|
Name |
Accession |
Description |
Interval |
E-value |
| VacB super family |
cl43181 |
Exoribonuclease R [Transcription]; |
228-757 |
5.33e-122 |
|
Exoribonuclease R [Transcription];
The actual alignment was detected with superfamily member COG0557:
Pssm-ID: 440323 [Multi-domain] Cd Length: 711 Bit Score: 385.61 E-value: 5.33e-122
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1720354355 228 PIPQDTRGLSEkslqksAKVVYILEKKHSRAaTGILKLLadknsdlfKKYALFSPSDHRVPR-IYVPLKDCPQdfmtrPK 306
Cdd:COG0557 113 VTKEDRRGRPE------GRVVEILERANTRV-VGRFEKE--------KGFGFVVPDDKRLLQdIFIPPDDLNG-----AK 172
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1720354355 307 DfaNTLFICRIIDWKEDCNFALGQLAKSLGQAGEIEPETEGILTEYGVDFsDFSSEVLECLpQSLPWTIPPDEVGKRRDL 386
Cdd:COG0557 173 D--GDLVVVEITRYPERRGPPEGRVVEVLGSPGDPGAEILIAIRKHGLPH-EFPEEVLAEA-EALPDEVPEADLKGRRDL 248
|
170 180 190 200 210 220 230 240
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1720354355 387 RKDCIFTIDPSTARDLDDALACRRLTDGTFEVGVHIADVSYFVPEGSSLDKVAAERATSVYLVQKVVPMLPRLLCEELCS 466
Cdd:COG0557 249 RDLPLVTIDGEDAKDFDDAVSAEKLDNGGWRLGVHIADVSHYVRPGSALDREARKRGTSVYLPDRVIPMLPERLSNGLCS 328
|
250 260 270 280 290 300 310 320
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1720354355 467 LNPMTDKLTFSVIWKLTPEGKILEEWFGRTIIRSCTKLSYDHAQSMIENPTEKIPEEElppispehsvEEVHQAVLNLHS 546
Cdd:COG0557 329 LNPGEDRLAMSCEMEIDAKGEVVSYEFYRSVIRSDARLTYEEVQAILDGKDEELREEY----------ADLVPMLEELYE 398
|
330 340 350 360 370 380 390 400
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1720354355 547 IAKQLRRQRFVDGALRLDQLKLAFTLDhETGLPQGCHIYEYRDSNKLVEEFMLLANMAVAHKIFRTfpEQALLRR-HPPP 625
Cdd:COG0557 399 LAKILRKAREKRGAIDFDLPETKIILD-EEGKPEDIVPRERNDAHKLIEEFMLLANEAVAEFLEKL--KLPFLYRvHEEP 475
|
410 420 430 440 450 460 470 480
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1720354355 626 QTKMLSDLVEFCDQMGLPM---DVSSAGALNKsLTKTFGDDKYSlarkEVLTNMYSRPMQMALYfcsgmlqDQEQFRHYA 702
Cdd:COG0557 476 DPEKLEALREFLANLGLKLkggDEPTPKDLQK-LLEQVKGRPEE----ELLNTLLLRSMKQAVY-------SPENIGHFG 543
|
490 500 510 520 530
....*....|....*....|....*....|....*....|....*....|....*....
gi 1720354355 703 LNVPLYTHFTSPIRRFADVIVHRLLAAALG---YSEQPDVEPDTLQKQADHCNDR-RMA 757
Cdd:COG0557 544 LALEAYTHFTSPIRRYPDLLVHRALKAYLEgkrSPGLQEYLEEELEEIAEHCSETeRRA 602
|
|
| Dis3l2_C_term |
pfam17877 |
DIS3-like exonuclease 2 C terminal; This is the C-terminal S1 domain found in Dis3L2 proteins. ... |
778-867 |
4.25e-31 |
|
DIS3-like exonuclease 2 C terminal; This is the C-terminal S1 domain found in Dis3L2 proteins. Dis3L2 belongs to the RNase II/R 3-5 exonuclease superfamily, which includes the catalytic subunit of the RNA exosome in yeast and in humans.
:
Pssm-ID: 465547 Cd Length: 87 Bit Score: 116.98 E-value: 4.25e-31
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1720354355 778 GPLESEAMVMGVLNQAFDVLVLRFGVQKRIYCNALALRSYSFQKVGKkpeLTLVWEPDDLEEEPTQQVITIFSLVDVVLQ 857
Cdd:pfam17877 1 GPLETEAVVLGVLDSSFDVLIPEYGIEKRVYLDQLPLKKFEFDKTGV---LTLYWKKGVPSSAYVPEDERFSSLVVVVLK 77
|
90
....*....|
gi 1720354355 858 AEATALKYSA 867
Cdd:pfam17877 78 SDSDPLKLEA 87
|
|
| Rrp44_CSD1 super family |
cl28867 |
Rrp44-like cold shock domain; |
50-250 |
2.59e-10 |
|
Rrp44-like cold shock domain;
The actual alignment was detected with superfamily member pfam17216:
Pssm-ID: 375054 Cd Length: 148 Bit Score: 59.40 E-value: 2.59e-10
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1720354355 50 FETYMSKEDVSEGLKRGTLIQGVLRINPKKFHEAFIPSPDGDRDIFIDGVVARNRALNGDLVVVKLLPEDQWKPritlsl 129
Cdd:pfam17216 4 FPEYYSTARVMGGLKNGVLYQGNIQISEYNFLEGSVSLPRFSKPVLIVGQKNLNRAFNGDQVIVELLPQSEWKA------ 77
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1720354355 130 PGVLGLQAVKPESNDKeieatyeadipeegcghhplqqsrkgwsgPDviIEAQfDDSDSEDRHGNTSGLVDGVKKLsist 209
Cdd:pfam17216 78 PSSIVLDSEHFDVNDN-----------------------------PD--IEAG-DDDDNNESSSNTTVISDKQRRL---- 121
|
170 180 190 200
....*....|....*....|....*....|....*....|.
gi 1720354355 210 pdrgkedsstpVMKDenTPIPQDTrglseKSLQKSAKVVYI 250
Cdd:pfam17216 122 -----------LAKD--AMIAQRS-----KKIQPTAKVVYI 144
|
|
| |
|
Name |
Accession |
Description |
Interval |
E-value |
| VacB |
COG0557 |
Exoribonuclease R [Transcription]; |
228-757 |
5.33e-122 |
|
Exoribonuclease R [Transcription];
Pssm-ID: 440323 [Multi-domain] Cd Length: 711 Bit Score: 385.61 E-value: 5.33e-122
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1720354355 228 PIPQDTRGLSEkslqksAKVVYILEKKHSRAaTGILKLLadknsdlfKKYALFSPSDHRVPR-IYVPLKDCPQdfmtrPK 306
Cdd:COG0557 113 VTKEDRRGRPE------GRVVEILERANTRV-VGRFEKE--------KGFGFVVPDDKRLLQdIFIPPDDLNG-----AK 172
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1720354355 307 DfaNTLFICRIIDWKEDCNFALGQLAKSLGQAGEIEPETEGILTEYGVDFsDFSSEVLECLpQSLPWTIPPDEVGKRRDL 386
Cdd:COG0557 173 D--GDLVVVEITRYPERRGPPEGRVVEVLGSPGDPGAEILIAIRKHGLPH-EFPEEVLAEA-EALPDEVPEADLKGRRDL 248
|
170 180 190 200 210 220 230 240
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1720354355 387 RKDCIFTIDPSTARDLDDALACRRLTDGTFEVGVHIADVSYFVPEGSSLDKVAAERATSVYLVQKVVPMLPRLLCEELCS 466
Cdd:COG0557 249 RDLPLVTIDGEDAKDFDDAVSAEKLDNGGWRLGVHIADVSHYVRPGSALDREARKRGTSVYLPDRVIPMLPERLSNGLCS 328
|
250 260 270 280 290 300 310 320
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1720354355 467 LNPMTDKLTFSVIWKLTPEGKILEEWFGRTIIRSCTKLSYDHAQSMIENPTEKIPEEElppispehsvEEVHQAVLNLHS 546
Cdd:COG0557 329 LNPGEDRLAMSCEMEIDAKGEVVSYEFYRSVIRSDARLTYEEVQAILDGKDEELREEY----------ADLVPMLEELYE 398
|
330 340 350 360 370 380 390 400
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1720354355 547 IAKQLRRQRFVDGALRLDQLKLAFTLDhETGLPQGCHIYEYRDSNKLVEEFMLLANMAVAHKIFRTfpEQALLRR-HPPP 625
Cdd:COG0557 399 LAKILRKAREKRGAIDFDLPETKIILD-EEGKPEDIVPRERNDAHKLIEEFMLLANEAVAEFLEKL--KLPFLYRvHEEP 475
|
410 420 430 440 450 460 470 480
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1720354355 626 QTKMLSDLVEFCDQMGLPM---DVSSAGALNKsLTKTFGDDKYSlarkEVLTNMYSRPMQMALYfcsgmlqDQEQFRHYA 702
Cdd:COG0557 476 DPEKLEALREFLANLGLKLkggDEPTPKDLQK-LLEQVKGRPEE----ELLNTLLLRSMKQAVY-------SPENIGHFG 543
|
490 500 510 520 530
....*....|....*....|....*....|....*....|....*....|....*....
gi 1720354355 703 LNVPLYTHFTSPIRRFADVIVHRLLAAALG---YSEQPDVEPDTLQKQADHCNDR-RMA 757
Cdd:COG0557 544 LALEAYTHFTSPIRRYPDLLVHRALKAYLEgkrSPGLQEYLEEELEEIAEHCSETeRRA 602
|
|
| RNB |
pfam00773 |
RNB domain; This domain is the catalytic domain of ribonuclease II. |
383-731 |
1.02e-113 |
|
RNB domain; This domain is the catalytic domain of ribonuclease II.
Pssm-ID: 459934 [Multi-domain] Cd Length: 314 Bit Score: 350.05 E-value: 1.02e-113
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1720354355 383 RRDLRKDCIFTIDPSTARDLDDALACRRLTDGTFEVGVHIADVSYFVPEGSSLDKVAAERATSVYLVQKVVPMLPRLLCE 462
Cdd:pfam00773 1 RKDLRDLPFITIDPADAKDLDDAISVEKLPNGGYRLGVHIADVSHYVPPGSPLDREARKRGTSVYLPDRVIPMLPEKLSN 80
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1720354355 463 ELCSLNPMTDKLTFSVIWKLTPEGKILEEWFGRTIIRSCTKLSYDHAQSMIENPTEKIPEEELppispehsveevHQAVL 542
Cdd:pfam00773 81 DLCSLNPGEDRLALSVEITIDADGEVTSYEIYPSVIRSKARLTYEEVDDLLEGKDAEKDKPDL------------AEDLR 148
|
170 180 190 200 210 220 230 240
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1720354355 543 NLHSIAKQLRRQRFVDGALRLDQLKLAFTLDHETglPQGCHIYEYRDSNKLVEEFMLLANMAVAHKIfRTFPEQALLRRH 622
Cdd:pfam00773 149 LLYELAKILRAKRLQRGALDLDTPENKLILDEEG--VIDILIQERTDAHSLIEEFMLLANEAVARHL-QELGIPALYRVH 225
|
250 260 270 280 290 300 310 320
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1720354355 623 PPPQTKMLSDLVEFCDQMGLPMdvssagALNKSLTKTFGDdkyslarKEVLTNMYSRPMQMALYFcsgmlqdQEQFRHYA 702
Cdd:pfam00773 226 PEPDLEKLNSLIKLLQLLPDDK------GLSKSLEKIKDD-------ERLLSILLLRTMPRAEYS-------PEPLGHFG 285
|
330 340
....*....|....*....|....*....
gi 1720354355 703 LNVPLYTHFTSPIRRFADVIVHRLLAAAL 731
Cdd:pfam00773 286 LGLDIYTHFTSPIRRYPDLIVHRQLKALL 314
|
|
| RNB |
smart00955 |
This domain is the catalytic domain of ribonuclease II; |
383-732 |
1.11e-104 |
|
This domain is the catalytic domain of ribonuclease II;
Pssm-ID: 214935 [Multi-domain] Cd Length: 286 Bit Score: 325.38 E-value: 1.11e-104
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1720354355 383 RRDLRKDCIFTIDPSTARDLDDALACRRLTDGTFEVGVHIADVSYFVPEGSSLDKVAAERATSVYLVQKVVPMLPRLLCE 462
Cdd:smart00955 1 RVDLRDLPLFTIDPEDAKDIDDAVSVEKLDNGGYRLGVHIADVSHYVKPGSALDREARKRGTSVYLPDRVIPMLPEELSN 80
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1720354355 463 ELCSLNPMTDKLTFSVIWKLTPEG-KILEEWFGRTIIRSCTKLSYDHAQSMIENptekipeeelppispehsveevhqav 541
Cdd:smart00955 81 GLCSLNPGEDRLALSVEMTLDADGgEILDYEFYRSVIRSKARLTYEEVDAILEK-------------------------- 134
|
170 180 190 200 210 220 230 240
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1720354355 542 lnlhsiakqlrrqrfvdgalrldqlklaFTLDHEtGLPQGCHIYEYRDSNKLVEEFMLLANMAVAHKIFRTFPeQALLRR 621
Cdd:smart00955 135 ----------------------------IVLDEE-GKIEDIVPRERNDAHSLVEEFMILANEAVARFLAKNGI-PGLYRV 184
|
250 260 270 280 290 300 310 320
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1720354355 622 HPPPQTKMLSD-LVEFCDQMGLPM-DVSSAGALNKSLTKTFGDDKyslarKEVLTNMYSRPMQMALYFCSGmlqdqeqFR 699
Cdd:smart00955 185 HEGPDPEKLAElLKEFLALLGLLLlGGDGPKALAKLLEKIRDSPE-----ERLLELLLLRSMPHAEYSVDN-------SG 252
|
330 340 350
....*....|....*....|....*....|...
gi 1720354355 700 HYALNVPLYTHFTSPIRRFADVIVHRLLAAALG 732
Cdd:smart00955 253 HFGLALDAYTHFTSPIRRYPDLIVHRQLKAALR 285
|
|
| RNase_R |
TIGR02063 |
ribonuclease R; This family consists of an exoribonuclease, ribonuclease R, also called VacB. ... |
243-754 |
1.46e-96 |
|
ribonuclease R; This family consists of an exoribonuclease, ribonuclease R, also called VacB. It is one of the eight exoribonucleases reported in E. coli and is broadly distributed throughout the bacteria. In E. coli, double mutants of this protein and polynucleotide phosphorylase are not viable. Scoring between trusted and noise cutoffs to the model are shorter, divergent forms from the Chlamydiae, and divergent forms from the Campylobacterales (including Helicobacter pylori) and Leptospira interrogans. [Transcription, Degradation of RNA]
Pssm-ID: 273947 [Multi-domain] Cd Length: 709 Bit Score: 318.06 E-value: 1.46e-96
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1720354355 243 KSAKVVYILEKKHSRAATGILKLladknsdlfKKYALFSPSDHRVP-RIYVPLKDCpqdfmTRPKDfaNTLFICRIIDWK 321
Cdd:TIGR02063 123 FEARVIKILERANDQIVGTFYIE---------NGIGFVIPDDKRIYlDIFIPPEQI-----LGAEE--GDKVLVEITKYP 186
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1720354355 322 EDCNFALGQLAKSLGQAGEIEPETEGILTEYGVDFsDFSSEVLEcLPQSLPWTIPPDEVGKRRDLRKDCIFTIDPSTARD 401
Cdd:TIGR02063 187 DRNRPAIGKVVEILGHADDPGIDILIIIRKHGIPY-EFPEEVLD-EAAKIPEEVPEEEIKGRKDLRDLPFVTIDGEDAKD 264
|
170 180 190 200 210 220 230 240
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1720354355 402 LDDALACRRLTDGTFEVGVHIADVSYFVPEGSSLDKVAAERATSVYLVQKVVPMLPRLLCEELCSLNPMTDKLTFSVIWK 481
Cdd:TIGR02063 265 FDDAVYVEKLKDGNYKLGVAIADVSHYVREGSALDKEALKRGTSVYLPDRVIPMLPERLSNGICSLNPNEDRLTLSCEME 344
|
250 260 270 280 290 300 310 320
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1720354355 482 LTPEGKILEEWFGRTIIRSCTKLSYDHAQSMIENptEKIPEEELPPISPEhsveevhqaVLNLHSIAKQLRRQRFVDGAL 561
Cdd:TIGR02063 345 IDKKGRVKKYEFYEAVINSHARLTYNQVNDIIEG--KDALDKKEPPLKEM---------LKNLFELYKILRKKRKKRGAI 413
|
330 340 350 360 370 380 390 400
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1720354355 562 RLDQLKLAFTLDhETGLPQGCHIYEYRDSNKLVEEFMLLANMAVAHKIFRTfPEQALLRRHPPPQTKMLSDLVEFCDQMG 641
Cdd:TIGR02063 414 DFDSKEAKIILD-ENGKPIDIVPRERGDAHKLIEEFMIAANETVAEHLEKA-KLPFIYRVHERPSEEKLQNLREFLKTLG 491
|
410 420 430 440 450 460 470 480
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1720354355 642 LPMDVSSA-----GALNKSLTKTFGDDKYSLARKEVLtnmysRPMQMALYfcsgmlqDQEQFRHYALNVPLYTHFTSPIR 716
Cdd:TIGR02063 492 ITLKGGTSdkpqpKDFQKLLEKVKGRPEEELINTVLL-----RSMQQAKY-------SPENIGHFGLALEYYTHFTSPIR 559
|
490 500 510 520
....*....|....*....|....*....|....*....|....
gi 1720354355 717 RFADVIVHRLLAAALG------YSEQPDVEPDTLQKQADHCNDR 754
Cdd:TIGR02063 560 RYPDLIVHRLIKKALFggenttTEKEREYLEAKLEEIAEHSSKT 603
|
|
| PRK11642 |
PRK11642 |
ribonuclease R; |
377-735 |
1.34e-40 |
|
ribonuclease R;
Pssm-ID: 236944 [Multi-domain] Cd Length: 813 Bit Score: 161.06 E-value: 1.34e-40
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1720354355 377 PDEVGKRR-DLRKDCIFTIDPSTARDLDDALACRRLTDGTFEVGVHIADVSYFVPEGSSLDKVAAERATSVYLVQKVVPM 455
Cdd:PRK11642 253 PEEAKAGRvDLRDLPLVTIDGEDARDFDDAVYCEKKRGGGWRLWVAIADVSYYVRPPTPLDREARNRGTSVYFPSQVVPM 332
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1720354355 456 LPRLLCEELCSLNPMTDKLTFSVIWKLTPEGKILEEWFGRTIIRSCTKLSYDHAQSMIENpTEKIPEEELPPISPehsVE 535
Cdd:PRK11642 333 LPEVLSNGLCSLNPQVDRLCMVCEMTISSKGRLTGYKFYEAVMSSHARLTYTKVWHILQG-DQDLREQYAPLVKH---LE 408
|
170 180 190 200 210 220 230 240
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1720354355 536 EVHqavlNLHSIAKQLRRQRfvdGALRLDQLKLAFTLDHETGLPQgCHIYEYRDSNKLVEEFMLLANMAVAhKIFRTFPE 615
Cdd:PRK11642 409 ELH----NLYKVLDKAREER---GGISFESEEAKFIFNAERRIER-IEQTQRNDAHKLIEECMILANISAA-RFVEKAKE 479
|
250 260 270 280 290 300 310 320
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1720354355 616 QALLRRHPPPQTKMLSDLVEFCDQMGLpmdvsSAGALNKSLTKTFGDDKYSLARK---EVLTNMYSRPMQMALYfcsgml 692
Cdd:PRK11642 480 PALFRIHDKPSTEAITSFRSVLAELGL-----ELPGGNKPEPRDYAELLESVADRpdaEMLQTMLLRSMKQAIY------ 548
|
330 340 350 360
....*....|....*....|....*....|....*....|....*..
gi 1720354355 693 qDQEQFRHYALNVPLYTHFTSPIRRFADVIVHR----LLAAALGYSE 735
Cdd:PRK11642 549 -DPENRGHFGLALQSYAHFTSPIRRYPDLSLHRaikyLLAKEQGHKG 594
|
|
| Dis3l2_C_term |
pfam17877 |
DIS3-like exonuclease 2 C terminal; This is the C-terminal S1 domain found in Dis3L2 proteins. ... |
778-867 |
4.25e-31 |
|
DIS3-like exonuclease 2 C terminal; This is the C-terminal S1 domain found in Dis3L2 proteins. Dis3L2 belongs to the RNase II/R 3-5 exonuclease superfamily, which includes the catalytic subunit of the RNA exosome in yeast and in humans.
Pssm-ID: 465547 Cd Length: 87 Bit Score: 116.98 E-value: 4.25e-31
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1720354355 778 GPLESEAMVMGVLNQAFDVLVLRFGVQKRIYCNALALRSYSFQKVGKkpeLTLVWEPDDLEEEPTQQVITIFSLVDVVLQ 857
Cdd:pfam17877 1 GPLETEAVVLGVLDSSFDVLIPEYGIEKRVYLDQLPLKKFEFDKTGV---LTLYWKKGVPSSAYVPEDERFSSLVVVVLK 77
|
90
....*....|
gi 1720354355 858 AEATALKYSA 867
Cdd:pfam17877 78 SDSDPLKLEA 87
|
|
| Rrp44_CSD1 |
pfam17216 |
Rrp44-like cold shock domain; |
50-250 |
2.59e-10 |
|
Rrp44-like cold shock domain;
Pssm-ID: 375054 Cd Length: 148 Bit Score: 59.40 E-value: 2.59e-10
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1720354355 50 FETYMSKEDVSEGLKRGTLIQGVLRINPKKFHEAFIPSPDGDRDIFIDGVVARNRALNGDLVVVKLLPEDQWKPritlsl 129
Cdd:pfam17216 4 FPEYYSTARVMGGLKNGVLYQGNIQISEYNFLEGSVSLPRFSKPVLIVGQKNLNRAFNGDQVIVELLPQSEWKA------ 77
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1720354355 130 PGVLGLQAVKPESNDKeieatyeadipeegcghhplqqsrkgwsgPDviIEAQfDDSDSEDRHGNTSGLVDGVKKLsist 209
Cdd:pfam17216 78 PSSIVLDSEHFDVNDN-----------------------------PD--IEAG-DDDDNNESSSNTTVISDKQRRL---- 121
|
170 180 190 200
....*....|....*....|....*....|....*....|.
gi 1720354355 210 pdrgkedsstpVMKDenTPIPQDTrglseKSLQKSAKVVYI 250
Cdd:pfam17216 122 -----------LAKD--AMIAQRS-----KKIQPTAKVVYI 144
|
|
| |
|
Name |
Accession |
Description |
Interval |
E-value |
| VacB |
COG0557 |
Exoribonuclease R [Transcription]; |
228-757 |
5.33e-122 |
|
Exoribonuclease R [Transcription];
Pssm-ID: 440323 [Multi-domain] Cd Length: 711 Bit Score: 385.61 E-value: 5.33e-122
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1720354355 228 PIPQDTRGLSEkslqksAKVVYILEKKHSRAaTGILKLLadknsdlfKKYALFSPSDHRVPR-IYVPLKDCPQdfmtrPK 306
Cdd:COG0557 113 VTKEDRRGRPE------GRVVEILERANTRV-VGRFEKE--------KGFGFVVPDDKRLLQdIFIPPDDLNG-----AK 172
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1720354355 307 DfaNTLFICRIIDWKEDCNFALGQLAKSLGQAGEIEPETEGILTEYGVDFsDFSSEVLECLpQSLPWTIPPDEVGKRRDL 386
Cdd:COG0557 173 D--GDLVVVEITRYPERRGPPEGRVVEVLGSPGDPGAEILIAIRKHGLPH-EFPEEVLAEA-EALPDEVPEADLKGRRDL 248
|
170 180 190 200 210 220 230 240
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1720354355 387 RKDCIFTIDPSTARDLDDALACRRLTDGTFEVGVHIADVSYFVPEGSSLDKVAAERATSVYLVQKVVPMLPRLLCEELCS 466
Cdd:COG0557 249 RDLPLVTIDGEDAKDFDDAVSAEKLDNGGWRLGVHIADVSHYVRPGSALDREARKRGTSVYLPDRVIPMLPERLSNGLCS 328
|
250 260 270 280 290 300 310 320
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1720354355 467 LNPMTDKLTFSVIWKLTPEGKILEEWFGRTIIRSCTKLSYDHAQSMIENPTEKIPEEElppispehsvEEVHQAVLNLHS 546
Cdd:COG0557 329 LNPGEDRLAMSCEMEIDAKGEVVSYEFYRSVIRSDARLTYEEVQAILDGKDEELREEY----------ADLVPMLEELYE 398
|
330 340 350 360 370 380 390 400
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1720354355 547 IAKQLRRQRFVDGALRLDQLKLAFTLDhETGLPQGCHIYEYRDSNKLVEEFMLLANMAVAHKIFRTfpEQALLRR-HPPP 625
Cdd:COG0557 399 LAKILRKAREKRGAIDFDLPETKIILD-EEGKPEDIVPRERNDAHKLIEEFMLLANEAVAEFLEKL--KLPFLYRvHEEP 475
|
410 420 430 440 450 460 470 480
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1720354355 626 QTKMLSDLVEFCDQMGLPM---DVSSAGALNKsLTKTFGDDKYSlarkEVLTNMYSRPMQMALYfcsgmlqDQEQFRHYA 702
Cdd:COG0557 476 DPEKLEALREFLANLGLKLkggDEPTPKDLQK-LLEQVKGRPEE----ELLNTLLLRSMKQAVY-------SPENIGHFG 543
|
490 500 510 520 530
....*....|....*....|....*....|....*....|....*....|....*....
gi 1720354355 703 LNVPLYTHFTSPIRRFADVIVHRLLAAALG---YSEQPDVEPDTLQKQADHCNDR-RMA 757
Cdd:COG0557 544 LALEAYTHFTSPIRRYPDLLVHRALKAYLEgkrSPGLQEYLEEELEEIAEHCSETeRRA 602
|
|
| RNB |
pfam00773 |
RNB domain; This domain is the catalytic domain of ribonuclease II. |
383-731 |
1.02e-113 |
|
RNB domain; This domain is the catalytic domain of ribonuclease II.
Pssm-ID: 459934 [Multi-domain] Cd Length: 314 Bit Score: 350.05 E-value: 1.02e-113
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1720354355 383 RRDLRKDCIFTIDPSTARDLDDALACRRLTDGTFEVGVHIADVSYFVPEGSSLDKVAAERATSVYLVQKVVPMLPRLLCE 462
Cdd:pfam00773 1 RKDLRDLPFITIDPADAKDLDDAISVEKLPNGGYRLGVHIADVSHYVPPGSPLDREARKRGTSVYLPDRVIPMLPEKLSN 80
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1720354355 463 ELCSLNPMTDKLTFSVIWKLTPEGKILEEWFGRTIIRSCTKLSYDHAQSMIENPTEKIPEEELppispehsveevHQAVL 542
Cdd:pfam00773 81 DLCSLNPGEDRLALSVEITIDADGEVTSYEIYPSVIRSKARLTYEEVDDLLEGKDAEKDKPDL------------AEDLR 148
|
170 180 190 200 210 220 230 240
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1720354355 543 NLHSIAKQLRRQRFVDGALRLDQLKLAFTLDHETglPQGCHIYEYRDSNKLVEEFMLLANMAVAHKIfRTFPEQALLRRH 622
Cdd:pfam00773 149 LLYELAKILRAKRLQRGALDLDTPENKLILDEEG--VIDILIQERTDAHSLIEEFMLLANEAVARHL-QELGIPALYRVH 225
|
250 260 270 280 290 300 310 320
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1720354355 623 PPPQTKMLSDLVEFCDQMGLPMdvssagALNKSLTKTFGDdkyslarKEVLTNMYSRPMQMALYFcsgmlqdQEQFRHYA 702
Cdd:pfam00773 226 PEPDLEKLNSLIKLLQLLPDDK------GLSKSLEKIKDD-------ERLLSILLLRTMPRAEYS-------PEPLGHFG 285
|
330 340
....*....|....*....|....*....
gi 1720354355 703 LNVPLYTHFTSPIRRFADVIVHRLLAAAL 731
Cdd:pfam00773 286 LGLDIYTHFTSPIRRYPDLIVHRQLKALL 314
|
|
| RNB |
smart00955 |
This domain is the catalytic domain of ribonuclease II; |
383-732 |
1.11e-104 |
|
This domain is the catalytic domain of ribonuclease II;
Pssm-ID: 214935 [Multi-domain] Cd Length: 286 Bit Score: 325.38 E-value: 1.11e-104
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1720354355 383 RRDLRKDCIFTIDPSTARDLDDALACRRLTDGTFEVGVHIADVSYFVPEGSSLDKVAAERATSVYLVQKVVPMLPRLLCE 462
Cdd:smart00955 1 RVDLRDLPLFTIDPEDAKDIDDAVSVEKLDNGGYRLGVHIADVSHYVKPGSALDREARKRGTSVYLPDRVIPMLPEELSN 80
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1720354355 463 ELCSLNPMTDKLTFSVIWKLTPEG-KILEEWFGRTIIRSCTKLSYDHAQSMIENptekipeeelppispehsveevhqav 541
Cdd:smart00955 81 GLCSLNPGEDRLALSVEMTLDADGgEILDYEFYRSVIRSKARLTYEEVDAILEK-------------------------- 134
|
170 180 190 200 210 220 230 240
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1720354355 542 lnlhsiakqlrrqrfvdgalrldqlklaFTLDHEtGLPQGCHIYEYRDSNKLVEEFMLLANMAVAHKIFRTFPeQALLRR 621
Cdd:smart00955 135 ----------------------------IVLDEE-GKIEDIVPRERNDAHSLVEEFMILANEAVARFLAKNGI-PGLYRV 184
|
250 260 270 280 290 300 310 320
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1720354355 622 HPPPQTKMLSD-LVEFCDQMGLPM-DVSSAGALNKSLTKTFGDDKyslarKEVLTNMYSRPMQMALYFCSGmlqdqeqFR 699
Cdd:smart00955 185 HEGPDPEKLAElLKEFLALLGLLLlGGDGPKALAKLLEKIRDSPE-----ERLLELLLLRSMPHAEYSVDN-------SG 252
|
330 340 350
....*....|....*....|....*....|...
gi 1720354355 700 HYALNVPLYTHFTSPIRRFADVIVHRLLAAALG 732
Cdd:smart00955 253 HFGLALDAYTHFTSPIRRYPDLIVHRQLKAALR 285
|
|
| RNase_R |
TIGR02063 |
ribonuclease R; This family consists of an exoribonuclease, ribonuclease R, also called VacB. ... |
243-754 |
1.46e-96 |
|
ribonuclease R; This family consists of an exoribonuclease, ribonuclease R, also called VacB. It is one of the eight exoribonucleases reported in E. coli and is broadly distributed throughout the bacteria. In E. coli, double mutants of this protein and polynucleotide phosphorylase are not viable. Scoring between trusted and noise cutoffs to the model are shorter, divergent forms from the Chlamydiae, and divergent forms from the Campylobacterales (including Helicobacter pylori) and Leptospira interrogans. [Transcription, Degradation of RNA]
Pssm-ID: 273947 [Multi-domain] Cd Length: 709 Bit Score: 318.06 E-value: 1.46e-96
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1720354355 243 KSAKVVYILEKKHSRAATGILKLladknsdlfKKYALFSPSDHRVP-RIYVPLKDCpqdfmTRPKDfaNTLFICRIIDWK 321
Cdd:TIGR02063 123 FEARVIKILERANDQIVGTFYIE---------NGIGFVIPDDKRIYlDIFIPPEQI-----LGAEE--GDKVLVEITKYP 186
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1720354355 322 EDCNFALGQLAKSLGQAGEIEPETEGILTEYGVDFsDFSSEVLEcLPQSLPWTIPPDEVGKRRDLRKDCIFTIDPSTARD 401
Cdd:TIGR02063 187 DRNRPAIGKVVEILGHADDPGIDILIIIRKHGIPY-EFPEEVLD-EAAKIPEEVPEEEIKGRKDLRDLPFVTIDGEDAKD 264
|
170 180 190 200 210 220 230 240
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1720354355 402 LDDALACRRLTDGTFEVGVHIADVSYFVPEGSSLDKVAAERATSVYLVQKVVPMLPRLLCEELCSLNPMTDKLTFSVIWK 481
Cdd:TIGR02063 265 FDDAVYVEKLKDGNYKLGVAIADVSHYVREGSALDKEALKRGTSVYLPDRVIPMLPERLSNGICSLNPNEDRLTLSCEME 344
|
250 260 270 280 290 300 310 320
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1720354355 482 LTPEGKILEEWFGRTIIRSCTKLSYDHAQSMIENptEKIPEEELPPISPEhsveevhqaVLNLHSIAKQLRRQRFVDGAL 561
Cdd:TIGR02063 345 IDKKGRVKKYEFYEAVINSHARLTYNQVNDIIEG--KDALDKKEPPLKEM---------LKNLFELYKILRKKRKKRGAI 413
|
330 340 350 360 370 380 390 400
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1720354355 562 RLDQLKLAFTLDhETGLPQGCHIYEYRDSNKLVEEFMLLANMAVAHKIFRTfPEQALLRRHPPPQTKMLSDLVEFCDQMG 641
Cdd:TIGR02063 414 DFDSKEAKIILD-ENGKPIDIVPRERGDAHKLIEEFMIAANETVAEHLEKA-KLPFIYRVHERPSEEKLQNLREFLKTLG 491
|
410 420 430 440 450 460 470 480
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1720354355 642 LPMDVSSA-----GALNKSLTKTFGDDKYSLARKEVLtnmysRPMQMALYfcsgmlqDQEQFRHYALNVPLYTHFTSPIR 716
Cdd:TIGR02063 492 ITLKGGTSdkpqpKDFQKLLEKVKGRPEEELINTVLL-----RSMQQAKY-------SPENIGHFGLALEYYTHFTSPIR 559
|
490 500 510 520
....*....|....*....|....*....|....*....|....
gi 1720354355 717 RFADVIVHRLLAAALG------YSEQPDVEPDTLQKQADHCNDR 754
Cdd:TIGR02063 560 RYPDLIVHRLIKKALFggenttTEKEREYLEAKLEEIAEHSSKT 603
|
|
| 3_prime_RNase |
TIGR00358 |
VacB and RNase II family 3'-5' exoribonucleases; This model is defined to identify a pair of ... |
227-755 |
1.15e-67 |
|
VacB and RNase II family 3'-5' exoribonucleases; This model is defined to identify a pair of paralogous 3-prime exoribonucleases in E. coli, plus the set of proteins apparently orthologous to one or the other in other eubacteria. VacB was characterized originally as required for the expression of virulence genes, but is now recognized as the exoribonuclease RNase R (Rnr). Its paralog in E. coli and H. influenzae is designated exoribonuclease II (Rnb). Both are involved in the degradation of mRNA, and consequently have strong pleiotropic effects that may be difficult to disentangle. Both these proteins share domain-level similarity (RNB, S1) with a considerable number of other proteins, and full-length similarity scoring below the trusted cutoff to proteins associated with various phenotypes but uncertain biochemistry; it may be that these latter proteins are also 3-prime exoribonucleases. [Transcription, Degradation of RNA]
Pssm-ID: 273033 [Multi-domain] Cd Length: 654 Bit Score: 238.08 E-value: 1.15e-67
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1720354355 227 TPIPQDTRGlsekslQKSAKVVYILEKKHSRAATGILklladknsdlFKKYALFSPSDHrvPRIYVPLKdCPQDfmTRPK 306
Cdd:TIGR00358 60 CPLSQPQRG------RFEAEVERILEPALTRFVGKFL----------GENDFGFVVPDD--PRIYLDII-VPKA--SVKN 118
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1720354355 307 DFA-NTLFICRIIDWKEDCNFALGQLAKSLGQAGEIEPETEGILTEYGVDFSDfsSEVLECLPQSLPWTIPPDEVGKRRD 385
Cdd:TIGR00358 119 ELAeGDKVVVELTEYPLRRNLFYGEITQILGNNDDPLIPWWVTLARHEIPFEF--PDGVEQQAAKLQFDVDEQAKKYRED 196
|
170 180 190 200 210 220 230 240
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1720354355 386 LRKDCIFTIDPSTARDLDDALACRRLTDGTFEVGVHIADVSYFVPEGSSLDKVAAERATSVYLVQKVVPMLPRLLCEELC 465
Cdd:TIGR00358 197 LTDLAFVTIDGADAKDLDDAVYVKKLPDGGWKLYVAIADVSYYVAENSPLDKEAKHRGFSVYLPGFVIPMLPEELSNGLC 276
|
250 260 270 280 290 300 310 320
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1720354355 466 SLNPMTDKLTFSVIWKLTPEGKILEEWFGRTIIRSCTKLSYDHAQSMIENptekipEEELPPISPEhSVEEVHQavlnLH 545
Cdd:TIGR00358 277 SLNPNEDRLVLVCEMTISAQGRITDNEFYPATIESKARLTYDKVNDWLEN------DDELQPEYET-LVEQLKA----LH 345
|
330 340 350 360 370 380 390 400
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1720354355 546 SIAKQLRRQRFVDGALRLDQLKLAFTLDhETGLPQGCHIYEYRDSNKLVEEFMLLANMAVAhKIFRTFPEQALLRRHPPP 625
Cdd:TIGR00358 346 QLSQALGEWRHKRGLIDFEHPETKFIVD-EEGRVIDIVAEVRRIAEKIIEEAMIVANICAA-RFLHNHKVPGIYRVHPGP 423
|
410 420 430 440 450 460 470 480
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1720354355 626 QTKMLSDLVEFCDQMGLPMDVSSAGALNKSltktfgdDKYSLARK-------EVLTNMYSRPMQMALYfcsgmlqDQEQF 698
Cdd:TIGR00358 424 SKKKLQSLLEFLAELGLTLPGGNAENVTTL-------DGACWLREvkdrpeyEILVTRLLRSLSQAEY-------SPEPL 489
|
490 500 510 520 530 540
....*....|....*....|....*....|....*....|....*....|....*....|.
gi 1720354355 699 RHYALNVPLYTHFTSPIRRFADVIVHRLLAAALgYSEQPDVEPDTLQ----KQADHCNDRR 755
Cdd:TIGR00358 490 GHFGLGLEHYAHFTSPIRRYPDLTNHRLIKAVL-AKEQTDTERYQPQdellQIAEHCSDTE 549
|
|
| PRK11642 |
PRK11642 |
ribonuclease R; |
377-735 |
1.34e-40 |
|
ribonuclease R;
Pssm-ID: 236944 [Multi-domain] Cd Length: 813 Bit Score: 161.06 E-value: 1.34e-40
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1720354355 377 PDEVGKRR-DLRKDCIFTIDPSTARDLDDALACRRLTDGTFEVGVHIADVSYFVPEGSSLDKVAAERATSVYLVQKVVPM 455
Cdd:PRK11642 253 PEEAKAGRvDLRDLPLVTIDGEDARDFDDAVYCEKKRGGGWRLWVAIADVSYYVRPPTPLDREARNRGTSVYFPSQVVPM 332
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1720354355 456 LPRLLCEELCSLNPMTDKLTFSVIWKLTPEGKILEEWFGRTIIRSCTKLSYDHAQSMIENpTEKIPEEELPPISPehsVE 535
Cdd:PRK11642 333 LPEVLSNGLCSLNPQVDRLCMVCEMTISSKGRLTGYKFYEAVMSSHARLTYTKVWHILQG-DQDLREQYAPLVKH---LE 408
|
170 180 190 200 210 220 230 240
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1720354355 536 EVHqavlNLHSIAKQLRRQRfvdGALRLDQLKLAFTLDHETGLPQgCHIYEYRDSNKLVEEFMLLANMAVAhKIFRTFPE 615
Cdd:PRK11642 409 ELH----NLYKVLDKAREER---GGISFESEEAKFIFNAERRIER-IEQTQRNDAHKLIEECMILANISAA-RFVEKAKE 479
|
250 260 270 280 290 300 310 320
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1720354355 616 QALLRRHPPPQTKMLSDLVEFCDQMGLpmdvsSAGALNKSLTKTFGDDKYSLARK---EVLTNMYSRPMQMALYfcsgml 692
Cdd:PRK11642 480 PALFRIHDKPSTEAITSFRSVLAELGL-----ELPGGNKPEPRDYAELLESVADRpdaEMLQTMLLRSMKQAIY------ 548
|
330 340 350 360
....*....|....*....|....*....|....*....|....*..
gi 1720354355 693 qDQEQFRHYALNVPLYTHFTSPIRRFADVIVHR----LLAAALGYSE 735
Cdd:PRK11642 549 -DPENRGHFGLALQSYAHFTSPIRRYPDLSLHRaikyLLAKEQGHKG 594
|
|
| Rnb |
COG4776 |
Exoribonuclease II [Transcription]; |
372-757 |
4.65e-36 |
|
Exoribonuclease II [Transcription];
Pssm-ID: 443808 [Multi-domain] Cd Length: 644 Bit Score: 145.38 E-value: 4.65e-36
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1720354355 372 PWTIPpDEVGKRRDLRKDCIFTIDPSTARDLDDALACRRLTDGTFEVGVHIADVSYFVPEGSSLDKVAAERATSVYLVQK 451
Cdd:COG4776 180 EWELL-DEGLEREDLTALPFVTIDSESTEDMDDALYIEKLENGGWKLTVAIADPTAYIPEGSELDKEARQRAFTNYLPGF 258
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1720354355 452 VVPMLPRLLCEELCSLNPMTDKLTFSVIWKLTPEGKILE--EWFGRTiIRSCTKLSYDHAQSMIENPTEKIPEEelppis 529
Cdd:COG4776 259 NIPMLPRELSDDLCSLKENEKRPALVCRVTIDADGSIGDdiEFFAAW-IRSKAKLAYDNVSDWLEGKGEWQPEN------ 331
|
170 180 190 200 210 220 230 240
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1720354355 530 pehsvEEVHQAVLNLHSIAkQLRRQRFVDGALRL-DQLKLAFTLDhETGLPQGCHIYEYRDSNKLVEEFMLLANMAVAHK 608
Cdd:COG4776 332 -----EEIAEQIRLLHQFA-LARSQWRQQHALVFkDRPDYRFELD-EKGNVLDIHAEPRRIANRIVEEAMIAANICAARV 404
|
250 260 270 280 290 300 310 320
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1720354355 609 --------IFRT---F-PE-----QALLRRHPPPQTK-MLSDLVEFCdQMGLPMDVSSAGALNKSLTK--TFGDDKysla 668
Cdd:COG4776 405 lrehlgfgIFNVhsgFdPEkleqaVELLAEHGIEFDPeQLLTLEGFC-ALRRELDAQPTSYLDSRLRRfqTFAEIS---- 479
|
330 340 350 360 370 380 390 400
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1720354355 669 rkevltnmysrpmqmalyfcsgmlqdQEQFRHYALNVPLYTHFTSPIRRFADVIVHRLLAAALgySEQPDVEPD--TLQK 746
Cdd:COG4776 480 --------------------------TEPGPHFGLGLDAYATWTSPIRKYGDMVNHRLIKAVI--LGQPAEKPDeeLTER 531
|
410
....*....|.
gi 1720354355 747 QADHCNDRRMA 757
Cdd:COG4776 532 LAERRRLNRMA 542
|
|
| PRK05054 |
PRK05054 |
exoribonuclease II; Provisional |
372-761 |
2.98e-35 |
|
exoribonuclease II; Provisional
Pssm-ID: 179920 [Multi-domain] Cd Length: 644 Bit Score: 143.09 E-value: 2.98e-35
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1720354355 372 PWTIPpDEVGKRRDLRKDCIFTIDPSTARDLDDALACRRLTDGTFEVGVHIADVSYFVPEGSSLDKVAAERATSVYLVQK 451
Cdd:PRK05054 180 AWEML-DEGLEREDLTALDFVTIDSASTEDMDDALYVEKLPDGGLQLTVAIADPTAYIAEGSKLDKAARQRAFTNYLPGF 258
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1720354355 452 VVPMLPRLLCEELCSLNPMTDKLTFSVIWKLTPEGKILEE--WFGRTiIRSCTKLSYDHAQSMIENPTEKIPEEelppis 529
Cdd:PRK05054 259 NIPMLPRELSDDLCSLRPNERRPALACRVTIDADGTIEDDirFFAAW-IESKAKLAYDNVSDWLENGGDWQPES------ 331
|
170 180 190 200 210 220 230 240
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1720354355 530 pehsvEEVHQAVLNLHSIAkQLRRQ-RFVDGALRLDQLKLAFTLDhETGLPQGCHIYEYRDSNKLVEEFMLLANMAVAH- 607
Cdd:PRK05054 332 -----EAIAEQIRLLHQFC-LARSEwRKQHALVFKDRPDYRFELG-EKGEVLDIVAEPRRIANRIVEESMIAANICAARv 404
|
250 260 270 280 290 300 310 320
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1720354355 608 -------KIFRT-------FPEQA--LLRRHPPPQT-KMLSDLVEFCdQMGLPMDVSSAGALNKSLTK--TFGDDKYSLA 668
Cdd:PRK05054 405 lrdklgfGIYNVhsgfdpaNAEQAvaLLKEHGLHFDaEELLTLEGFC-KLRRELDAQPTGYLDSRIRRfqSFAEISTEPG 483
|
330 340 350 360 370 380 390 400
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1720354355 669 rkevltnmysrPmqmalyfcsgmlqdqeqfrHYALNVPLYTHFTSPIRRFADVIVHRLLAAALGYSEQPDVEPDTLQKQA 748
Cdd:PRK05054 484 -----------P-------------------HFGLGLEAYATWTSPIRKYGDMINHRLLKAVIKGETAERPQDEITVQLA 533
|
410
....*....|...
gi 1720354355 749 DHCNDRRMASKRV 761
Cdd:PRK05054 534 ERRRLNRMAERDV 546
|
|
| Dis3l2_C_term |
pfam17877 |
DIS3-like exonuclease 2 C terminal; This is the C-terminal S1 domain found in Dis3L2 proteins. ... |
778-867 |
4.25e-31 |
|
DIS3-like exonuclease 2 C terminal; This is the C-terminal S1 domain found in Dis3L2 proteins. Dis3L2 belongs to the RNase II/R 3-5 exonuclease superfamily, which includes the catalytic subunit of the RNA exosome in yeast and in humans.
Pssm-ID: 465547 Cd Length: 87 Bit Score: 116.98 E-value: 4.25e-31
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1720354355 778 GPLESEAMVMGVLNQAFDVLVLRFGVQKRIYCNALALRSYSFQKVGKkpeLTLVWEPDDLEEEPTQQVITIFSLVDVVLQ 857
Cdd:pfam17877 1 GPLETEAVVLGVLDSSFDVLIPEYGIEKRVYLDQLPLKKFEFDKTGV---LTLYWKKGVPSSAYVPEDERFSSLVVVVLK 77
|
90
....*....|
gi 1720354355 858 AEATALKYSA 867
Cdd:pfam17877 78 SDSDPLKLEA 87
|
|
| OB_Dis3 |
pfam17849 |
Dis3-like cold-shock domain 2 (CSD2); This domain has an OB fold and is found in the Dis3l2 ... |
277-353 |
1.16e-30 |
|
Dis3-like cold-shock domain 2 (CSD2); This domain has an OB fold and is found in the Dis3l2 protein. This domain along with CSD1 binds to RNA.
Pssm-ID: 436091 [Multi-domain] Cd Length: 77 Bit Score: 115.01 E-value: 1.16e-30
10 20 30 40 50 60 70
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*..
gi 1720354355 277 YALFSPSDHRVPRIYVPLKDCPQDFMTRPKDFANTLFICRIIDWKEDCNFALGQLAKSLGQAGEIEPETEGILTEYG 353
Cdd:pfam17849 1 YVLFVPRDKRIPRIRIPTKSAPEEFLENPEDLEGKLFVVKIDDWPENSRYPLGHIVKVLGEIGDIETETEAILLENG 77
|
|
| Rrp44_CSD1 |
pfam17216 |
Rrp44-like cold shock domain; |
50-250 |
2.59e-10 |
|
Rrp44-like cold shock domain;
Pssm-ID: 375054 Cd Length: 148 Bit Score: 59.40 E-value: 2.59e-10
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1720354355 50 FETYMSKEDVSEGLKRGTLIQGVLRINPKKFHEAFIPSPDGDRDIFIDGVVARNRALNGDLVVVKLLPEDQWKPritlsl 129
Cdd:pfam17216 4 FPEYYSTARVMGGLKNGVLYQGNIQISEYNFLEGSVSLPRFSKPVLIVGQKNLNRAFNGDQVIVELLPQSEWKA------ 77
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1720354355 130 PGVLGLQAVKPESNDKeieatyeadipeegcghhplqqsrkgwsgPDviIEAQfDDSDSEDRHGNTSGLVDGVKKLsist 209
Cdd:pfam17216 78 PSSIVLDSEHFDVNDN-----------------------------PD--IEAG-DDDDNNESSSNTTVISDKQRRL---- 121
|
170 180 190 200
....*....|....*....|....*....|....*....|.
gi 1720354355 210 pdrgkedsstpVMKDenTPIPQDTrglseKSLQKSAKVVYI 250
Cdd:pfam17216 122 -----------LAKD--AMIAQRS-----KKIQPTAKVVYI 144
|
|
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