|
Name |
Accession |
Description |
Interval |
E-value |
| VacB super family |
cl43181 |
Exoribonuclease R [Transcription]; |
245-757 |
4.46e-123 |
|
Exoribonuclease R [Transcription];
The actual alignment was detected with superfamily member COG0557:
Pssm-ID: 440323 [Multi-domain] Cd Length: 711 Bit Score: 388.70 E-value: 4.46e-123
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 288541380 245 AKVVYILEKKHSRAaTGILKLLadknsdlfKKYALFSPSDHRVPR-IYVPLKDCPQdfmtrPKDyaNTLFICRIIDWKED 323
Cdd:COG0557 124 GRVVEILERANTRV-VGRFEKE--------KGFGFVVPDDKRLLQdIFIPPDDLNG-----AKD--GDLVVVEITRYPER 187
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 288541380 324 CNFALGQLAKSLGQAGEIEPETEGILTEYGVDFsDFSSEVLECLpQSLPWTIPPEEVGKRRDLRKDCIFTIDPSTARDLD 403
Cdd:COG0557 188 RGPPEGRVVEVLGSPGDPGAEILIAIRKHGLPH-EFPEEVLAEA-EALPDEVPEADLKGRRDLRDLPLVTIDGEDAKDFD 265
|
170 180 190 200 210 220 230 240
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 288541380 404 DALSCRQLTDGTFEVGVHIADVSYFVPEGSSLDKVAAERATSVYLVQKVVPMLPRLLCEELCSLNPMTDKLTFSVIWKLT 483
Cdd:COG0557 266 DAVSAEKLDNGGWRLGVHIADVSHYVRPGSALDREARKRGTSVYLPDRVIPMLPERLSNGLCSLNPGEDRLAMSCEMEID 345
|
250 260 270 280 290 300 310 320
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 288541380 484 PEGKILEEWFGRTIIRSCTKLSYDHAQSMIENPTEKIPKEelppispehsIEEVHQAVLNLHSIAKQLRRQRFVDGALRL 563
Cdd:COG0557 346 AKGEVVSYEFYRSVIRSDARLTYEEVQAILDGKDEELREE----------YADLVPMLEELYELAKILRKAREKRGAIDF 415
|
330 340 350 360 370 380 390 400
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 288541380 564 DQLKLAFTLDhETGLPQGCHIYEYRDSNKLVEEFMLLANMAVAHKIFRTfpEQALLRR-HPPPQTKMLSDLVEFCDQMGL 642
Cdd:COG0557 416 DLPETKIILD-EEGKPEDIVPRERNDAHKLIEEFMLLANEAVAEFLEKL--KLPFLYRvHEEPDPEKLEALREFLANLGL 492
|
410 420 430 440 450 460 470 480
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 288541380 643 PM---DVSSAGALNKsLTNTFGDDKYSlarkEVLTNMYSRPMQMALYF--CSGmlqdqaqfrHYALNVPLYTHFTSPIRR 717
Cdd:COG0557 493 KLkggDEPTPKDLQK-LLEQVKGRPEE----ELLNTLLLRSMKQAVYSpeNIG---------HFGLALEAYTHFTSPIRR 558
|
490 500 510 520
....*....|....*....|....*....|....*....|....
gi 288541380 718 FADVIVHRLLAAALG---YSEQPDVEPDALQKQADHCNDR-RMA 757
Cdd:COG0557 559 YPDLLVHRALKAYLEgkrSPGLQEYLEEELEEIAEHCSETeRRA 602
|
|
| Dis3l2_C_term |
pfam17877 |
DIS3-like exonuclease 2 C terminal; This is the C-terminal S1 domain found in Dis3L2 proteins. ... |
778-867 |
1.95e-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: 117.75 E-value: 1.95e-31
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 288541380 778 GPLESEAMVMGVLNQAFDVLVLRFGVQKRIYCNALALRSYHFQKVGKkpeLTLVWEPDDLEEEPIQQVITIFSLVDVVLQ 857
Cdd:pfam17877 1 GPLETEAVVLGVLDSSFDVLIPEYGIEKRVYLDQLPLKKFEFDKTGV---LTLYWKKGVPSSAYVPEDERFSSLVVVVLK 77
|
90
....*....|
gi 288541380 858 AEATALKYSA 867
Cdd:pfam17877 78 SDSDPLKLEA 87
|
|
| Rrp44_CSD1 super family |
cl28867 |
Rrp44-like cold shock domain; |
50-159 |
5.22e-11 |
|
Rrp44-like cold shock domain;
The actual alignment was detected with superfamily member pfam17216:
Pssm-ID: 375054 Cd Length: 148 Bit Score: 61.71 E-value: 5.22e-11
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 288541380 50 FETYMSKEDVSEGLKKGTLIQGVLRINPKKFHEAFIPSPDGDRDIFIDGVVARNRALNGDLVVVKLLPEDQWKPritlsl 129
Cdd:pfam17216 4 FPEYYSTARVMGGLKNGVLYQGNIQISEYNFLEGSVSLPRFSKPVLIVGQKNLNRAFNGDQVIVELLPQSEWKA------ 77
|
90 100 110
....*....|....*....|....*....|.
gi 288541380 130 PGVLGLQGVKPESNDK-ETEATNETDISEES 159
Cdd:pfam17216 78 PSSIVLDSEHFDVNDNpDIEAGDDDDNNESS 108
|
|
| |
|
Name |
Accession |
Description |
Interval |
E-value |
| VacB |
COG0557 |
Exoribonuclease R [Transcription]; |
245-757 |
4.46e-123 |
|
Exoribonuclease R [Transcription];
Pssm-ID: 440323 [Multi-domain] Cd Length: 711 Bit Score: 388.70 E-value: 4.46e-123
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 288541380 245 AKVVYILEKKHSRAaTGILKLLadknsdlfKKYALFSPSDHRVPR-IYVPLKDCPQdfmtrPKDyaNTLFICRIIDWKED 323
Cdd:COG0557 124 GRVVEILERANTRV-VGRFEKE--------KGFGFVVPDDKRLLQdIFIPPDDLNG-----AKD--GDLVVVEITRYPER 187
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 288541380 324 CNFALGQLAKSLGQAGEIEPETEGILTEYGVDFsDFSSEVLECLpQSLPWTIPPEEVGKRRDLRKDCIFTIDPSTARDLD 403
Cdd:COG0557 188 RGPPEGRVVEVLGSPGDPGAEILIAIRKHGLPH-EFPEEVLAEA-EALPDEVPEADLKGRRDLRDLPLVTIDGEDAKDFD 265
|
170 180 190 200 210 220 230 240
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 288541380 404 DALSCRQLTDGTFEVGVHIADVSYFVPEGSSLDKVAAERATSVYLVQKVVPMLPRLLCEELCSLNPMTDKLTFSVIWKLT 483
Cdd:COG0557 266 DAVSAEKLDNGGWRLGVHIADVSHYVRPGSALDREARKRGTSVYLPDRVIPMLPERLSNGLCSLNPGEDRLAMSCEMEID 345
|
250 260 270 280 290 300 310 320
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 288541380 484 PEGKILEEWFGRTIIRSCTKLSYDHAQSMIENPTEKIPKEelppispehsIEEVHQAVLNLHSIAKQLRRQRFVDGALRL 563
Cdd:COG0557 346 AKGEVVSYEFYRSVIRSDARLTYEEVQAILDGKDEELREE----------YADLVPMLEELYELAKILRKAREKRGAIDF 415
|
330 340 350 360 370 380 390 400
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 288541380 564 DQLKLAFTLDhETGLPQGCHIYEYRDSNKLVEEFMLLANMAVAHKIFRTfpEQALLRR-HPPPQTKMLSDLVEFCDQMGL 642
Cdd:COG0557 416 DLPETKIILD-EEGKPEDIVPRERNDAHKLIEEFMLLANEAVAEFLEKL--KLPFLYRvHEEPDPEKLEALREFLANLGL 492
|
410 420 430 440 450 460 470 480
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 288541380 643 PM---DVSSAGALNKsLTNTFGDDKYSlarkEVLTNMYSRPMQMALYF--CSGmlqdqaqfrHYALNVPLYTHFTSPIRR 717
Cdd:COG0557 493 KLkggDEPTPKDLQK-LLEQVKGRPEE----ELLNTLLLRSMKQAVYSpeNIG---------HFGLALEAYTHFTSPIRR 558
|
490 500 510 520
....*....|....*....|....*....|....*....|....
gi 288541380 718 FADVIVHRLLAAALG---YSEQPDVEPDALQKQADHCNDR-RMA 757
Cdd:COG0557 559 YPDLLVHRALKAYLEgkrSPGLQEYLEEELEEIAEHCSETeRRA 602
|
|
| RNB |
pfam00773 |
RNB domain; This domain is the catalytic domain of ribonuclease II. |
383-731 |
3.93e-113 |
|
RNB domain; This domain is the catalytic domain of ribonuclease II.
Pssm-ID: 459934 [Multi-domain] Cd Length: 314 Bit Score: 348.89 E-value: 3.93e-113
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 288541380 383 RRDLRKDCIFTIDPSTARDLDDALSCRQLTDGTFEVGVHIADVSYFVPEGSSLDKVAAERATSVYLVQKVVPMLPRLLCE 462
Cdd:pfam00773 1 RKDLRDLPFITIDPADAKDLDDAISVEKLPNGGYRLGVHIADVSHYVPPGSPLDREARKRGTSVYLPDRVIPMLPEKLSN 80
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 288541380 463 ELCSLNPMTDKLTFSVIWKLTPEGKILEEWFGRTIIRSCTKLSYDHAQSMIENPTEKIPKEELppispehsieevHQAVL 542
Cdd:pfam00773 81 DLCSLNPGEDRLALSVEITIDADGEVTSYEIYPSVIRSKARLTYEEVDDLLEGKDAEKDKPDL------------AEDLR 148
|
170 180 190 200 210 220 230 240
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 288541380 543 NLHSIAKQLRRQRFVDGALRLDQLKLAFTLDHETglPQGCHIYEYRDSNKLVEEFMLLANMAVAHKIfRTFPEQALLRRH 622
Cdd:pfam00773 149 LLYELAKILRAKRLQRGALDLDTPENKLILDEEG--VIDILIQERTDAHSLIEEFMLLANEAVARHL-QELGIPALYRVH 225
|
250 260 270 280 290 300 310 320
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 288541380 623 PPPQTKMLSDLVEFCDQMGLPMdvssagALNKSLTNTFGDdkyslarKEVLTNMYSRPMQMALYFcsgmlqdQAQFRHYA 702
Cdd:pfam00773 226 PEPDLEKLNSLIKLLQLLPDDK------GLSKSLEKIKDD-------ERLLSILLLRTMPRAEYS-------PEPLGHFG 285
|
330 340
....*....|....*....|....*....
gi 288541380 703 LNVPLYTHFTSPIRRFADVIVHRLLAAAL 731
Cdd:pfam00773 286 LGLDIYTHFTSPIRRYPDLIVHRQLKALL 314
|
|
| RNB |
smart00955 |
This domain is the catalytic domain of ribonuclease II; |
383-732 |
3.64e-105 |
|
This domain is the catalytic domain of ribonuclease II;
Pssm-ID: 214935 [Multi-domain] Cd Length: 286 Bit Score: 326.92 E-value: 3.64e-105
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 288541380 383 RRDLRKDCIFTIDPSTARDLDDALSCRQLTDGTFEVGVHIADVSYFVPEGSSLDKVAAERATSVYLVQKVVPMLPRLLCE 462
Cdd:smart00955 1 RVDLRDLPLFTIDPEDAKDIDDAVSVEKLDNGGYRLGVHIADVSHYVKPGSALDREARKRGTSVYLPDRVIPMLPEELSN 80
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 288541380 463 ELCSLNPMTDKLTFSVIWKLTPEG-KILEEWFGRTIIRSCTKLSYDHAQSMIENptekipkeelppispehsieevhqav 541
Cdd:smart00955 81 GLCSLNPGEDRLALSVEMTLDADGgEILDYEFYRSVIRSKARLTYEEVDAILEK-------------------------- 134
|
170 180 190 200 210 220 230 240
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 288541380 542 lnlhsiakqlrrqrfvdgalrldqlklaFTLDHEtGLPQGCHIYEYRDSNKLVEEFMLLANMAVAHKIFRTFPeQALLRR 621
Cdd:smart00955 135 ----------------------------IVLDEE-GKIEDIVPRERNDAHSLVEEFMILANEAVARFLAKNGI-PGLYRV 184
|
250 260 270 280 290 300 310 320
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 288541380 622 HPPPQTKMLSD-LVEFCDQMGLPM-DVSSAGALNKSLTNTFGDDKyslarKEVLTNMYSRPMQMALYFCSGmlqdqaqFR 699
Cdd:smart00955 185 HEGPDPEKLAElLKEFLALLGLLLlGGDGPKALAKLLEKIRDSPE-----ERLLELLLLRSMPHAEYSVDN-------SG 252
|
330 340 350
....*....|....*....|....*....|...
gi 288541380 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 |
1.97e-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: 1.97e-96
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 288541380 243 KSAKVVYILEKKHSRAATGILKLladknsdlfKKYALFSPSDHRVP-RIYVPLKDCpqdfmTRPKDyaNTLFICRIIDWK 321
Cdd:TIGR02063 123 FEARVIKILERANDQIVGTFYIE---------NGIGFVIPDDKRIYlDIFIPPEQI-----LGAEE--GDKVLVEITKYP 186
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 288541380 322 EDCNFALGQLAKSLGQAGEIEPETEGILTEYGVDFsDFSSEVLEcLPQSLPWTIPPEEVGKRRDLRKDCIFTIDPSTARD 401
Cdd:TIGR02063 187 DRNRPAIGKVVEILGHADDPGIDILIIIRKHGIPY-EFPEEVLD-EAAKIPEEVPEEEIKGRKDLRDLPFVTIDGEDAKD 264
|
170 180 190 200 210 220 230 240
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 288541380 402 LDDALSCRQLTDGTFEVGVHIADVSYFVPEGSSLDKVAAERATSVYLVQKVVPMLPRLLCEELCSLNPMTDKLTFSVIWK 481
Cdd:TIGR02063 265 FDDAVYVEKLKDGNYKLGVAIADVSHYVREGSALDKEALKRGTSVYLPDRVIPMLPERLSNGICSLNPNEDRLTLSCEME 344
|
250 260 270 280 290 300 310 320
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 288541380 482 LTPEGKILEEWFGRTIIRSCTKLSYDHAQSMIENPTEKIPKEelPPISPEhsieevhqaVLNLHSIAKQLRRQRFVDGAL 561
Cdd:TIGR02063 345 IDKKGRVKKYEFYEAVINSHARLTYNQVNDIIEGKDALDKKE--PPLKEM---------LKNLFELYKILRKKRKKRGAI 413
|
330 340 350 360 370 380 390 400
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 288541380 562 RLDQLKLAFTLDhETGLPQGCHIYEYRDSNKLVEEFMLLANMAVAHKIFRTfPEQALLRRHPPPQTKMLSDLVEFCDQMG 641
Cdd:TIGR02063 414 DFDSKEAKIILD-ENGKPIDIVPRERGDAHKLIEEFMIAANETVAEHLEKA-KLPFIYRVHERPSEEKLQNLREFLKTLG 491
|
410 420 430 440 450 460 470 480
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 288541380 642 LPMDVSSA-----GALNKSLTNTFGDDKYSLARKEVLtnmysRPMQMALYfcsgmlqDQAQFRHYALNVPLYTHFTSPIR 716
Cdd:TIGR02063 492 ITLKGGTSdkpqpKDFQKLLEKVKGRPEEELINTVLL-----RSMQQAKY-------SPENIGHFGLALEYYTHFTSPIR 559
|
490 500 510 520
....*....|....*....|....*....|....*....|....
gi 288541380 717 RFADVIVHRLLAAALG------YSEQPDVEPDALQKQADHCNDR 754
Cdd:TIGR02063 560 RYPDLIVHRLIKKALFggenttTEKEREYLEAKLEEIAEHSSKT 603
|
|
| PRK11642 |
PRK11642 |
ribonuclease R; |
377-735 |
9.23e-40 |
|
ribonuclease R;
Pssm-ID: 236944 [Multi-domain] Cd Length: 813 Bit Score: 158.37 E-value: 9.23e-40
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 288541380 377 PEEVGKRR-DLRKDCIFTIDPSTARDLDDALSCRQLTDGTFEVGVHIADVSYFVPEGSSLDKVAAERATSVYLVQKVVPM 455
Cdd:PRK11642 253 PEEAKAGRvDLRDLPLVTIDGEDARDFDDAVYCEKKRGGGWRLWVAIADVSYYVRPPTPLDREARNRGTSVYFPSQVVPM 332
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 288541380 456 LPRLLCEELCSLNPMTDKLTFSVIWKLTPEGKILEEWFGRTIIRSCTKLSYDHAQSMIENPTEKipKEELPPISPEhsIE 535
Cdd:PRK11642 333 LPEVLSNGLCSLNPQVDRLCMVCEMTISSKGRLTGYKFYEAVMSSHARLTYTKVWHILQGDQDL--REQYAPLVKH--LE 408
|
170 180 190 200 210 220 230 240
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 288541380 536 EVHqavlNLHSIAKQLRRQRfvdGALRLDQLKLAFTLDHETGLPQgCHIYEYRDSNKLVEEFMLLANMAVAhKIFRTFPE 615
Cdd:PRK11642 409 ELH----NLYKVLDKAREER---GGISFESEEAKFIFNAERRIER-IEQTQRNDAHKLIEECMILANISAA-RFVEKAKE 479
|
250 260 270 280 290 300 310 320
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 288541380 616 QALLRRHPPPQTKMLSDLVEFCDQMGLpmdvsSAGALNKSLTNTFGDDKYSLARK---EVLTNMYSRPMQMALYfcsgml 692
Cdd:PRK11642 480 PALFRIHDKPSTEAITSFRSVLAELGL-----ELPGGNKPEPRDYAELLESVADRpdaEMLQTMLLRSMKQAIY------ 548
|
330 340 350 360
....*....|....*....|....*....|....*....|....*..
gi 288541380 693 qDQAQFRHYALNVPLYTHFTSPIRRFADVIVHR----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 |
1.95e-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: 117.75 E-value: 1.95e-31
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 288541380 778 GPLESEAMVMGVLNQAFDVLVLRFGVQKRIYCNALALRSYHFQKVGKkpeLTLVWEPDDLEEEPIQQVITIFSLVDVVLQ 857
Cdd:pfam17877 1 GPLETEAVVLGVLDSSFDVLIPEYGIEKRVYLDQLPLKKFEFDKTGV---LTLYWKKGVPSSAYVPEDERFSSLVVVVLK 77
|
90
....*....|
gi 288541380 858 AEATALKYSA 867
Cdd:pfam17877 78 SDSDPLKLEA 87
|
|
| Rrp44_CSD1 |
pfam17216 |
Rrp44-like cold shock domain; |
50-159 |
5.22e-11 |
|
Rrp44-like cold shock domain;
Pssm-ID: 375054 Cd Length: 148 Bit Score: 61.71 E-value: 5.22e-11
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 288541380 50 FETYMSKEDVSEGLKKGTLIQGVLRINPKKFHEAFIPSPDGDRDIFIDGVVARNRALNGDLVVVKLLPEDQWKPritlsl 129
Cdd:pfam17216 4 FPEYYSTARVMGGLKNGVLYQGNIQISEYNFLEGSVSLPRFSKPVLIVGQKNLNRAFNGDQVIVELLPQSEWKA------ 77
|
90 100 110
....*....|....*....|....*....|.
gi 288541380 130 PGVLGLQGVKPESNDK-ETEATNETDISEES 159
Cdd:pfam17216 78 PSSIVLDSEHFDVNDNpDIEAGDDDDNNESS 108
|
|
| |
|
Name |
Accession |
Description |
Interval |
E-value |
| VacB |
COG0557 |
Exoribonuclease R [Transcription]; |
245-757 |
4.46e-123 |
|
Exoribonuclease R [Transcription];
Pssm-ID: 440323 [Multi-domain] Cd Length: 711 Bit Score: 388.70 E-value: 4.46e-123
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 288541380 245 AKVVYILEKKHSRAaTGILKLLadknsdlfKKYALFSPSDHRVPR-IYVPLKDCPQdfmtrPKDyaNTLFICRIIDWKED 323
Cdd:COG0557 124 GRVVEILERANTRV-VGRFEKE--------KGFGFVVPDDKRLLQdIFIPPDDLNG-----AKD--GDLVVVEITRYPER 187
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 288541380 324 CNFALGQLAKSLGQAGEIEPETEGILTEYGVDFsDFSSEVLECLpQSLPWTIPPEEVGKRRDLRKDCIFTIDPSTARDLD 403
Cdd:COG0557 188 RGPPEGRVVEVLGSPGDPGAEILIAIRKHGLPH-EFPEEVLAEA-EALPDEVPEADLKGRRDLRDLPLVTIDGEDAKDFD 265
|
170 180 190 200 210 220 230 240
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 288541380 404 DALSCRQLTDGTFEVGVHIADVSYFVPEGSSLDKVAAERATSVYLVQKVVPMLPRLLCEELCSLNPMTDKLTFSVIWKLT 483
Cdd:COG0557 266 DAVSAEKLDNGGWRLGVHIADVSHYVRPGSALDREARKRGTSVYLPDRVIPMLPERLSNGLCSLNPGEDRLAMSCEMEID 345
|
250 260 270 280 290 300 310 320
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 288541380 484 PEGKILEEWFGRTIIRSCTKLSYDHAQSMIENPTEKIPKEelppispehsIEEVHQAVLNLHSIAKQLRRQRFVDGALRL 563
Cdd:COG0557 346 AKGEVVSYEFYRSVIRSDARLTYEEVQAILDGKDEELREE----------YADLVPMLEELYELAKILRKAREKRGAIDF 415
|
330 340 350 360 370 380 390 400
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 288541380 564 DQLKLAFTLDhETGLPQGCHIYEYRDSNKLVEEFMLLANMAVAHKIFRTfpEQALLRR-HPPPQTKMLSDLVEFCDQMGL 642
Cdd:COG0557 416 DLPETKIILD-EEGKPEDIVPRERNDAHKLIEEFMLLANEAVAEFLEKL--KLPFLYRvHEEPDPEKLEALREFLANLGL 492
|
410 420 430 440 450 460 470 480
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 288541380 643 PM---DVSSAGALNKsLTNTFGDDKYSlarkEVLTNMYSRPMQMALYF--CSGmlqdqaqfrHYALNVPLYTHFTSPIRR 717
Cdd:COG0557 493 KLkggDEPTPKDLQK-LLEQVKGRPEE----ELLNTLLLRSMKQAVYSpeNIG---------HFGLALEAYTHFTSPIRR 558
|
490 500 510 520
....*....|....*....|....*....|....*....|....
gi 288541380 718 FADVIVHRLLAAALG---YSEQPDVEPDALQKQADHCNDR-RMA 757
Cdd:COG0557 559 YPDLLVHRALKAYLEgkrSPGLQEYLEEELEEIAEHCSETeRRA 602
|
|
| RNB |
pfam00773 |
RNB domain; This domain is the catalytic domain of ribonuclease II. |
383-731 |
3.93e-113 |
|
RNB domain; This domain is the catalytic domain of ribonuclease II.
Pssm-ID: 459934 [Multi-domain] Cd Length: 314 Bit Score: 348.89 E-value: 3.93e-113
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 288541380 383 RRDLRKDCIFTIDPSTARDLDDALSCRQLTDGTFEVGVHIADVSYFVPEGSSLDKVAAERATSVYLVQKVVPMLPRLLCE 462
Cdd:pfam00773 1 RKDLRDLPFITIDPADAKDLDDAISVEKLPNGGYRLGVHIADVSHYVPPGSPLDREARKRGTSVYLPDRVIPMLPEKLSN 80
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 288541380 463 ELCSLNPMTDKLTFSVIWKLTPEGKILEEWFGRTIIRSCTKLSYDHAQSMIENPTEKIPKEELppispehsieevHQAVL 542
Cdd:pfam00773 81 DLCSLNPGEDRLALSVEITIDADGEVTSYEIYPSVIRSKARLTYEEVDDLLEGKDAEKDKPDL------------AEDLR 148
|
170 180 190 200 210 220 230 240
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 288541380 543 NLHSIAKQLRRQRFVDGALRLDQLKLAFTLDHETglPQGCHIYEYRDSNKLVEEFMLLANMAVAHKIfRTFPEQALLRRH 622
Cdd:pfam00773 149 LLYELAKILRAKRLQRGALDLDTPENKLILDEEG--VIDILIQERTDAHSLIEEFMLLANEAVARHL-QELGIPALYRVH 225
|
250 260 270 280 290 300 310 320
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 288541380 623 PPPQTKMLSDLVEFCDQMGLPMdvssagALNKSLTNTFGDdkyslarKEVLTNMYSRPMQMALYFcsgmlqdQAQFRHYA 702
Cdd:pfam00773 226 PEPDLEKLNSLIKLLQLLPDDK------GLSKSLEKIKDD-------ERLLSILLLRTMPRAEYS-------PEPLGHFG 285
|
330 340
....*....|....*....|....*....
gi 288541380 703 LNVPLYTHFTSPIRRFADVIVHRLLAAAL 731
Cdd:pfam00773 286 LGLDIYTHFTSPIRRYPDLIVHRQLKALL 314
|
|
| RNB |
smart00955 |
This domain is the catalytic domain of ribonuclease II; |
383-732 |
3.64e-105 |
|
This domain is the catalytic domain of ribonuclease II;
Pssm-ID: 214935 [Multi-domain] Cd Length: 286 Bit Score: 326.92 E-value: 3.64e-105
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 288541380 383 RRDLRKDCIFTIDPSTARDLDDALSCRQLTDGTFEVGVHIADVSYFVPEGSSLDKVAAERATSVYLVQKVVPMLPRLLCE 462
Cdd:smart00955 1 RVDLRDLPLFTIDPEDAKDIDDAVSVEKLDNGGYRLGVHIADVSHYVKPGSALDREARKRGTSVYLPDRVIPMLPEELSN 80
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 288541380 463 ELCSLNPMTDKLTFSVIWKLTPEG-KILEEWFGRTIIRSCTKLSYDHAQSMIENptekipkeelppispehsieevhqav 541
Cdd:smart00955 81 GLCSLNPGEDRLALSVEMTLDADGgEILDYEFYRSVIRSKARLTYEEVDAILEK-------------------------- 134
|
170 180 190 200 210 220 230 240
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 288541380 542 lnlhsiakqlrrqrfvdgalrldqlklaFTLDHEtGLPQGCHIYEYRDSNKLVEEFMLLANMAVAHKIFRTFPeQALLRR 621
Cdd:smart00955 135 ----------------------------IVLDEE-GKIEDIVPRERNDAHSLVEEFMILANEAVARFLAKNGI-PGLYRV 184
|
250 260 270 280 290 300 310 320
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 288541380 622 HPPPQTKMLSD-LVEFCDQMGLPM-DVSSAGALNKSLTNTFGDDKyslarKEVLTNMYSRPMQMALYFCSGmlqdqaqFR 699
Cdd:smart00955 185 HEGPDPEKLAElLKEFLALLGLLLlGGDGPKALAKLLEKIRDSPE-----ERLLELLLLRSMPHAEYSVDN-------SG 252
|
330 340 350
....*....|....*....|....*....|...
gi 288541380 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 |
1.97e-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: 1.97e-96
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 288541380 243 KSAKVVYILEKKHSRAATGILKLladknsdlfKKYALFSPSDHRVP-RIYVPLKDCpqdfmTRPKDyaNTLFICRIIDWK 321
Cdd:TIGR02063 123 FEARVIKILERANDQIVGTFYIE---------NGIGFVIPDDKRIYlDIFIPPEQI-----LGAEE--GDKVLVEITKYP 186
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 288541380 322 EDCNFALGQLAKSLGQAGEIEPETEGILTEYGVDFsDFSSEVLEcLPQSLPWTIPPEEVGKRRDLRKDCIFTIDPSTARD 401
Cdd:TIGR02063 187 DRNRPAIGKVVEILGHADDPGIDILIIIRKHGIPY-EFPEEVLD-EAAKIPEEVPEEEIKGRKDLRDLPFVTIDGEDAKD 264
|
170 180 190 200 210 220 230 240
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 288541380 402 LDDALSCRQLTDGTFEVGVHIADVSYFVPEGSSLDKVAAERATSVYLVQKVVPMLPRLLCEELCSLNPMTDKLTFSVIWK 481
Cdd:TIGR02063 265 FDDAVYVEKLKDGNYKLGVAIADVSHYVREGSALDKEALKRGTSVYLPDRVIPMLPERLSNGICSLNPNEDRLTLSCEME 344
|
250 260 270 280 290 300 310 320
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 288541380 482 LTPEGKILEEWFGRTIIRSCTKLSYDHAQSMIENPTEKIPKEelPPISPEhsieevhqaVLNLHSIAKQLRRQRFVDGAL 561
Cdd:TIGR02063 345 IDKKGRVKKYEFYEAVINSHARLTYNQVNDIIEGKDALDKKE--PPLKEM---------LKNLFELYKILRKKRKKRGAI 413
|
330 340 350 360 370 380 390 400
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 288541380 562 RLDQLKLAFTLDhETGLPQGCHIYEYRDSNKLVEEFMLLANMAVAHKIFRTfPEQALLRRHPPPQTKMLSDLVEFCDQMG 641
Cdd:TIGR02063 414 DFDSKEAKIILD-ENGKPIDIVPRERGDAHKLIEEFMIAANETVAEHLEKA-KLPFIYRVHERPSEEKLQNLREFLKTLG 491
|
410 420 430 440 450 460 470 480
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 288541380 642 LPMDVSSA-----GALNKSLTNTFGDDKYSLARKEVLtnmysRPMQMALYfcsgmlqDQAQFRHYALNVPLYTHFTSPIR 716
Cdd:TIGR02063 492 ITLKGGTSdkpqpKDFQKLLEKVKGRPEEELINTVLL-----RSMQQAKY-------SPENIGHFGLALEYYTHFTSPIR 559
|
490 500 510 520
....*....|....*....|....*....|....*....|....
gi 288541380 717 RFADVIVHRLLAAALG------YSEQPDVEPDALQKQADHCNDR 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 ... |
370-755 |
4.84e-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: 236.53 E-value: 4.84e-67
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 288541380 370 SLPWTIPPEEVGKRRDLRKDCIFTIDPSTARDLDDALSCRQLTDGTFEVGVHIADVSYFVPEGSSLDKVAAERATSVYLV 449
Cdd:TIGR00358 181 KLQFDVDEQAKKYREDLTDLAFVTIDGADAKDLDDAVYVKKLPDGGWKLYVAIADVSYYVAENSPLDKEAKHRGFSVYLP 260
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 288541380 450 QKVVPMLPRLLCEELCSLNPMTDKLTFSVIWKLTPEGKILEEWFGRTIIRSCTKLSYDHAQSMIENPTEKipKEELPPIS 529
Cdd:TIGR00358 261 GFVIPMLPEELSNGLCSLNPNEDRLVLVCEMTISAQGRITDNEFYPATIESKARLTYDKVNDWLENDDEL--QPEYETLV 338
|
170 180 190 200 210 220 230 240
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 288541380 530 PehSIEEVHQavlnlhsIAKQLRRQRFVDGALRLDQLKLAFTLDhETGLPQGCHIYEYRDSNKLVEEFMLLANMAVAhKI 609
Cdd:TIGR00358 339 E--QLKALHQ-------LSQALGEWRHKRGLIDFEHPETKFIVD-EEGRVIDIVAEVRRIAEKIIEEAMIVANICAA-RF 407
|
250 260 270 280 290 300 310 320
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 288541380 610 FRTFPEQALLRRHPPPQTKMLSDLVEFCDQMGLPMDVSSAGALNKSltntfgdDKYSLARK-------EVLTNMYSRPMQ 682
Cdd:TIGR00358 408 LHNHKVPGIYRVHPGPSKKKLQSLLEFLAELGLTLPGGNAENVTTL-------DGACWLREvkdrpeyEILVTRLLRSLS 480
|
330 340 350 360 370 380 390
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*..
gi 288541380 683 MALYfcsgmlqDQAQFRHYALNVPLYTHFTSPIRRFADVIVHRLLAAALgYSEQPDVEPDALQ----KQADHCNDRR 755
Cdd:TIGR00358 481 QAEY-------SPEPLGHFGLGLEHYAHFTSPIRRYPDLTNHRLIKAVL-AKEQTDTERYQPQdellQIAEHCSDTE 549
|
|
| PRK11642 |
PRK11642 |
ribonuclease R; |
377-735 |
9.23e-40 |
|
ribonuclease R;
Pssm-ID: 236944 [Multi-domain] Cd Length: 813 Bit Score: 158.37 E-value: 9.23e-40
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 288541380 377 PEEVGKRR-DLRKDCIFTIDPSTARDLDDALSCRQLTDGTFEVGVHIADVSYFVPEGSSLDKVAAERATSVYLVQKVVPM 455
Cdd:PRK11642 253 PEEAKAGRvDLRDLPLVTIDGEDARDFDDAVYCEKKRGGGWRLWVAIADVSYYVRPPTPLDREARNRGTSVYFPSQVVPM 332
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 288541380 456 LPRLLCEELCSLNPMTDKLTFSVIWKLTPEGKILEEWFGRTIIRSCTKLSYDHAQSMIENPTEKipKEELPPISPEhsIE 535
Cdd:PRK11642 333 LPEVLSNGLCSLNPQVDRLCMVCEMTISSKGRLTGYKFYEAVMSSHARLTYTKVWHILQGDQDL--REQYAPLVKH--LE 408
|
170 180 190 200 210 220 230 240
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 288541380 536 EVHqavlNLHSIAKQLRRQRfvdGALRLDQLKLAFTLDHETGLPQgCHIYEYRDSNKLVEEFMLLANMAVAhKIFRTFPE 615
Cdd:PRK11642 409 ELH----NLYKVLDKAREER---GGISFESEEAKFIFNAERRIER-IEQTQRNDAHKLIEECMILANISAA-RFVEKAKE 479
|
250 260 270 280 290 300 310 320
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 288541380 616 QALLRRHPPPQTKMLSDLVEFCDQMGLpmdvsSAGALNKSLTNTFGDDKYSLARK---EVLTNMYSRPMQMALYfcsgml 692
Cdd:PRK11642 480 PALFRIHDKPSTEAITSFRSVLAELGL-----ELPGGNKPEPRDYAELLESVADRpdaEMLQTMLLRSMKQAIY------ 548
|
330 340 350 360
....*....|....*....|....*....|....*....|....*..
gi 288541380 693 qDQAQFRHYALNVPLYTHFTSPIRRFADVIVHR----LLAAALGYSE 735
Cdd:PRK11642 549 -DPENRGHFGLALQSYAHFTSPIRRYPDLSLHRaikyLLAKEQGHKG 594
|
|
| Rnb |
COG4776 |
Exoribonuclease II [Transcription]; |
372-757 |
2.13e-35 |
|
Exoribonuclease II [Transcription];
Pssm-ID: 443808 [Multi-domain] Cd Length: 644 Bit Score: 143.45 E-value: 2.13e-35
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 288541380 372 PWTIPPEEVgKRRDLRKDCIFTIDPSTARDLDDALSCRQLTDGTFEVGVHIADVSYFVPEGSSLDKVAAERATSVYLVQK 451
Cdd:COG4776 180 EWELLDEGL-EREDLTALPFVTIDSESTEDMDDALYIEKLENGGWKLTVAIADPTAYIPEGSELDKEARQRAFTNYLPGF 258
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 288541380 452 VVPMLPRLLCEELCSLNPMTDKLTFSVIWKLTPEGKILE--EWFGRTiIRSCTKLSYDHAQSMIENPTEKIPKEelppis 529
Cdd:COG4776 259 NIPMLPRELSDDLCSLKENEKRPALVCRVTIDADGSIGDdiEFFAAW-IRSKAKLAYDNVSDWLEGKGEWQPEN------ 331
|
170 180 190 200 210 220 230 240
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 288541380 530 pehsiEEVHQAVLNLHSIAkQLRRQRFVDGALRL-DQLKLAFTLDhETGLPQGCHIYEYRDSNKLVEEFMLLANMAVAHK 608
Cdd:COG4776 332 -----EEIAEQIRLLHQFA-LARSQWRQQHALVFkDRPDYRFELD-EKGNVLDIHAEPRRIANRIVEEAMIAANICAARV 404
|
250 260 270 280 290 300 310 320
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 288541380 609 --------IFRT---F-PE-----QALLRRHPPPQTK-MLSDLVEFCdqmglpmdvssagALNKSLTNTfgDDKY--SLA 668
Cdd:COG4776 405 lrehlgfgIFNVhsgFdPEkleqaVELLAEHGIEFDPeQLLTLEGFC-------------ALRRELDAQ--PTSYldSRL 469
|
330 340 350 360 370 380 390 400
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 288541380 669 RKevltnmysrpmqmalyfcsgmLQDQAQFR-----HYALNVPLYTHFTSPIRRFADVIVHRLLAAALgySEQPDVEPDA 743
Cdd:COG4776 470 RR---------------------FQTFAEIStepgpHFGLGLDAYATWTSPIRKYGDMVNHRLIKAVI--LGQPAEKPDE 526
|
410
....*....|....*.
gi 288541380 744 --LQKQADHCNDRRMA 757
Cdd:COG4776 527 elTERLAERRRLNRMA 542
|
|
| PRK05054 |
PRK05054 |
exoribonuclease II; Provisional |
372-761 |
9.94e-35 |
|
exoribonuclease II; Provisional
Pssm-ID: 179920 [Multi-domain] Cd Length: 644 Bit Score: 141.55 E-value: 9.94e-35
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 288541380 372 PWTIPPEEVgKRRDLRKDCIFTIDPSTARDLDDALSCRQLTDGTFEVGVHIADVSYFVPEGSSLDKVAAERATSVYLVQK 451
Cdd:PRK05054 180 AWEMLDEGL-EREDLTALDFVTIDSASTEDMDDALYVEKLPDGGLQLTVAIADPTAYIAEGSKLDKAARQRAFTNYLPGF 258
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 288541380 452 VVPMLPRLLCEELCSLNPMTDKLTFSVIWKLTPEGKILEE--WFGRTiIRSCTKLSYDHAQSMIENptekipKEELPPIS 529
Cdd:PRK05054 259 NIPMLPRELSDDLCSLRPNERRPALACRVTIDADGTIEDDirFFAAW-IESKAKLAYDNVSDWLEN------GGDWQPES 331
|
170 180 190 200 210 220 230 240
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 288541380 530 pehsiEEVHQAVLNLHSIAkQLRRQ-RFVDGALRLDQLKLAFTLDhETGLPQGCHIYEYRDSNKLVEEFMLLANMAVAhK 608
Cdd:PRK05054 332 -----EAIAEQIRLLHQFC-LARSEwRKQHALVFKDRPDYRFELG-EKGEVLDIVAEPRRIANRIVEESMIAANICAA-R 403
|
250 260 270 280 290 300 310 320
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 288541380 609 IFRTFPEQALLRRHPPPQTKMLSDLVEFCDQMGLPMDVSSAGALN---------KSLTNTFGDdkySLARKevltnmysr 679
Cdd:PRK05054 404 VLRDKLGFGIYNVHSGFDPANAEQAVALLKEHGLHFDAEELLTLEgfcklrrelDAQPTGYLD---SRIRR--------- 471
|
330 340 350 360 370 380 390 400
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 288541380 680 pmqmalyfcsgmLQDQAQFR-----HYALNVPLYTHFTSPIRRFADVIVHRLLAAALGYSEQPDVEPDALQKQADHCNDR 754
Cdd:PRK05054 472 ------------FQSFAEIStepgpHFGLGLEAYATWTSPIRKYGDMINHRLLKAVIKGETAERPQDEITVQLAERRRLN 539
|
....*..
gi 288541380 755 RMASKRV 761
Cdd:PRK05054 540 RMAERDV 546
|
|
| Dis3l2_C_term |
pfam17877 |
DIS3-like exonuclease 2 C terminal; This is the C-terminal S1 domain found in Dis3L2 proteins. ... |
778-867 |
1.95e-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: 117.75 E-value: 1.95e-31
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 288541380 778 GPLESEAMVMGVLNQAFDVLVLRFGVQKRIYCNALALRSYHFQKVGKkpeLTLVWEPDDLEEEPIQQVITIFSLVDVVLQ 857
Cdd:pfam17877 1 GPLETEAVVLGVLDSSFDVLIPEYGIEKRVYLDQLPLKKFEFDKTGV---LTLYWKKGVPSSAYVPEDERFSSLVVVVLK 77
|
90
....*....|
gi 288541380 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 |
5.22e-31 |
|
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: 116.17 E-value: 5.22e-31
10 20 30 40 50 60 70
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*..
gi 288541380 277 YALFSPSDHRVPRIYVPLKDCPQDFMTRPKDYANTLFICRIIDWKEDCNFALGQLAKSLGQAGEIEPETEGILTEYG 353
Cdd:pfam17849 1 YVLFVPRDKRIPRIRIPTKSAPEEFLENPEDLEGKLFVVKIDDWPENSRYPLGHIVKVLGEIGDIETETEAILLENG 77
|
|
| Rrp44_CSD1 |
pfam17216 |
Rrp44-like cold shock domain; |
50-159 |
5.22e-11 |
|
Rrp44-like cold shock domain;
Pssm-ID: 375054 Cd Length: 148 Bit Score: 61.71 E-value: 5.22e-11
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 288541380 50 FETYMSKEDVSEGLKKGTLIQGVLRINPKKFHEAFIPSPDGDRDIFIDGVVARNRALNGDLVVVKLLPEDQWKPritlsl 129
Cdd:pfam17216 4 FPEYYSTARVMGGLKNGVLYQGNIQISEYNFLEGSVSLPRFSKPVLIVGQKNLNRAFNGDQVIVELLPQSEWKA------ 77
|
90 100 110
....*....|....*....|....*....|.
gi 288541380 130 PGVLGLQGVKPESNDK-ETEATNETDISEES 159
Cdd:pfam17216 78 PSSIVLDSEHFDVNDNpDIEAGDDDDNNESS 108
|
|
| |
