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Conserved domains on  [gi|1907199683|ref|XP_036011092|]
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endonuclease/exonuclease/phosphatase family domain-containing protein 1 isoform X1 [Mus musculus]

Protein Classification

HHH_3 and ComEA domain-containing protein( domain architecture ID 12122977)

protein containing domains HHH_3, ComEA, and EEP

Graphical summary

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List of domain hits

 Name Accession Description Interval E-value
ComEA COG1555
DNA uptake protein ComE or related DNA-binding protein [Replication, recombination and repair]; ...
 127-195 1.34e-22

DNA uptake protein ComE or related DNA-binding protein [Replication, recombination and repair];


:

Pssm-ID: 441164 [Multi-domain]  Cd Length: 72  Bit Score: 91.08  E-value: 1.34e-22
                          10        20        30        40        50        60
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....
gi 1907199683 127 LTTTVPLTPRVNINTATLAQLMSVRGLSEKMALSIVDYRREHGPFRSVEDLVRMDGINAAFLDRIRHQV 195
Cdd:COG1555     3 ASASAAAGGKVDINTATAEELQTLPGIGPKLAQRIVEYREKNGPFKSVEDLLEVKGIGPKTLEKLKPYL 71
ComEA COG1555
DNA uptake protein ComE or related DNA-binding protein [Replication, recombination and repair]; ...
 38-95 1.95e-21

DNA uptake protein ComE or related DNA-binding protein [Replication, recombination and repair];


:

Pssm-ID: 441164 [Multi-domain]  Cd Length: 72  Bit Score: 88.00  E-value: 1.95e-21
                          10        20        30        40        50
                  ....*....|....*....|....*....|....*....|....*....|....*...
gi 1907199683  38 ERLNINTATEEELMTLPGVTRAVARSIVEYREYIGGFKKVEDLALVSGVGATKLEQVK 95
Cdd:COG1555    11 GKVDINTATAEELQTLPGIGPKLAQRIVEYREKNGPFKSVEDLLEVKGIGPKTLEKLK 68
EEP super family cl00490
Exonuclease-Endonuclease-Phosphatase (EEP) domain superfamily; This large superfamily includes ...
 261-440 3.15e-21

Exonuclease-Endonuclease-Phosphatase (EEP) domain superfamily; This large superfamily includes the catalytic domain (exonuclease/endonuclease/phosphatase or EEP domain) of a diverse set of proteins including the ExoIII family of apurinic/apyrimidinic (AP) endonucleases, inositol polyphosphate 5-phosphatases (INPP5), neutral sphingomyelinases (nSMases), deadenylases (such as the vertebrate circadian-clock regulated nocturnin), bacterial cytolethal distending toxin B (CdtB), deoxyribonuclease 1 (DNase1), the endonuclease domain of the non-LTR retrotransposon LINE-1, and related domains. These diverse enzymes share a common catalytic mechanism of cleaving phosphodiester bonds; their substrates range from nucleic acids to phospholipids and perhaps proteins.


The actual alignment was detected with superfamily member cd10283:

Pssm-ID: 469791 [Multi-domain]  Cd Length: 266  Bit Score: 93.23  E-value: 3.15e-21
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1907199683 261 FRLATWNLQ--GCSVEKANNPGVREVVCMTLLensiKLLAVQELLDK----EALEKFCTELNQPilpnirkwkgsRGCWR 334
Cdd:cd10283     1 LRIASWNILnfGNSKGKEKNPAIAEIISAFDL----DLIALQEVMDNggglDALAKLVNELNKP-----------GGTWK 65

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1907199683 335 SIVAEKPSNQLQKGPCYsGFLWDTAANVelrdIPGRESSPSNGHAKAVGPSPFLARFKVG--SNDLTLVNLQLTALALPG 412
Cdd:cd10283    66 YIVSDKTGGSSGDKERY-AFLYKSSKVR----KVGKAVLEKDSNTDGFARPPYAAKFKSGgtGFDFTLVNVHLKSGGSSK 140

                         170       180
                  ....*....|....*....|....*...
gi 1907199683 413 AENSSKNHSDGHRLLNFALTLQETLKGH 440
Cdd:cd10283   141 SGQGAKRVAEAQALAEYLKELADEDPDD 168
 
Name Accession Description Interval E-value
ComEA COG1555
DNA uptake protein ComE or related DNA-binding protein [Replication, recombination and repair]; ...
 127-195 1.34e-22

DNA uptake protein ComE or related DNA-binding protein [Replication, recombination and repair];


Pssm-ID: 441164 [Multi-domain]  Cd Length: 72  Bit Score: 91.08  E-value: 1.34e-22
                          10        20        30        40        50        60
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....
gi 1907199683 127 LTTTVPLTPRVNINTATLAQLMSVRGLSEKMALSIVDYRREHGPFRSVEDLVRMDGINAAFLDRIRHQV 195
Cdd:COG1555     3 ASASAAAGGKVDINTATAEELQTLPGIGPKLAQRIVEYREKNGPFKSVEDLLEVKGIGPKTLEKLKPYL 71
ComEA COG1555
DNA uptake protein ComE or related DNA-binding protein [Replication, recombination and repair]; ...
 38-95 1.95e-21

DNA uptake protein ComE or related DNA-binding protein [Replication, recombination and repair];


Pssm-ID: 441164 [Multi-domain]  Cd Length: 72  Bit Score: 88.00  E-value: 1.95e-21
                          10        20        30        40        50
                  ....*....|....*....|....*....|....*....|....*....|....*...
gi 1907199683  38 ERLNINTATEEELMTLPGVTRAVARSIVEYREYIGGFKKVEDLALVSGVGATKLEQVK 95
Cdd:COG1555    11 GKVDINTATAEELQTLPGIGPKLAQRIVEYREKNGPFKSVEDLLEVKGIGPKTLEKLK 68
MnuA_DNase1-like cd10283
Mycoplasma pulmonis MnuA nuclease-like; This subfamily includes Mycoplasma pulmonis MnuA, a ...
 261-440 3.15e-21

Mycoplasma pulmonis MnuA nuclease-like; This subfamily includes Mycoplasma pulmonis MnuA, a membrane-associated nuclease related to Deoxyribonuclease 1 (DNase1 or DNase I, EC 3.1.21.1). The in vivo role of MnuA is as yet undetermined. This subfamily belongs to the large EEP (exonuclease/endonuclease/phosphatase) superfamily that contains functionally diverse enzymes that share a common catalytic mechanism of cleaving phosphodiester bonds.


Pssm-ID: 197338 [Multi-domain]  Cd Length: 266  Bit Score: 93.23  E-value: 3.15e-21
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1907199683 261 FRLATWNLQ--GCSVEKANNPGVREVVCMTLLensiKLLAVQELLDK----EALEKFCTELNQPilpnirkwkgsRGCWR 334
Cdd:cd10283     1 LRIASWNILnfGNSKGKEKNPAIAEIISAFDL----DLIALQEVMDNggglDALAKLVNELNKP-----------GGTWK 65

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1907199683 335 SIVAEKPSNQLQKGPCYsGFLWDTAANVelrdIPGRESSPSNGHAKAVGPSPFLARFKVG--SNDLTLVNLQLTALALPG 412
Cdd:cd10283    66 YIVSDKTGGSSGDKERY-AFLYKSSKVR----KVGKAVLEKDSNTDGFARPPYAAKFKSGgtGFDFTLVNVHLKSGGSSK 140

                         170       180
                  ....*....|....*....|....*...
gi 1907199683 413 AENSSKNHSDGHRLLNFALTLQETLKGH 440
Cdd:cd10283   141 SGQGAKRVAEAQALAEYLKELADEDPDD 168
HHH_3 pfam12836
Helix-hairpin-helix motif; The HhH domain is a short DNA-binding domain.
 37-95 5.11e-19

Helix-hairpin-helix motif; The HhH domain is a short DNA-binding domain.


Pssm-ID: 463723 [Multi-domain]  Cd Length: 62  Bit Score: 80.60  E-value: 5.11e-19
                          10        20        30        40        50
                  ....*....|....*....|....*....|....*....|....*....|....*....
gi 1907199683  37 QERLNINTATEEELMTLPGVTRAVARSIVEYREYIGGFKKVEDLALVSGVGATKLEQVK 95
Cdd:pfam12836   1 AVGVDINTASAELLSRVPGLGPKLAKNIVEYREENGPFRSREDLLKVKGLGPKTFEQLA 59
HHH_3 pfam12836
Helix-hairpin-helix motif; The HhH domain is a short DNA-binding domain.
 136-195 2.84e-18

Helix-hairpin-helix motif; The HhH domain is a short DNA-binding domain.


Pssm-ID: 463723 [Multi-domain]  Cd Length: 62  Bit Score: 78.68  E-value: 2.84e-18
                          10        20        30        40        50        60
                  ....*....|....*....|....*....|....*....|....*....|....*....|
gi 1907199683 136 RVNINTATLAQLMSVRGLSEKMALSIVDYRREHGPFRSVEDLVRMDGINAAFLDRIRHQV 195
Cdd:pfam12836   3 GVDINTASAELLSRVPGLGPKLAKNIVEYREENGPFRSREDLLKVKGLGPKTFEQLAGFL 62
comE TIGR01259
comEA protein; This model describes the ComEA protein in bacteria. The com E locus is ...
 40-100 1.75e-13

comEA protein; This model describes the ComEA protein in bacteria. The com E locus is obligatory for bacterial cell competence - the process of internalizing the exogenous added DNA. Lesions in the loci has been variously described for the appearance of competence-related pheonotypes and impairment of competence, suggesting their intimate functional role in bacterial transformation. [Cellular processes, DNA transformation]


Pssm-ID: 213597 [Multi-domain]  Cd Length: 120  Bit Score: 66.85  E-value: 1.75e-13
                          10        20        30        40        50        60
                  ....*....|....*....|....*....|....*....|....*....|....*....|.
gi 1907199683  40 LNINTATEEELMTLPGVTRAVARSIVEYREYIGGFKKVEDLALVSGVGATKLEQVKFEICV 100
Cdd:TIGR01259  60 VNINAASLEELQALPGIGPAKAKAIIEYREENGAFKSVDDLTKVSGIGEKSLEKLKDYATV 120
comE TIGR01259
comEA protein; This model describes the ComEA protein in bacteria. The com E locus is ...
 137-195 5.75e-12

comEA protein; This model describes the ComEA protein in bacteria. The com E locus is obligatory for bacterial cell competence - the process of internalizing the exogenous added DNA. Lesions in the loci has been variously described for the appearance of competence-related pheonotypes and impairment of competence, suggesting their intimate functional role in bacterial transformation. [Cellular processes, DNA transformation]


Pssm-ID: 213597 [Multi-domain]  Cd Length: 120  Bit Score: 62.61  E-value: 5.75e-12
                          10        20        30        40        50
                  ....*....|....*....|....*....|....*....|....*....|....*....
gi 1907199683 137 VNINTATLAQLMSVRGLSEKMALSIVDYRREHGPFRSVEDLVRMDGINAAFLDRIRHQV 195
Cdd:TIGR01259  60 VNINAASLEELQALPGIGPAKAKAIIEYREENGAFKSVDDLTKVSGIGEKSLEKLKDYA 118
dnaE2 PRK05672
error-prone DNA polymerase; Validated
 110-189 1.82e-04

error-prone DNA polymerase; Validated


Pssm-ID: 235553 [Multi-domain]  Cd Length: 1046  Bit Score: 44.46  E-value: 1.82e-04
                           10        20        30        40        50        60        70        80
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1907199683  110 SPSSLrrdlLAEQQPHHLTTTVP----------LTPRVNINTATLAQLMSVRGLSEKMALSIVDyRREHGPFRSVEDLVR 179
Cdd:PRK05672   775 SPQQL----VQDARRHGVEVLPVdvnasgwdatLEPLPDGGPAVRLGLRLVRGLGEEAAERIVA-ARARGPFTSVEDLAR 849

                           90
                   ....*....|
gi 1907199683  180 MDGINAAFLD 189
Cdd:PRK05672   850 RAGLDRRQLE 859
T2SS_GspK NF037980
type II secretion system minor pseudopilin GspK;
33-95 2.25e-04

type II secretion system minor pseudopilin GspK;


Pssm-ID: 468299 [Multi-domain]  Cd Length: 311  Bit Score: 43.43  E-value: 2.25e-04
                          10        20        30        40        50        60
                  ....*....|....*....|....*....|....*....|....*....|....*....|....
gi 1907199683  33 ILVNQERLNINTATEEELMTL-PGVTRAVARSIVEYREYiGGFKKVEDLALVSGVGATKLEQVK 95
Cdd:NF037980  206 LPTTTLAINVNTAPAEVLAALaALLSLSQARALLAARPA-AGFRSVGDFLAQLALAGLALDASD 268
T2SS_GspK NF037980
type II secretion system minor pseudopilin GspK;
109-177 3.66e-04

type II secretion system minor pseudopilin GspK;


Pssm-ID: 468299 [Multi-domain]  Cd Length: 311  Bit Score: 42.66  E-value: 3.66e-04
                          10        20        30        40        50        60        70
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*.
gi 1907199683 109 HSPSSLRR------DLLAEQQPHhLTTTVPLTPRVNINTATLAQLMSVR-GLSEKMALSIVDyRREHGPFRSVEDL 177
Cdd:NF037980  180 ADVSELRLvpgvtpALYARLRPY-VCALPTTTLAINVNTAPAEVLAALAaLLSLSQARALLA-ARPAAGFRSVGDF 253
 
Name Accession Description Interval E-value
ComEA COG1555
DNA uptake protein ComE or related DNA-binding protein [Replication, recombination and repair]; ...
 127-195 1.34e-22

DNA uptake protein ComE or related DNA-binding protein [Replication, recombination and repair];


Pssm-ID: 441164 [Multi-domain]  Cd Length: 72  Bit Score: 91.08  E-value: 1.34e-22
                          10        20        30        40        50        60
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....
gi 1907199683 127 LTTTVPLTPRVNINTATLAQLMSVRGLSEKMALSIVDYRREHGPFRSVEDLVRMDGINAAFLDRIRHQV 195
Cdd:COG1555     3 ASASAAAGGKVDINTATAEELQTLPGIGPKLAQRIVEYREKNGPFKSVEDLLEVKGIGPKTLEKLKPYL 71
ComEA COG1555
DNA uptake protein ComE or related DNA-binding protein [Replication, recombination and repair]; ...
 38-95 1.95e-21

DNA uptake protein ComE or related DNA-binding protein [Replication, recombination and repair];


Pssm-ID: 441164 [Multi-domain]  Cd Length: 72  Bit Score: 88.00  E-value: 1.95e-21
                          10        20        30        40        50
                  ....*....|....*....|....*....|....*....|....*....|....*...
gi 1907199683  38 ERLNINTATEEELMTLPGVTRAVARSIVEYREYIGGFKKVEDLALVSGVGATKLEQVK 95
Cdd:COG1555    11 GKVDINTATAEELQTLPGIGPKLAQRIVEYREKNGPFKSVEDLLEVKGIGPKTLEKLK 68
MnuA_DNase1-like cd10283
Mycoplasma pulmonis MnuA nuclease-like; This subfamily includes Mycoplasma pulmonis MnuA, a ...
 261-440 3.15e-21

Mycoplasma pulmonis MnuA nuclease-like; This subfamily includes Mycoplasma pulmonis MnuA, a membrane-associated nuclease related to Deoxyribonuclease 1 (DNase1 or DNase I, EC 3.1.21.1). The in vivo role of MnuA is as yet undetermined. This subfamily belongs to the large EEP (exonuclease/endonuclease/phosphatase) superfamily that contains functionally diverse enzymes that share a common catalytic mechanism of cleaving phosphodiester bonds.


Pssm-ID: 197338 [Multi-domain]  Cd Length: 266  Bit Score: 93.23  E-value: 3.15e-21
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1907199683 261 FRLATWNLQ--GCSVEKANNPGVREVVCMTLLensiKLLAVQELLDK----EALEKFCTELNQPilpnirkwkgsRGCWR 334
Cdd:cd10283     1 LRIASWNILnfGNSKGKEKNPAIAEIISAFDL----DLIALQEVMDNggglDALAKLVNELNKP-----------GGTWK 65

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1907199683 335 SIVAEKPSNQLQKGPCYsGFLWDTAANVelrdIPGRESSPSNGHAKAVGPSPFLARFKVG--SNDLTLVNLQLTALALPG 412
Cdd:cd10283    66 YIVSDKTGGSSGDKERY-AFLYKSSKVR----KVGKAVLEKDSNTDGFARPPYAAKFKSGgtGFDFTLVNVHLKSGGSSK 140

                         170       180
                  ....*....|....*....|....*...
gi 1907199683 413 AENSSKNHSDGHRLLNFALTLQETLKGH 440
Cdd:cd10283   141 SGQGAKRVAEAQALAEYLKELADEDPDD 168
HHH_3 pfam12836
Helix-hairpin-helix motif; The HhH domain is a short DNA-binding domain.
 37-95 5.11e-19

Helix-hairpin-helix motif; The HhH domain is a short DNA-binding domain.


Pssm-ID: 463723 [Multi-domain]  Cd Length: 62  Bit Score: 80.60  E-value: 5.11e-19
                          10        20        30        40        50
                  ....*....|....*....|....*....|....*....|....*....|....*....
gi 1907199683  37 QERLNINTATEEELMTLPGVTRAVARSIVEYREYIGGFKKVEDLALVSGVGATKLEQVK 95
Cdd:pfam12836   1 AVGVDINTASAELLSRVPGLGPKLAKNIVEYREENGPFRSREDLLKVKGLGPKTFEQLA 59
HHH_3 pfam12836
Helix-hairpin-helix motif; The HhH domain is a short DNA-binding domain.
 136-195 2.84e-18

Helix-hairpin-helix motif; The HhH domain is a short DNA-binding domain.


Pssm-ID: 463723 [Multi-domain]  Cd Length: 62  Bit Score: 78.68  E-value: 2.84e-18
                          10        20        30        40        50        60
                  ....*....|....*....|....*....|....*....|....*....|....*....|
gi 1907199683 136 RVNINTATLAQLMSVRGLSEKMALSIVDYRREHGPFRSVEDLVRMDGINAAFLDRIRHQV 195
Cdd:pfam12836   3 GVDINTASAELLSRVPGLGPKLAKNIVEYREENGPFRSREDLLKVKGLGPKTFEQLAGFL 62
comE TIGR01259
comEA protein; This model describes the ComEA protein in bacteria. The com E locus is ...
 40-100 1.75e-13

comEA protein; This model describes the ComEA protein in bacteria. The com E locus is obligatory for bacterial cell competence - the process of internalizing the exogenous added DNA. Lesions in the loci has been variously described for the appearance of competence-related pheonotypes and impairment of competence, suggesting their intimate functional role in bacterial transformation. [Cellular processes, DNA transformation]


Pssm-ID: 213597 [Multi-domain]  Cd Length: 120  Bit Score: 66.85  E-value: 1.75e-13
                          10        20        30        40        50        60
                  ....*....|....*....|....*....|....*....|....*....|....*....|.
gi 1907199683  40 LNINTATEEELMTLPGVTRAVARSIVEYREYIGGFKKVEDLALVSGVGATKLEQVKFEICV 100
Cdd:TIGR01259  60 VNINAASLEELQALPGIGPAKAKAIIEYREENGAFKSVDDLTKVSGIGEKSLEKLKDYATV 120
comE TIGR01259
comEA protein; This model describes the ComEA protein in bacteria. The com E locus is ...
 137-195 5.75e-12

comEA protein; This model describes the ComEA protein in bacteria. The com E locus is obligatory for bacterial cell competence - the process of internalizing the exogenous added DNA. Lesions in the loci has been variously described for the appearance of competence-related pheonotypes and impairment of competence, suggesting their intimate functional role in bacterial transformation. [Cellular processes, DNA transformation]


Pssm-ID: 213597 [Multi-domain]  Cd Length: 120  Bit Score: 62.61  E-value: 5.75e-12
                          10        20        30        40        50
                  ....*....|....*....|....*....|....*....|....*....|....*....
gi 1907199683 137 VNINTATLAQLMSVRGLSEKMALSIVDYRREHGPFRSVEDLVRMDGINAAFLDRIRHQV 195
Cdd:TIGR01259  60 VNINAASLEELQALPGIGPAKAKAIIEYREENGAFKSVDDLTKVSGIGEKSLEKLKDYA 118
TIGR00426 TIGR00426
competence protein ComEA helix-hairpin-helix repeat region; Members of the subfamily ...
 136-192 2.10e-11

competence protein ComEA helix-hairpin-helix repeat region; Members of the subfamily recognized by this model include competence protein ComEA and closely related proteins from a number of species that exhibit competence for transformation by exongenous DNA, including Streptococcus pneumoniae, Bacillus subtilis, Neisseria meningitidis, and Haemophilus influenzae. This model represents a region of two tandem copies of a helix-hairpin-helix domain (pfam00633), each about 30 residues in length. Limited sequence similarity can be found among some members of this family N-terminal to the region covered by this model. [Cellular processes, DNA transformation]


Pssm-ID: 129520 [Multi-domain]  Cd Length: 69  Bit Score: 59.56  E-value: 2.10e-11
                          10        20        30        40        50
                  ....*....|....*....|....*....|....*....|....*....|....*...
gi 1907199683 136 RVNINTATLAQLM-SVRGLSEKMALSIVDYRREHGPFRSVEDLVRMDGINAAFLDRIR 192
Cdd:TIGR00426   7 RVNINTATAEELQrAMNGVGLKKAEAIVSYREEYGPFKTVEDLKQVPGIGNSLVEKNL 64
TIGR00426 TIGR00426
competence protein ComEA helix-hairpin-helix repeat region; Members of the subfamily ...
 39-100 2.32e-10

competence protein ComEA helix-hairpin-helix repeat region; Members of the subfamily recognized by this model include competence protein ComEA and closely related proteins from a number of species that exhibit competence for transformation by exongenous DNA, including Streptococcus pneumoniae, Bacillus subtilis, Neisseria meningitidis, and Haemophilus influenzae. This model represents a region of two tandem copies of a helix-hairpin-helix domain (pfam00633), each about 30 residues in length. Limited sequence similarity can be found among some members of this family N-terminal to the region covered by this model. [Cellular processes, DNA transformation]


Pssm-ID: 129520 [Multi-domain]  Cd Length: 69  Bit Score: 56.48  E-value: 2.32e-10
                          10        20        30        40        50        60
                  ....*....|....*....|....*....|....*....|....*....|....*....|...
gi 1907199683  39 RLNINTATEEELM-TLPGVTRAVARSIVEYREYIGGFKKVEDLALVSGVGATKLEQVKFEICV 100
Cdd:TIGR00426   7 RVNINTATAEELQrAMNGVGLKKAEAIVSYREEYGPFKTVEDLKQVPGIGNSLVEKNLAVITL 69
Tex COG2183
Transcriptional accessory protein Tex/SPT6 [Transcription];
137-177 2.30e-07

Transcriptional accessory protein Tex/SPT6 [Transcription];


Pssm-ID: 441786 [Multi-domain]  Cd Length: 719  Bit Score: 53.49  E-value: 2.30e-07
                          10        20        30        40
                  ....*....|....*....|....*....|....*....|..
gi 1907199683 137 VNINTATlAQLMS-VRGLSEKMALSIVDYRREHGPFRSVEDL 177
Cdd:COG2183   487 VDLNTAS-APLLSyVSGLNPTLAKNIVAYRDENGAFKSRKEL 527
HHH pfam00633
Helix-hairpin-helix motif; The helix-hairpin-helix DNA-binding motif is found to be duplicated ...
 41-67 3.67e-06

Helix-hairpin-helix motif; The helix-hairpin-helix DNA-binding motif is found to be duplicated in the central domain of RuvA. The HhH domain of DisA, a bacterial checkpoint control protein, is a DNA-binding domain.


Pssm-ID: 425789 [Multi-domain]  Cd Length: 30  Bit Score: 43.56  E-value: 3.67e-06
                          10        20
                  ....*....|....*....|....*..
gi 1907199683  41 NINTATEEELMTLPGVTRAVARSIVEY 67
Cdd:pfam00633   4 GLIPASVEELLALPGVGPKTAEAILSY 30
PulK COG3156
Type II secretory pathway, component PulK [Intracellular trafficking, secretion, and vesicular ...
 39-93 4.55e-05

Type II secretory pathway, component PulK [Intracellular trafficking, secretion, and vesicular transport];


Pssm-ID: 442390 [Multi-domain]  Cd Length: 307  Bit Score: 45.38  E-value: 4.55e-05
                          10        20        30        40        50
                  ....*....|....*....|....*....|....*....|....*....|....*.
gi 1907199683  39 RLNINTATEEELMTL-PGVTRAVARSIVEYREyIGGFKKVEDLALVSGVGATKLEQ 93
Cdd:COG3156   212 KINVNTAPPEVLAALlGGLSLDDAQALLAARP-EKGFADVADFLALLGLAGLDLLK 266
DnaE COG0587
DNA polymerase III, alpha subunit [Replication, recombination and repair];
147-179 7.53e-05

DNA polymerase III, alpha subunit [Replication, recombination and repair];


Pssm-ID: 440352 [Multi-domain]  Cd Length: 1050  Bit Score: 45.45  E-value: 7.53e-05
                           10        20        30
                   ....*....|....*....|....*....|...
gi 1907199683  147 LMSVRGLSEKMALSIVDYRREHGPFRSVEDLVR 179
Cdd:COG0587    817 LGAIKGVGEAAAEAIVAAREENGPFTSLFDFCR 849
dnaE2 PRK05672
error-prone DNA polymerase; Validated
 110-189 1.82e-04

error-prone DNA polymerase; Validated


Pssm-ID: 235553 [Multi-domain]  Cd Length: 1046  Bit Score: 44.46  E-value: 1.82e-04
                           10        20        30        40        50        60        70        80
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1907199683  110 SPSSLrrdlLAEQQPHHLTTTVP----------LTPRVNINTATLAQLMSVRGLSEKMALSIVDyRREHGPFRSVEDLVR 179
Cdd:PRK05672   775 SPQQL----VQDARRHGVEVLPVdvnasgwdatLEPLPDGGPAVRLGLRLVRGLGEEAAERIVA-ARARGPFTSVEDLAR 849

                           90
                   ....*....|
gi 1907199683  180 MDGINAAFLD 189
Cdd:PRK05672   850 RAGLDRRQLE 859
T2SS_GspK NF037980
type II secretion system minor pseudopilin GspK;
33-95 2.25e-04

type II secretion system minor pseudopilin GspK;


Pssm-ID: 468299 [Multi-domain]  Cd Length: 311  Bit Score: 43.43  E-value: 2.25e-04
                          10        20        30        40        50        60
                  ....*....|....*....|....*....|....*....|....*....|....*....|....
gi 1907199683  33 ILVNQERLNINTATEEELMTL-PGVTRAVARSIVEYREYiGGFKKVEDLALVSGVGATKLEQVK 95
Cdd:NF037980  206 LPTTTLAINVNTAPAEVLAALaALLSLSQARALLAARPA-AGFRSVGDFLAQLALAGLALDASD 268
Tex COG2183
Transcriptional accessory protein Tex/SPT6 [Transcription];
35-93 2.47e-04

Transcriptional accessory protein Tex/SPT6 [Transcription];


Pssm-ID: 441786 [Multi-domain]  Cd Length: 719  Bit Score: 43.86  E-value: 2.47e-04
                          10        20        30        40        50
                  ....*....|....*....|....*....|....*....|....*....|....*....
gi 1907199683  35 VNQERLNINTATEEELMTLPGVTRAVARSIVEYREYIGGFKKVEDLALVSGVGATKLEQ 93
Cdd:COG2183   482 VNAVGVDLNTASAPLLSYVSGLNPTLAKNIVAYRDENGAFKSRKELLKVPRLGPKAFEQ 540
T2SS_GspK NF037980
type II secretion system minor pseudopilin GspK;
109-177 3.66e-04

type II secretion system minor pseudopilin GspK;


Pssm-ID: 468299 [Multi-domain]  Cd Length: 311  Bit Score: 42.66  E-value: 3.66e-04
                          10        20        30        40        50        60        70
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*.
gi 1907199683 109 HSPSSLRR------DLLAEQQPHhLTTTVPLTPRVNINTATLAQLMSVR-GLSEKMALSIVDyRREHGPFRSVEDL 177
Cdd:NF037980  180 ADVSELRLvpgvtpALYARLRPY-VCALPTTTLAINVNTAPAEVLAALAaLLSLSQARALLA-ARPAAGFRSVGDF 253
PulK COG3156
Type II secretory pathway, component PulK [Intracellular trafficking, secretion, and vesicular ...
 110-190 3.91e-04

Type II secretory pathway, component PulK [Intracellular trafficking, secretion, and vesicular transport];


Pssm-ID: 442390 [Multi-domain]  Cd Length: 307  Bit Score: 42.29  E-value: 3.91e-04
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1907199683 110 SPSSLR------RDLLAEQQPHhlTTTVPLTPRVNINTATLAQLMSV-RGLSEKMALSIVDYRREhGPFRSVEDLVRMDG 182
Cdd:COG3156   182 SVSELRlvkgmtPELYARLAPY--VTALPGDTKINVNTAPPEVLAALlGGLSLDDAQALLAARPE-KGFADVADFLALLG 258


                  ....*...
gi 1907199683 183 INAAFLDR 190
Cdd:COG3156   259 LAGLDLLK 266
T2SSK pfam03934
Type II secretion system (T2SS), protein K; Members of this family are involved in the Type II ...
 39-102 6.43e-04

Type II secretion system (T2SS), protein K; Members of this family are involved in the Type II protein secretion system. The T2SK family includes proteins such as ExeK, PulK, OutX and XcpX.


Pssm-ID: 427597 [Multi-domain]  Cd Length: 283  Bit Score: 41.54  E-value: 6.43e-04
                          10        20        30        40        50        60
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*...
gi 1907199683  39 RLNINTATEEELMTL-PGVTRAVARSIVEYREyIGGFKKVED---LALVSGVGATKLEQVKFEICVSS 102
Cdd:pfam03934 185 PINVNTAPAEVLAALfDGLSLDQAQALLAQRP-ADGFESVDDflaQPALGGGIAPSTAQLKTLLTVKS 251
HHH_6 pfam14579
Helix-hairpin-helix motif; The HHH domain is a short DNA-binding domain.
 147-179 1.62e-03

Helix-hairpin-helix motif; The HHH domain is a short DNA-binding domain.


Pssm-ID: 434050 [Multi-domain]  Cd Length: 88  Bit Score: 37.45  E-value: 1.62e-03
                          10        20        30
                  ....*....|....*....|....*....|...
gi 1907199683 147 LMSVRGLSEKMALSIVDyRREHGPFRSVEDLVR 179
Cdd:pfam14579  27 LGAIKGLGEAAAERIVE-ERENGPFKSLEDFAR 58
HHH_5 pfam14520
Helix-hairpin-helix domain;
47-98 2.66e-03

Helix-hairpin-helix domain;


Pssm-ID: 434010 [Multi-domain]  Cd Length: 57  Bit Score: 35.93  E-value: 2.66e-03
                          10        20        30        40        50        60
                  ....*....|....*....|....*....|....*....|....*....|....*....|
gi 1907199683  47 EEELMTLPGVTRAVARSIVEyreyiGGFKKVEDLA--------LVSGVGATKLEQVKFEI 98
Cdd:pfam14520   1 FEELLSISGIGPKTALALLS-----AGIGTVEDLAeadvdelaEIPGIGEKTAQRIILEL 55
 
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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