) participates in mRNA regulation mediated by miRNA-mediated silencing. It also plays a role in global and transcript-specific messenger RNA (mRNA) storage, translational repression, and decay. It is a member of the DEAD-box helicase family, a diverse family of proteins involved in ATP-dependent RNA unwinding, needed in a variety of cellular processes including splicing, ribosome biogenesis and RNA degradation. The name derives from the sequence of the Walker B motif (motif II). This domain contains the ATP-binding region.


Pssm-ID: 350698 [Multi-domain]  Cd Length: 201  Bit Score: 59.23  E-value: 3.83e-10
                          10        20        30        40        50        60
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*..
gi 1907165828  10 DLASCVksldVLVLDEADRLLDMGFEASINTILEFLPKQRRTGLFSATQTQEVENLVRAGLRNPVRI 76
Cdd:cd17940   138 DLSHCK----TLVLDEADKLLSQDFQPIIEKILNFLPKERQILLFSATFPLTVKNFMDRHMHNPYEI 200
SSL2 COG1061
Superfamily II DNA or RNA helicase [Transcription, Replication, recombination, and repair];
19-225 5.29e-10

Superfamily II DNA or RNA helicase [Transcription, Replication, recombination, and repair];


Pssm-ID: 440681 [Multi-domain]  Cd Length: 566  Bit Score: 61.58  E-value: 5.29e-10
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1907165828  19 DVLVLDEADRLLDMGFEAsintILEFLPKQRRTGLfSAT------QTQEVEN------------LVRAG-LRNPVRISVK 79
Cdd:COG1061   189 GLVIIDEAHHAGAPSYRR----ILEAFPAAYRLGL-TATpfrsdgREILLFLfdgivyeyslkeAIEDGyLAPPEYYGIR 263

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1907165828  80 EKGVAASSTQKTPSRLENHYMICKADEKFNQLVHFLRSRQQEKH-LVFFSTCACVEYYGKALEAllKKVKILCIHGKMKY 158
Cdd:COG1061   264 VDLTDERAEYDALSERLREALAADAERKDKILRELLREHPDDRKtLVFCSSVDHAEALAELLNE--AGIRAAVVTGDTPK 341

                         170       180       190       200       210       220
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*...
gi 1907165828 159 K-RNKIFMEFRKLQSGILVCTDVMARGIDIPEVNWVLQYDPPSNASAFVHRCGRTARIGHGGSALVFL 225
Cdd:COG1061   342 KeREEILEAFRDGELRILVTVDVLNEGVDVPRLDVAILLRPTGSPREFIQRLGRGLRPAPGKEDALVY 409
DEADc_DDX4 cd18052
DEAD-box helicase domain of DEAD box protein 4; DEAD box protein 4 (DDX4, also known as VASA ...
 16-71 7.62e-10

DEAD-box helicase domain of DEAD box protein 4; DEAD box protein 4 (DDX4, also known as VASA homolog) is an ATP-dependent RNA helicase required during spermatogenesis and is essential for the germline integrity. DEAD-box helicases are a diverse family of proteins involved in ATP-dependent RNA unwinding, needed in a variety of cellular processes including splicing, ribosome biogenesis and RNA degradation. The name derives from the sequence of the Walker B motif (motif II). This domain contains the ATP-binding region.


Pssm-ID: 350810 [Multi-domain]  Cd Length: 264  Bit Score: 59.60  E-value: 7.62e-10
                          10        20        30        40        50        60
                  ....*....|....*....|....*....|....*....|....*....|....*....|
gi 1907165828  16 KSLDVLVLDEADRLLDMGFEASINTILEFL---PKQRR-TGLFSATQTQEVENLVRAGLR 71
Cdd:cd18052   193 SKLKYLILDEADRMLDMGFGPEIRKLVSEPgmpSKEDRqTLMFSATFPEEIQRLAAEFLK 252
DEADc_DDX43_DDX53 cd17958
DEAD-box helicase domain of DEAD box proteins 43 and 53; DDX43 (also called cancer/testis ...
 15-76 8.41e-10

DEAD-box helicase domain of DEAD box proteins 43 and 53; DDX43 (also called cancer/testis antigen 13 or helical antigen) displays tumor-specific expression. Diseases associated with DDX43 include rheumatoid lung disease. DDX53 is also called cancer/testis antigen 26 or DEAD-Box Protein CAGE. Both DDX46 and DDX53 are members of the DEAD-box helicases, a diverse family of proteins involved in ATP-dependent RNA unwinding, needed in a variety of cellular processes including splicing, ribosome biogenesis and RNA degradation. The name derives from the sequence of the Walker B motif (motif II). This domain contains the ATP-binding region.


Pssm-ID: 350716 [Multi-domain]  Cd Length: 197  Bit Score: 58.24  E-value: 8.41e-10
                          10        20        30        40        50        60
                  ....*....|....*....|....*....|....*....|....*....|....*....|..
gi 1907165828  15 VKSLDVLVLDEADRLLDMGFEASINTILEFLPKQRRTGLFSATQTQEVENLVRAGLRNPVRI 76
Cdd:cd17958   135 LKSITYLVLDEADRMLDMGFEPQIRKILLDIRPDRQTIMTSATWPDGVRRLAQSYLKDPMIV 196
DEADc_DDX59 cd17962
DEAD-box helicase domain of DEAD box protein 59; DDX59 plays an important role in lung cancer ...
 13-77 1.04e-09

DEAD-box helicase domain of DEAD box protein 59; DDX59 plays an important role in lung cancer development by promoting DNA replication. DDX59 knockdown mice showed reduced cell proliferation, anchorage-independent cell growth, and reduction of tumor formation. Recent work shows that EGFR and Ras regulate DDX59 during lung cancer development. Diseases associated with DDX59 (also called zinc finger HIT domain-containing protein 5) include orofaciodigital syndrome V and orofaciodigital syndrome. DDX59 is a member of the DEAD-box helicases, a diverse family of proteins involved in ATP-dependent RNA unwinding, needed in a variety of cellular processes including splicing, ribosome biogenesis and RNA degradation. The name derives from the sequence of the Walker B motif (motif II). This domain contains the ATP-binding region.


Pssm-ID: 350720 [Multi-domain]  Cd Length: 193  Bit Score: 57.94  E-value: 1.04e-09
                          10        20        30        40        50        60
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*..
gi 1907165828  13 SCVK--SLDVLVLDEADRLLDMGFEASINTILEFLPKQRRTGLFSATQTQEVENLVRAGLRNPVRIS 77
Cdd:cd17962   127 SSVEldNIKIVVVDEADTMLKMGFQQQVLDILENISHDHQTILVSATIPRGIEQLAGQLLQNPVRIT 193
DEADc_DDX5 cd18049
DEAD-box helicase domain of DEAD box protein 5; DDX5 (also called RNA helicase P68, HLR1, ...
 21-78 2.36e-09

DEAD-box helicase domain of DEAD box protein 5; DDX5 (also called RNA helicase P68, HLR1, G17P1, or HUMP68) is involved in pathways that include the alteration of RNA structures, plays a role as a coregulator of transcription, a regulator of splicing, and in the processing of small noncoding RNAs. It synergizes with DDX17 and SRA1 RNA to activate MYOD1 transcriptional activity and is involved in skeletal muscle differentiation. Dysregulation of this gene may play a role in cancer development. DDX5 is a member of the DEAD-box helicases, a diverse family of proteins involved in ATP-dependent RNA unwinding, needed in a variety of cellular processes including splicing, ribosome biogenesis and RNA degradation. The name derives from the sequence of the Walker B motif (motif II). This domain contains the ATP-binding region.


Pssm-ID: 350807 [Multi-domain]  Cd Length: 234  Bit Score: 57.71  E-value: 2.36e-09
                          10        20        30        40        50
                  ....*....|....*....|....*....|....*....|....*....|....*...
gi 1907165828  21 LVLDEADRLLDMGFEASINTILEFLPKQRRTGLFSATQTQEVENLVRAGLRNPVRISV 78
Cdd:cd18049   175 LVLDEADRMLDMGFEPQIRKIVDQIRPDRQTLMWSATWPKEVRQLAEDFLKDYIHINI 232
DEADc_DDX20 cd17943
DEAD-box helicase domain of DEAD box protein 20; DDX20 (also called DEAD Box Protein DP 103, ...
 15-77 2.53e-09

DEAD-box helicase domain of DEAD box protein 20; DDX20 (also called DEAD Box Protein DP 103, Component Of Gems 3, Gemin-3, and SMN-Interacting Protein) interacts directly with SMN (survival of motor neurons), the spinal muscular atrophy gene product, and may play a catalytic role in the function of the SMN complex on ribonucleoproteins. Diseases associated with DDX20 include spinal muscular atrophy and muscular atrophy. DDX20 is a member of the DEAD-box helicases, a diverse family of proteins involved in ATP-dependent RNA unwinding, needed in a variety of cellular processes including splicing, ribosome biogenesis and RNA degradation. The name derives from the sequence of the Walker B motif (motif II). This domain contains the ATP-binding region.


Pssm-ID: 350701 [Multi-domain]  Cd Length: 192  Bit Score: 56.50  E-value: 2.53e-09
                          10        20        30        40        50        60
                  ....*....|....*....|....*....|....*....|....*....|....*....|...
gi 1907165828  15 VKSLDVLVLDEADRLLDMGFEASINTILEFLPKQRRTGLFSATQTQEVENLVRAGLRNPVRIS 77
Cdd:cd17943   130 VSHVRLFVLDEADKLMEGSFQKDVNWIFSSLPKNKQVIAFSATYPKNLDNLLARYMRKPVLVR 192
DEADc_EIF4AII_EIF4AI_DDX2 cd18046
DEAD-box helicase domain of eukaryotic initiation factor 4A-I and 4-II; Eukaryotic initiation ...
 15-76 6.11e-09

DEAD-box helicase domain of eukaryotic initiation factor 4A-I and 4-II; Eukaryotic initiation factor 4A-I (DDX2A) and eukaryotic initiation factor 4A-II (DDX2B) are involved in cap recognition and are required for mRNA binding to ribosome. They are DEAD-box helicases, a diverse family of proteins involved in ATP-dependent RNA unwinding, needed in a variety of cellular processes including splicing, ribosome biogenesis and RNA degradation. The name derives from the sequence of the Walker B motif (motif II). This domain contains the ATP-binding region.


Pssm-ID: 350804 [Multi-domain]  Cd Length: 201  Bit Score: 55.91  E-value: 6.11e-09
                          10        20        30        40        50        60
                  ....*....|....*....|....*....|....*....|....*....|....*....|..
gi 1907165828  15 VKSLDVLVLDEADRLLDMGFEASINTILEFLPKQRRTGLFSATQTQEVENLVRAGLRNPVRI 76
Cdd:cd18046   139 TDYIKMFVLDEADEMLSRGFKDQIYDIFQKLPPDTQVVLLSATMPNDVLEVTTKFMRDPIRI 200
DEADc_DDX17 cd18050
DEAD-box helicase domain of DEAD box protein 17; DDX17 (also called DEAD Box Protein P72 or ...
 21-78 6.19e-09

DEAD-box helicase domain of DEAD box protein 17; DDX17 (also called DEAD Box Protein P72 or DEAD Box Protein P82) has a wide variety of functions including regulating the alternative splicing of exons exhibiting specific features such as the inclusion of AC-rich alternative exons in CD44 transcripts, playing a role in innate immunity, and promoting mRNA degradation mediated by the antiviral zinc-finger protein ZC3HAV1 in an ATPase-dependent manner. DDX17 synergizes with DDX5 and SRA1 RNA to activate MYOD1 transcriptional activity and is involved in skeletal muscle differentiation. DDX17 is a member of the DEAD-box helicases, a diverse family of proteins involved in ATP-dependent RNA unwinding, needed in a variety of cellular processes including splicing, ribosome biogenesis and RNA degradation. The name derives from the sequence of the Walker B motif (motif II). This domain contains the ATP-binding region.


Pssm-ID: 350808 [Multi-domain]  Cd Length: 271  Bit Score: 56.94  E-value: 6.19e-09
                          10        20        30        40        50
                  ....*....|....*....|....*....|....*....|....*....|....*...
gi 1907165828  21 LVLDEADRLLDMGFEASINTILEFLPKQRRTGLFSATQTQEVENLVRAGLRNPVRISV 78
Cdd:cd18050   213 LVLDEADRMLDMGFEPQIRKIVDQIRPDRQTLMWSATWPKEVRQLAEDFLRDYVQINI 270
DEADc_DDX56 cd17961
DEAD-box helicase domain of DEAD box protein 56; DDX56 is a helicase required for assembly of ...
 15-74 9.22e-09

DEAD-box helicase domain of DEAD box protein 56; DDX56 is a helicase required for assembly of infectious West Nile virus particles. New research suggests that DDX56 relocalizes to the site of virus assembly during WNV infection and that its interaction with WNV capsid in the cytoplasm may occur transiently during virion morphogenesis. DDX56 is a member of the DEAD-box helicases, a diverse family of proteins involved in ATP-dependent RNA unwinding, needed in a variety of cellular processes including splicing, ribosome biogenesis and RNA degradation. The name derives from the sequence of the Walker B motif (motif II). This domain contains the ATP-binding region.


Pssm-ID: 350719 [Multi-domain]  Cd Length: 206  Bit Score: 55.28  E-value: 9.22e-09
                          10        20        30        40        50        60
                  ....*....|....*....|....*....|....*....|....*....|....*....|
gi 1907165828  15 VKSLDVLVLDEADRLLDMGFEASINTILEFLPKQRRTGLFSATQTQEVENLVRAGLRNPV 74
Cdd:cd17961   143 LSTLKYLVIDEADLVLSYGYEEDLKSLLSYLPKNYQTFLMSATLSEDVEALKKLVLHNPA 202
DEADc_EIF4AIII_DDX48 cd18045
DEAD-box helicase domain of eukaryotic initiation factor 4A-III; Eukaryotic initiation factor ...
 15-76 1.92e-08

DEAD-box helicase domain of eukaryotic initiation factor 4A-III; Eukaryotic initiation factor 4A-III (EIF4AIII, also known as DDX48) is part of the exon junction complex (EJC) that plays a major role in posttranscriptional regulation of mRNA. EJC consists of four proteins (eIF4AIII, Barentsz [Btz], Mago, and Y14), mRNA, and ATP. DDX48 is a member of the DEAD-box helicases, a diverse family of proteins involved in ATP-dependent RNA unwinding, needed in a variety of cellular processes including splicing, ribosome biogenesis and RNA degradation. The name derives from the sequence of the Walker B motif (motif II). This domain contains the ATP-binding region.


Pssm-ID: 350803 [Multi-domain]  Cd Length: 201  Bit Score: 54.40  E-value: 1.92e-08
                          10        20        30        40        50        60
                  ....*....|....*....|....*....|....*....|....*....|....*....|..
gi 1907165828  15 VKSLDVLVLDEADRLLDMGFEASINTILEFLPKQRRTGLFSATQTQEVENLVRAGLRNPVRI 76
Cdd:cd18045   139 TRHIKMLVLDEADEMLNKGFKEQIYDVYRYLPPATQVVLVSATLPQDILEMTNKFMTDPIRI 200
SF2_C cd18785
C-terminal helicase domain of superfamily 2 DEAD/H-box helicases; Superfamily (SF)2 helicases ...
 146-227 2.72e-08

C-terminal helicase domain of superfamily 2 DEAD/H-box helicases; Superfamily (SF)2 helicases include DEAD-box helicases, UvrB, RecG, Ski2, Sucrose Non-Fermenting (SNF) family helicases, and dicer proteins, among others. Similar to SF1 helicases, they do not form toroidal structures like SF3-6 helicases. SF2 helicases are a diverse family of proteins involved in ATP-dependent RNA or DNA unwinding. Their helicase core is surrounded by C- and N-terminal domains with specific functions such as nucleases, RNA or DNA binding domains, or domains engaged in protein-protein interactions. The core consists of two similar protein domains that resemble the fold of the recombination protein RecA. This model describes the C-terminal domain, also called HelicC.


Pssm-ID: 350172 [Multi-domain]  Cd Length: 77  Bit Score: 50.78  E-value: 2.72e-08
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1907165828 146 KVKILCIHGKMkykRNKIFMEFrklqsGILVCTDVMARGIDIPEVNWVLQYDPPSNASAFVHRCGRTARiGHGGSALVFL 225
Cdd:cd18785     5 KIIVFTNSIEH---AEEIASSL-----EILVATNVLGEGIDVPSLDTVIFFDPPSSAASYIQRVGRAGR-GGKDEGEVIL 75


                  ..
gi 1907165828 226 LP 227
Cdd:cd18785    76 FV 77
SF2_C_TRCF cd18810
C-terminal helicase domain of the transcription-repair coupling factor; Transcription-repair ...
 133-251 1.30e-07

C-terminal helicase domain of the transcription-repair coupling factor; Transcription-repair coupling factor (TrcF) dissociates transcription elongation complexes blocked at nonpairing lesions and mediates recruitment of DNA repair proteins. TrcF is a DEAD-like helicase belonging to superfamily (SF)2, a diverse family of proteins involved in ATP-dependent RNA or DNA unwinding. Similar to SF1 helicases, SF2 helicases do not form toroidal structures like SF3-6 helicases. Their helicase core consists of two similar protein domains that resemble the fold of the recombination protein RecA. This model describes the C-terminal domain, also called HelicC.


Pssm-ID: 350197 [Multi-domain]  Cd Length: 151  Bit Score: 50.80  E-value: 1.30e-07
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1907165828 133 VEYYGKALEALLKKVKILCIHGKM-KYKRNKIFMEFRKLQSGILVCTDVMARGIDIPEVNWVLQYDPPSNASAFVHRCgr 211
Cdd:cd18810    38 IEKLATQLRQLVPEARIAIAHGQMtENELEEVMLEFAKGEYDILVCTTIIESGIDIPNANTIIIERADKFGLAQLYQL-- 115

                          90       100       110       120
                  ....*....|....*....|....*....|....*....|
gi 1907165828 212 TARIGHGGsalvfllpmEEAYINFLAINQKcPLQEMSLQR 251
Cdd:cd18810   116 RGRVGRSK---------ERAYAYFLYPDQK-KLTEDALKR 145
ComFA COG4098
Superfamily II DNA/RNA helicase required for DNA uptake (late competence protein) [Replication, ...
 19-213 2.21e-07

Superfamily II DNA/RNA helicase required for DNA uptake (late competence protein) [Replication, recombination and repair];


Pssm-ID: 443274 [Multi-domain]  Cd Length: 451  Bit Score: 52.95  E-value: 2.21e-07
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1907165828  19 DVLVLDEADrlldmGFEASINTILEFLPKQ-RRTG----LFSATQTQEVENLVRAGLRNPVRIsvkekgvaasstqktPS 93
Cdd:COG4098   218 DLLIIDEVD-----AFPYSGDPMLQYAVKRaRKPDgkliYLTATPSKALQRQVKRGKLKVVKL---------------PA 277

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1907165828  94 RLENH-----YMI-CKADEK-------FNQLVHFLRSRQQEKH--LVFFSTCACVEYYGKALEALLKKVKILCIHGKMKY 158
Cdd:COG4098   278 RYHGHplpvpKFKwLGNWKKrlrrgklPRKLLKWLKKRLKEGRqlLIFVPTIELLEQLVALLQKLFPEERIAGVHAEDPE 357

                         170       180       190       200       210       220
                  ....*....|....*....|....*....|....*....|....*....|....*....|
gi 1907165828 159 KRNKIfMEFRKLQSGILVCTDVMARGIDIPEVN-WVLQYDPPS-NASAFVH---RCGRTA 213
Cdd:COG4098   358 RKEKV-QAFRDGEIPILVTTTILERGVTFPNVDvAVLGADHPVfTEAALVQiagRVGRSA 416
MPH1 COG1111
ERCC4-related helicase [Replication, recombination and repair];
174-232 4.27e-07

ERCC4-related helicase [Replication, recombination and repair];


Pssm-ID: 440728 [Multi-domain]  Cd Length: 718  Bit Score: 52.42  E-value: 4.27e-07
                          10        20        30        40        50        60
                  ....*....|....*....|....*....|....*....|....*....|....*....|.
gi 1907165828 174 ILVCTDVMARGIDIPEVNWVLQYDPPSNASAFVHRCGRTARIgHGGSA--LVFLLPMEEAY 232
Cdd:COG1111   414 VLVATSVAEEGLDIPEVDLVIFYEPVPSEIRSIQRKGRTGRK-REGRVvvLIAKGTRDEAY 473
DEADc_DDX24 cd17946
DEAD-box helicase domain of DEAD box protein 24; The human DDX24 gene encodes a DEAD box ...
 7-90 6.19e-07

DEAD-box helicase domain of DEAD box protein 24; The human DDX24 gene encodes a DEAD box protein, which shows little similarity to any of the other known human DEAD box proteins, but shows a high similarity to mouse Ddx24 at the amino acid level. MDM2 mediates nonproteolytic polyubiquitylation of the DEAD-Box RNA helicase DDX24. DDX24 is a member of the DEAD-box helicases, a diverse family of proteins involved in ATP-dependent RNA unwinding, needed in a variety of cellular processes including splicing, ribosome biogenesis and RNA degradation. The name derives from the sequence of the Walker B motif (motif II). This domain contains the ATP- binding region.


Pssm-ID: 350704 [Multi-domain]  Cd Length: 235  Bit Score: 50.32  E-value: 6.19e-07
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1907165828   7 EGLDLASCVKSLDVLVLDEADRLLDMGFEASINTILEFLP-------KQRRTGLFSATQTQEvenlvragLRNPVRISVK 79
Cdd:cd17946   135 EGNEHLANLKSLRFLVLDEADRMLEKGHFAELEKILELLNkdragkkRKRQTFVFSATLTLD--------HQLPLKLNSK 206

                          90
                  ....*....|.
gi 1907165828  80 EKGVAASSTQK 90
Cdd:cd17946   207 KKKKKKEKKQK 217
SF2_C_LHR cd18796
C-terminal helicase domain of LHR family helicases; Large helicase-related protein (LHR) is a ...
 118-225 8.47e-07

C-terminal helicase domain of LHR family helicases; Large helicase-related protein (LHR) is a DNA damage-inducible helicase that uses ATP hydrolysis to drive unidirectional 3'-to-5' translocation along single-stranded DNA (ssDNA) and to unwind RNA:DNA duplexes. This group also includes related bacterial and archaeal helicases. LHR family helicases are DEAD-like helicases belonging to superfamily (SF)2, a diverse family of proteins involved in ATP-dependent RNA or DNA unwinding. Similar to SF1 helicases, SF2 helicases do not form toroidal structures like SF3-6 helicases. Their helicase core consists of two similar protein domains that resemble the fold of the recombination protein RecA. This model describes the C-terminal domain, also called HelicC.


Pssm-ID: 350183 [Multi-domain]  Cd Length: 150  Bit Score: 48.41  E-value: 8.47e-07
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1907165828 118 RQQEKHLVFFSTCACVEYYGKALEALLKK----VKILCIHGKM-KYKRNKIfmEfRKLQSG---ILVCTDVMARGIDIPE 189
Cdd:cd18796    36 ERHKSTLVFTNTRSQAERLAQRLRELCPDrvppDFIALHHGSLsRELREEV--E-AALKRGdlkVVVATSSLELGIDIGD 112

                          90       100       110
                  ....*....|....*....|....*....|....*.
gi 1907165828 190 VNWVLQYDPPSNASAFVHRCGRTARIGHGGSALVFL 225
Cdd:cd18796   113 VDLVIQIGSPKSVARLLQRLGRSGHRPGAASKGRLV 148
SF2_C_RecG_TRCF cd18792
C-terminal helicase domain of the RecG family helicases; The DEAD-like helicase RecG family ...
 133-264 1.17e-06

C-terminal helicase domain of the RecG family helicases; The DEAD-like helicase RecG family contains recombination factor RecG and transcription-repair coupling factor TrcF. They are DEAD-like helicases belonging to superfamily (SF)2, a diverse family of proteins involved in ATP-dependent RNA or DNA unwinding. Similar to SF1 helicases, SF2 helicases do not form toroidal structures like SF3-6 helicases. Their helicase core consists of two similar protein domains that resemble the fold of the recombination protein RecA. This model describes the C-terminal domain, also called HelicC.


Pssm-ID: 350179 [Multi-domain]  Cd Length: 160  Bit Score: 48.42  E-value: 1.17e-06
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1907165828 133 VEYYGKALEALLKKVKILCIHGKMKY-KRNKIFMEFRKLQSGILVCTDVMARGIDIPEVNWVLQYDPpsnasafvHRCGR 211
Cdd:cd18792    47 IEALAEELKELVPEARVALLHGKMTEdEKEAVMLEFREGEYDILVSTTVIEVGIDVPNANTMIIEDA--------DRFGL 118

                          90       100       110       120       130
                  ....*....|....*....|....*....|....*....|....*....|....*....
gi 1907165828 212 TA------RIGHGGsalvfllpmEEAYInFLAINQKCPLQEMSLQRntidllpkLRAMA 264
Cdd:cd18792   119 SQlhqlrgRVGRGK---------HQSYC-YLLYPDPKKLTETAKKR--------LRAIA 159
SF2_C_FANCM_Hef cd18801
C-terminal helicase domain of Fanconi anemia group M family helicases; Fanconi anemia group M ...
 166-214 1.54e-06

C-terminal helicase domain of Fanconi anemia group M family helicases; Fanconi anemia group M (FANCM) protein is a DNA-dependent ATPase component of the Fanconi anemia (FA) core complex. It is required for the normal activation of the FA pathway, leading to monoubiquitination of the FANCI-FANCD2 complex in response to DNA damage, cellular resistance to DNA cross-linking drugs, and prevention of chromosomal breakage. Hef (helicase-associated endonuclease fork-structure) belongs to the XPF/MUS81/FANCM family of endonucleases and is involved in stalled replication fork repair. FANCM and Hef are DEAD-like helicases belonging to superfamily (SF)2, a diverse family of proteins involved in ATP-dependent RNA or DNA unwinding. Similar to SF1 helicases, SF2 helicases do not form toroidal structures like SF3-6 helicases. Their helicase core consists of two similar protein domains that resemble the fold of the recombination protein RecA. This model describes the C-terminal domain, also called HelicC.


Pssm-ID: 350188 [Multi-domain]  Cd Length: 143  Bit Score: 47.35  E-value: 1.54e-06
                          10        20        30        40
                  ....*....|....*....|....*....|....*....|....*....
gi 1907165828 166 EFRKLQSGILVCTDVMARGIDIPEVNWVLQYDPPSNASAFVHRCGRTAR 214
Cdd:cd18801    85 QFRKGGYNVLVATSIGEEGLDIGEVDLIICYDASPSPIRMIQRMGRTGR 133
SF2_C_dicer cd18802
C-terminal helicase domain of the endoribonuclease Dicer; Dicer ribonucleases cleave ...
 106-214 2.53e-06

C-terminal helicase domain of the endoribonuclease Dicer; Dicer ribonucleases cleave double-stranded RNA (dsRNA) precursors to generate microRNAs (miRNAs) and small interfering RNAs (siRNAs). In concert with Argonautes, these small RNAs bind complementary mRNAs to down-regulate their expression. miRNAs are processed by Dicer from small hairpins, while siRNAs are typically processed from longer dsRNA, from endogenous sources, or exogenous sources such as viral replication intermediates. Some organisms, such as Homo sapiens and Caenorhabditis elegans, encode one Dicer that generates miRNAs and siRNAs, but other organisms have multiple dicers with specialized functions. Dicer exists throughout eukaryotes, and a subset has an N-terminal helicase domain of the RIG-I-like receptor (RLR) subgroup. RLRs often function in innate immunity and Dicer helicase domains sometimes show differences in activity that correlate with roles in immunity. Dicer helicase domains are DEAD-like helicases belonging to superfamily (SF)2, a diverse family of proteins involved in ATP-dependent RNA or DNA unwinding. Similar to SF1 helicases, SF2 helicases do not form toroidal structures like SF3-6 helicases. Their helicase core consists of two similar protein domains that resemble the fold of the recombination protein RecA. This model describes the C-terminal domain, also called HelicC.


Pssm-ID: 350189 [Multi-domain]  Cd Length: 142  Bit Score: 46.82  E-value: 2.53e-06
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1907165828 106 EKFNQLVHFLRS-RQQEKH---LVFFSTCACVeyygKALEALLKKVKILCIHGKMKY--------KRNKIFMEFR----- 168
Cdd:cd18802     7 PKLQKLIEILREyFPKTPDfrgIIFVERRATA----VVLSRLLKEHPSTLAFIRCGFligrgnssQRKRSLMTQRkqket 82

                          90       100       110       120       130
                  ....*....|....*....|....*....|....*....|....*....|.
gi 1907165828 169 --KLQSG---ILVCTDVMARGIDIPEVNWVLQYDPPSNASAFVHRCGRtAR 214
Cdd:cd18802    83 ldKFRDGelnLLIATSVLEEGIDVPACNLVIRFDLPKTLRSYIQSRGR-AR 132
mfd TIGR00580
transcription-repair coupling factor (mfd); All proteins in this family for which functions ...
 133-191 6.10e-06

transcription-repair coupling factor (mfd); All proteins in this family for which functions are known are DNA-dependent ATPases that function in the process of transcription-coupled DNA repair in which the repair of the transcribed strand of actively transcribed genes is repaired at a higher rate than the repair of non-transcribed regions of the genome and than the non-transcribed strand of the same gene. This family is based on the phylogenomic analysis of JA Eisen (1999, Ph.D. Thesis, Stanford University). This family is closely related to the RecG and UvrB families. [DNA metabolism, DNA replication, recombination, and repair]


Pssm-ID: 273152 [Multi-domain]  Cd Length: 926  Bit Score: 48.89  E-value: 6.10e-06
                          10        20        30        40        50        60
                  ....*....|....*....|....*....|....*....|....*....|....*....|
gi 1907165828 133 VEYYGKALEALLKKVKILCIHGKM-KYKRNKIFMEFRKLQSGILVCTDVMARGIDIPEVN 191
Cdd:TIGR00580 673 IEKLATQLRELVPEARIAIAHGQMtENELEEVMLEFYKGEFQVLVCTTIIETGIDIPNAN 732
SF2_C_RecG cd18811
C-terminal helicase domain of DNA helicase RecG; ATP-dependent DNA helicase RecG plays a ...
 131-226 1.60e-05

C-terminal helicase domain of DNA helicase RecG; ATP-dependent DNA helicase RecG plays a critical role in recombination and DNA repair. RecG helps process Holliday junction intermediates to mature products by catalyzing branch migration. It is a DEAD-like helicase belonging to superfamily (SF)2, a diverse family of proteins involved in ATP-dependent RNA or DNA unwinding. Similar to SF1 helicases, SF2 helicases do not form toroidal structures like SF3-6 helicases. Their helicase core consists of two similar protein domains that resemble the fold of the recombination protein RecA. This model describes the C-terminal domain, also called HelicC.


Pssm-ID: 350198 [Multi-domain]  Cd Length: 159  Bit Score: 45.03  E-value: 1.60e-05
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1907165828 131 ACVEYYGKALEALLKKVKILCIHGKMKYK-RNKIFMEFRKLQSGILVCTDVMARGIDIPEVNWVLQYDPpsnasafvHRC 209
Cdd:cd18811    46 AAVAMYEYLKERFRPELNVGLLHGRLKSDeKDAVMAEFREGEVDILVSTTVIEVGVDVPNATVMVIEDA--------ERF 117

                          90       100
                  ....*....|....*....|...
gi 1907165828 210 GRTA------RIGHGGSALVFLL 226
Cdd:cd18811   118 GLSQlhqlrgRVGRGDHQSYCLL 140
Cas3_I cd09639
CRISPR/Cas system-associated protein Cas3; CRISPR (Clustered Regularly Interspaced Short ...
 105-216 6.45e-05

CRISPR/Cas system-associated protein Cas3; CRISPR (Clustered Regularly Interspaced Short Palindromic Repeats) and associated Cas proteins comprise a system for heritable host defense by prokaryotic cells against phage and other foreign DNA; DEAD/DEAH box helicase DNA helicase cas3'; Often but not always is fused to HD nuclease domain; signature gene for Type I


Pssm-ID: 187770 [Multi-domain]  Cd Length: 353  Bit Score: 44.73  E-value: 6.45e-05
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1907165828 105 DEKFNQLVHFLRSRQQE-KHLVFFSTCACVEYYGKALEALLKKVKILCIHGKMKY-----KRNKIFMEFRKLQSGILVCT 178
Cdd:cd09639   202 VGEISSLERLLEFIKKGgSVAIIVNTVDRAQEFYQQLKEKGPEEEIMLIHSRFTEkdrakKEAELLLEFKKSEKFVIVAT 281

                          90       100       110
                  ....*....|....*....|....*....|....*...
gi 1907165828 179 DVMARGIDIpEVNWVlqYDPPSNASAFVHRCGRTARIG 216
Cdd:cd09639   282 QVIEASLDI-SVDVM--ITELAPIDSLIQRLGRLHRYG 316
DEADc_DDX19_DDX25 cd17963
DEAD-box helicase domain of ATP-dependent RNA helicases DDX19 and DDX25; DDX19 (also called ...
 16-76 7.06e-05

DEAD-box helicase domain of ATP-dependent RNA helicases DDX19 and DDX25; DDX19 (also called DEAD box RNA helicase DEAD5) and DDX25 (also called gonadotropin-regulated testicular RNA helicase (GRTH)) are members of the DEAD-box helicases, a diverse family of proteins involved in ATP-dependent RNA unwinding, needed in a variety of cellular processes including splicing, ribosome biogenesis and RNA degradation. The name derives from the sequence of the Walker B motif (motif II). This domain contains the ATP-binding region.


Pssm-ID: 350721 [Multi-domain]  Cd Length: 196  Bit Score: 43.72  E-value: 7.06e-05
                          10        20        30        40        50        60
                  ....*....|....*....|....*....|....*....|....*....|....*....|..
gi 1907165828  16 KSLDVLVLDEADRLLDM-GFEASINTILEFLPKQRRTGLFSATQTQEVENLVRAGLRNPVRI 76
Cdd:cd17963   134 KKIKILVLDEADVMLDTqGHGDQSIRIKRMLPRNCQILLFSATFPDSVRKFAEKIAPNANTI 195
RecQ COG0514
Superfamily II DNA helicase RecQ [Replication, recombination and repair];
102-211 1.25e-04

Superfamily II DNA helicase RecQ [Replication, recombination and repair];


Pssm-ID: 440280 [Multi-domain]  Cd Length: 489  Bit Score: 44.36  E-value: 1.25e-04
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1907165828 102 CKADEKFNQLVHFLRSRQQEKHLVFFSTCACVEYYGKALEAllKKVKILCIHGKMKYK-RNKIFMEFRKLQSGILVCTdV 180
Cdd:COG0514   212 KPPDDKLAQLLDFLKEHPGGSGIVYCLSRKKVEELAEWLRE--AGIRAAAYHAGLDAEeREANQDRFLRDEVDVIVAT-I 288

                          90       100       110
                  ....*....|....*....|....*....|....*..
gi 1907165828 181 ---MarGIDIPEVNWVLQYDPPSNASAF---VHRCGR 211
Cdd:COG0514   289 afgM--GIDKPDVRFVIHYDLPKSIEAYyqeIGRAGR 323
PRK13766 PRK13766
Hef nuclease; Provisional
 166-223 1.77e-04

Hef nuclease; Provisional


Pssm-ID: 237496 [Multi-domain]  Cd Length: 773  Bit Score: 44.09  E-value: 1.77e-04
                          10        20        30        40        50
                  ....*....|....*....|....*....|....*....|....*....|....*....
gi 1907165828 166 EFRKLQSGILVCTDVMARGIDIPEVNWVLQYDP-PSnASAFVHRCGRTARiGHGGSALV 223
Cdd:PRK13766  418 KFRAGEFNVLVSTSVAEEGLDIPSVDLVIFYEPvPS-EIRSIQRKGRTGR-QEEGRVVV 474
DEADc_DDX51 cd17956
DEAD-box helicase domain of DEAD box protein 51; DDX51 aids cell cancer proliferation by ...
 14-73 2.39e-04

DEAD-box helicase domain of DEAD box protein 51; DDX51 aids cell cancer proliferation by regulating multiple signalling pathways. Mammalian DEAD box protein Ddx51 acts in 3' end maturation of 28S rRNA by promoting the release of U8 snoRNA.It is a member of the DEAD-box helicases, a diverse family of proteins involved in ATP-dependent RNA unwinding, needed in a variety of cellular processes including splicing, ribosome biogenesis and RNA degradation. The name derives from the sequence of the Walker B motif (motif II). This domain contains the ATP-binding region.


Pssm-ID: 350714 [Multi-domain]  Cd Length: 231  Bit Score: 42.62  E-value: 2.39e-04
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1907165828  14 CVKSLDVLVLDEADRLLDMGFE--------------------ASINTILEFLPKQRRTGLFSATQTQEVENLVRAGLRNP 73
Cdd:cd17956   148 TLKHLRFLVIDEADRLLNQSFQdwletvmkalgrptapdlgsFGDANLLERSVRPLQKLLFSATLTRDPEKLSSLKLHRP 227
DEADc_DDX1 cd17938
DEAD-box helicase domain of DEAD box protein 1; DEAD box protein 1 (DDX1) acts as an ...
 5-74 2.66e-04

DEAD-box helicase domain of DEAD box protein 1; DEAD box protein 1 (DDX1) acts as an ATP-dependent RNA helicase, able to unwind both RNA-RNA and RNA-DNA duplexes. It possesses 5' single-stranded RNA overhang nuclease activity as well as ATPase activity on various RNA, but not DNA polynucleotides. DDX1 may play a role in RNA clearance at DNA double-strand breaks (DSBs), thereby facilitating the template-guided repair of transcriptionally active regions of the genome. It may also be involved in 3'-end cleavage and polyadenylation of pre-mRNAs. DDX1 is a member of the DEAD-box helicases, a diverse family of proteins involved in ATP-dependent RNA unwinding, needed in a variety of cellular processes including splicing, ribosome biogenesis and RNA degradation. The name derives from the sequence of the Walker B motif (motif II). This domain contains the ATP-binding region.


Pssm-ID: 350696 [Multi-domain]  Cd Length: 204  Bit Score: 41.92  E-value: 2.66e-04
                          10        20        30        40        50        60        70
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*..
gi 1907165828   5 KAEGLDLASCvkslDVLVLDEADRLLDMGFEASINTILEFLPKQRRTG------LFSAT-QTQEVENLVRAGLRNPV 74
Cdd:cd17938   129 KTGKLDLSSV----RFFVLDEADRLLSQGNLETINRIYNRIPKITSDGkrlqviVCSATlHSFEVKKLADKIMHFPT 201
DEADc_DDX39 cd17950
DEAD-box helicase domain of DEAD box protein 39; DDX39A is involved in pre-mRNA splicing and ...
 9-78 3.81e-04

DEAD-box helicase domain of DEAD box protein 39; DDX39A is involved in pre-mRNA splicing and is required for the export of mRNA out of the nucleus. DDX39B is an essential splicing factor required for association of U2 small nuclear ribonucleoprotein with pre-mRNA, and it also plays an important role in mRNA export from the nucleus to the cytoplasm. Diseases associated with DDX39A (also called UAP56-Related Helicase, 49 kDa) include gastrointestinal stromal tumor and inflammatory bowel disease 6, while diseases associated with DDX39B (also called 56 kDa U2AF65-Associated Protein) include Plasmodium vivax malaria. DDX39 is a member of the DEAD-box helicases, a diverse family of proteins involved in ATP-dependent RNA unwinding, needed in a variety of cellular processes including splicing, ribosome biogenesis and RNA degradation. The name derives from the sequence of the Walker B motif (motif II). This domain contains the ATP-binding region.


Pssm-ID: 350708 [Multi-domain]  Cd Length: 208  Bit Score: 41.56  E-value: 3.81e-04
                          10        20        30        40        50        60        70
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*.
gi 1907165828   9 LDLAsCVKSLDV-----LVLDEADRLL-DMGFEASINTILEFLPKQRRTGLFSATQTQEVENLVRAGLRNPVRISV 78
Cdd:cd17950   134 LALV-REKKLKLshvkhFVLDECDKMLeQLDMRRDVQEIFRATPHDKQVMMFSATLSKEIRPVCKKFMQDPLEIFV 208
SF2_C_XPB cd18789
C-terminal helicase domain of XPB-like helicases; TFIIH basal transcription factor complex ...
 107-226 2.06e-03

C-terminal helicase domain of XPB-like helicases; TFIIH basal transcription factor complex helicase XPB (xeroderma pigmentosum type B) subunit (also known as DNA excision repair protein ERCC-3 or TFIIH 89 kDa subunit) is the ATP-dependent 3'-5' DNA helicase component of the core-TFIIH basal transcription factor, involved in nucleotide excision repair (NER) of DNA and, when complexed to CAK, in RNA transcription by RNA polymerase II. XPB is a DEAD-like helicase belonging to superfamily (SF)2, a diverse family of proteins involved in ATP-dependent RNA or DNA unwinding. Similar to SF1 helicases, SF2 helicases do not form toroidal structures like SF3-6 helicases. Their helicase core consists of two similar protein domains that resemble the fold of the recombination protein RecA. This model describes the C-terminal domain, also called HelicC.


Pssm-ID: 350176 [Multi-domain]  Cd Length: 153  Bit Score: 38.77  E-value: 2.06e-03
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1907165828 107 KFNQLVHFL-RSRQQEKHLVFfstCACVEyygkALEALLKKVKILCIHGKM-KYKRNKIFMEFRKLQSGILVCTDVMARG 184
Cdd:cd18789    35 KLRALEELLkRHEQGDKIIVF---TDNVE----ALYRYAKRLLKPFITGETpQSEREEILQNFREGEYNTLVVSKVGDEG 107

                          90       100       110       120
                  ....*....|....*....|....*....|....*....|....
gi 1907165828 185 IDIPEVNWVLQYDpPSNASA--FVHRCGRTARIGHGGSALVFLL 226
Cdd:cd18789   108 IDLPEANVAIQIS-GHGGSRrqEAQRLGRILRPKKGGGKNAFFY 150
SF2_C_SNF cd18793
C-terminal helicase domain of the SNF family helicases; The Sucrose Non-Fermenting (SNF) ...
 107-216 6.38e-03

C-terminal helicase domain of the SNF family helicases; The Sucrose Non-Fermenting (SNF) family includes chromatin-remodeling factors, such as CHD proteins and SMARCA proteins, recombination proteins Rad54, and many others. They are DEAD-like helicases belonging to superfamily (SF)2, a diverse family of proteins involved in ATP-dependent RNA or DNA unwinding. Similar to SF1 helicases, SF2 helicases do not form toroidal structures like SF3-6 helicases. Their helicase core consists of two similar protein domains that resemble the fold of the recombination protein RecA. This model describes the C-terminal domain, also called HelicC.


Pssm-ID: 350180 [Multi-domain]  Cd Length: 135  Bit Score: 36.69  E-value: 6.38e-03
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1907165828 107 KFNQLVHFLRSRQQEKH-LVFFSTCACV-EYYGKALEAllKKVKILCIHGKMK-YKRNKIFMEFRKLQSG--ILVCTDVM 181
Cdd:cd18793    12 KLEALLELLEELREPGEkVLIFSQFTDTlDILEEALRE--RGIKYLRLDGSTSsKERQKLVDRFNEDPDIrvFLLSTKAG 89

                          90       100       110
                  ....*....|....*....|....*....|....*
gi 1907165828 182 ARGIDIPEVNWVLQYDPPSNASAFVHRCGRTARIG 216
Cdd:cd18793    90 GVGLNLTAANRVILYDPWWNPAVEEQAIDRAHRIG 124
 
Blast search parameters
Data Source: Precalculated data, version = cdd.v.3.21
Preset Options:Database: CDSEARCH/cdd   Low complexity filter: no  Composition Based Adjustment: yes   E-value threshold: 0.01

References:

  • Wang J et al. (2023), "The conserved domain database in 2023", Nucleic Acids Res.51(D)384-8.
  • Lu S et al. (2020), "The conserved domain database in 2020", Nucleic Acids Res.48(D)265-8.
  • Marchler-Bauer A et al. (2017), "CDD/SPARCLE: functional classification of proteins via subfamily domain architectures.", Nucleic Acids Res.45(D)200-3.
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