|
Name |
Accession |
Description |
Interval |
E-value |
| VacB super family |
cl43181 |
Exoribonuclease R [Transcription]; |
231-745 |
2.81e-124 |
|
Exoribonuclease R [Transcription];
The actual alignment was detected with superfamily member COG0557:
Pssm-ID: 440323 [Multi-domain] Cd Length: 711 Bit Score: 391.39 E-value: 2.81e-124
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 134288890 231 RSAKVVYILEkkhsRAATGFL-KLLADKNselfrkYALFSPSDHRVPR-IYVPLKDCPQdfvARPKDyantLFICRIVDW 308
Cdd:COG0557 122 PEGRVVEILE----RANTRVVgRFEKEKG------FGFVVPDDKRLLQdIFIPPDDLNG---AKDGD----LVVVEITRY 184
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 134288890 309 KEDCNFALGQLAKSLGQAGEIEPETEGILTEYGVDFsDFSSEVLECLpQGLPWTIPPEEFSKRRDLRKDCIFTIDPSTAR 388
Cdd:COG0557 185 PERRGPPEGRVVEVLGSPGDPGAEILIAIRKHGLPH-EFPEEVLAEA-EALPDEVPEADLKGRRDLRDLPLVTIDGEDAK 262
|
170 180 190 200 210 220 230 240
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 134288890 389 DLDDALSCKPLADGNFKVGVHIADVSYFVPEGSDLDKVAAERATSVYLVQKVVPMLPRLLCEELCSLNPMSDKLTFSVIW 468
Cdd:COG0557 263 DFDDAVSAEKLDNGGWRLGVHIADVSHYVRPGSALDREARKRGTSVYLPDRVIPMLPERLSNGLCSLNPGEDRLAMSCEM 342
|
250 260 270 280 290 300 310 320
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 134288890 469 TLTPEGKILDEWFGRTIIRSCTKLSYEHAQSMIESPTEKIPAKelppispehsSEEVHQAVLNLHGIAKQLRQQRFVDGA 548
Cdd:COG0557 343 EIDAKGEVVSYEFYRSVIRSDARLTYEEVQAILDGKDEELREE----------YADLVPMLEELYELAKILRKAREKRGA 412
|
330 340 350 360 370 380 390 400
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 134288890 549 LRLDQLKLAFTLDhETGLPQGCHIYEYRESNKLVEEFMLLANMAVAHKIHRAfpEQALLRR-HPPPQTRMLSDLVEFCDQ 627
Cdd:COG0557 413 IDFDLPETKIILD-EEGKPEDIVPRERNDAHKLIEEFMLLANEAVAEFLEKL--KLPFLYRvHEEPDPEKLEALREFLAN 489
|
410 420 430 440 450 460 470 480
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 134288890 628 MGLPVDFS---SAGALNKSLTQTFGDDKYslarkEVLTNMCSRPMQMALYfcsgllqDPAQFRHYALNVPLYTHFTSPIR 704
Cdd:COG0557 490 LGLKLKGGdepTPKDLQKLLEQVKGRPEE-----ELLNTLLLRSMKQAVY-------SPENIGHFGLALEAYTHFTSPIR 557
|
490 500 510 520
....*....|....*....|....*....|....*....|....*
gi 134288890 705 RFADVLVHRLLAAALG---YRERLDMAPDTLQKQADHCNDR-RMA 745
Cdd:COG0557 558 RYPDLLVHRALKAYLEgkrSPGLQEYLEEELEEIAEHCSETeRRA 602
|
|
| Dis3l2_C_term |
pfam17877 |
DIS3-like exonuclease 2 C terminal; This is the C-terminal S1 domain found in Dis3L2 proteins. ... |
766-855 |
1.61e-30 |
|
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: 115.05 E-value: 1.61e-30
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 134288890 766 GPLESEAMVMGILKQAFDVLVLRYGVQKRIYCNALALRSHHFQKVGKkpeLTLVWEPEDMEQEPAQQVITIFSLVEVVLQ 845
Cdd:pfam17877 1 GPLETEAVVLGVLDSSFDVLIPEYGIEKRVYLDQLPLKKFEFDKTGV---LTLYWKKGVPSSAYVPEDERFSSLVVVVLK 77
|
90
....*....|
gi 134288890 846 AESTALKYSA 855
Cdd:pfam17877 78 SDSDPLKLEA 87
|
|
| Rrp44_CSD1 super family |
cl28867 |
Rrp44-like cold shock domain; |
50-238 |
2.67e-11 |
|
Rrp44-like cold shock domain;
The actual alignment was detected with superfamily member pfam17216:
Pssm-ID: 375054 Cd Length: 148 Bit Score: 62.48 E-value: 2.67e-11
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 134288890 50 FETYMSKEDVSEGLKRGTLIQGVLRINPKKFHEAFIPSPDGDRDIFIDGVVARNRALNGDLVVVKLLPEEHWKVvkPESN 129
Cdd:pfam17216 4 FPEYYSTARVMGGLKNGVLYQGNIQISEYNFLEGSVSLPRFSKPVLIVGQKNLNRAFNGDQVIVELLPQSEWKA--PSSI 81
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 134288890 130 DKETEaayesdipeelcghHLpqqslkSYNDSPDViveaqfDGSDSEDGHGITQNVLVdgvkklsvcVSEKGREdgdaPV 209
Cdd:pfam17216 82 VLDSE--------------HF------DVNDNPDI------EAGDDDDNNESSSNTTV---------ISDKQRR----LL 122
|
170 180
....*....|....*....|....*....
gi 134288890 210 TKDetTCISQDTralseKSLQRSAKVVYI 238
Cdd:pfam17216 123 AKD--AMIAQRS-----KKIQPTAKVVYI 144
|
|
| |
|
Name |
Accession |
Description |
Interval |
E-value |
| VacB |
COG0557 |
Exoribonuclease R [Transcription]; |
231-745 |
2.81e-124 |
|
Exoribonuclease R [Transcription];
Pssm-ID: 440323 [Multi-domain] Cd Length: 711 Bit Score: 391.39 E-value: 2.81e-124
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 134288890 231 RSAKVVYILEkkhsRAATGFL-KLLADKNselfrkYALFSPSDHRVPR-IYVPLKDCPQdfvARPKDyantLFICRIVDW 308
Cdd:COG0557 122 PEGRVVEILE----RANTRVVgRFEKEKG------FGFVVPDDKRLLQdIFIPPDDLNG---AKDGD----LVVVEITRY 184
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 134288890 309 KEDCNFALGQLAKSLGQAGEIEPETEGILTEYGVDFsDFSSEVLECLpQGLPWTIPPEEFSKRRDLRKDCIFTIDPSTAR 388
Cdd:COG0557 185 PERRGPPEGRVVEVLGSPGDPGAEILIAIRKHGLPH-EFPEEVLAEA-EALPDEVPEADLKGRRDLRDLPLVTIDGEDAK 262
|
170 180 190 200 210 220 230 240
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 134288890 389 DLDDALSCKPLADGNFKVGVHIADVSYFVPEGSDLDKVAAERATSVYLVQKVVPMLPRLLCEELCSLNPMSDKLTFSVIW 468
Cdd:COG0557 263 DFDDAVSAEKLDNGGWRLGVHIADVSHYVRPGSALDREARKRGTSVYLPDRVIPMLPERLSNGLCSLNPGEDRLAMSCEM 342
|
250 260 270 280 290 300 310 320
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 134288890 469 TLTPEGKILDEWFGRTIIRSCTKLSYEHAQSMIESPTEKIPAKelppispehsSEEVHQAVLNLHGIAKQLRQQRFVDGA 548
Cdd:COG0557 343 EIDAKGEVVSYEFYRSVIRSDARLTYEEVQAILDGKDEELREE----------YADLVPMLEELYELAKILRKAREKRGA 412
|
330 340 350 360 370 380 390 400
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 134288890 549 LRLDQLKLAFTLDhETGLPQGCHIYEYRESNKLVEEFMLLANMAVAHKIHRAfpEQALLRR-HPPPQTRMLSDLVEFCDQ 627
Cdd:COG0557 413 IDFDLPETKIILD-EEGKPEDIVPRERNDAHKLIEEFMLLANEAVAEFLEKL--KLPFLYRvHEEPDPEKLEALREFLAN 489
|
410 420 430 440 450 460 470 480
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 134288890 628 MGLPVDFS---SAGALNKSLTQTFGDDKYslarkEVLTNMCSRPMQMALYfcsgllqDPAQFRHYALNVPLYTHFTSPIR 704
Cdd:COG0557 490 LGLKLKGGdepTPKDLQKLLEQVKGRPEE-----ELLNTLLLRSMKQAVY-------SPENIGHFGLALEAYTHFTSPIR 557
|
490 500 510 520
....*....|....*....|....*....|....*....|....*
gi 134288890 705 RFADVLVHRLLAAALG---YRERLDMAPDTLQKQADHCNDR-RMA 745
Cdd:COG0557 558 RYPDLLVHRALKAYLEgkrSPGLQEYLEEELEEIAEHCSETeRRA 602
|
|
| RNB |
pfam00773 |
RNB domain; This domain is the catalytic domain of ribonuclease II. |
371-719 |
2.77e-116 |
|
RNB domain; This domain is the catalytic domain of ribonuclease II.
Pssm-ID: 459934 [Multi-domain] Cd Length: 314 Bit Score: 356.98 E-value: 2.77e-116
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 134288890 371 RRDLRKDCIFTIDPSTARDLDDALSCKPLADGNFKVGVHIADVSYFVPEGSDLDKVAAERATSVYLVQKVVPMLPRLLCE 450
Cdd:pfam00773 1 RKDLRDLPFITIDPADAKDLDDAISVEKLPNGGYRLGVHIADVSHYVPPGSPLDREARKRGTSVYLPDRVIPMLPEKLSN 80
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 134288890 451 ELCSLNPMSDKLTFSVIWTLTPEGKILDEWFGRTIIRSCTKLSYEHAQSMIESPTEKIPAKELppispehsseevHQAVL 530
Cdd:pfam00773 81 DLCSLNPGEDRLALSVEITIDADGEVTSYEIYPSVIRSKARLTYEEVDDLLEGKDAEKDKPDL------------AEDLR 148
|
170 180 190 200 210 220 230 240
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 134288890 531 NLHGIAKQLRQQRFVDGALRLDQLKLAFTLDHETglPQGCHIYEYRESNKLVEEFMLLANMAVAHKIHrAFPEQALLRRH 610
Cdd:pfam00773 149 LLYELAKILRAKRLQRGALDLDTPENKLILDEEG--VIDILIQERTDAHSLIEEFMLLANEAVARHLQ-ELGIPALYRVH 225
|
250 260 270 280 290 300 310 320
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 134288890 611 PPPQTRMLSDLVEFCDQMGLPVDFSSAGALNKSLtqtfgddkyslarKEVLTNMCSRPMQMALYFcsgllqdPAQFRHYA 690
Cdd:pfam00773 226 PEPDLEKLNSLIKLLQLLPDDKGLSKSLEKIKDD-------------ERLLSILLLRTMPRAEYS-------PEPLGHFG 285
|
330 340
....*....|....*....|....*....
gi 134288890 691 LNVPLYTHFTSPIRRFADVLVHRLLAAAL 719
Cdd:pfam00773 286 LGLDIYTHFTSPIRRYPDLIVHRQLKALL 314
|
|
| RNB |
smart00955 |
This domain is the catalytic domain of ribonuclease II; |
371-720 |
4.18e-107 |
|
This domain is the catalytic domain of ribonuclease II;
Pssm-ID: 214935 [Multi-domain] Cd Length: 286 Bit Score: 331.92 E-value: 4.18e-107
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 134288890 371 RRDLRKDCIFTIDPSTARDLDDALSCKPLADGNFKVGVHIADVSYFVPEGSDLDKVAAERATSVYLVQKVVPMLPRLLCE 450
Cdd:smart00955 1 RVDLRDLPLFTIDPEDAKDIDDAVSVEKLDNGGYRLGVHIADVSHYVKPGSALDREARKRGTSVYLPDRVIPMLPEELSN 80
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 134288890 451 ELCSLNPMSDKLTFSVIWTLTPEG-KILDEWFGRTIIRSCTKLSYEHAQSMIESptekipakelppispehsseevhqav 529
Cdd:smart00955 81 GLCSLNPGEDRLALSVEMTLDADGgEILDYEFYRSVIRSKARLTYEEVDAILEK-------------------------- 134
|
170 180 190 200 210 220 230 240
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 134288890 530 lnlhgiakqlrqqrfvdgalrldqlklaFTLDHEtGLPQGCHIYEYRESNKLVEEFMLLANMAVAHKIHRAFPeQALLRR 609
Cdd:smart00955 135 ----------------------------IVLDEE-GKIEDIVPRERNDAHSLVEEFMILANEAVARFLAKNGI-PGLYRV 184
|
250 260 270 280 290 300 310 320
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 134288890 610 HPPPQTRMLSD-LVEFCDQMG-LPVDFSSAGALNKSLTQTFGDDKyslarKEVLTNMCSRPMQMALYFCSGLlqdpaqfR 687
Cdd:smart00955 185 HEGPDPEKLAElLKEFLALLGlLLLGGDGPKALAKLLEKIRDSPE-----ERLLELLLLRSMPHAEYSVDNS-------G 252
|
330 340 350
....*....|....*....|....*....|...
gi 134288890 688 HYALNVPLYTHFTSPIRRFADVLVHRLLAAALG 720
Cdd:smart00955 253 HFGLALDAYTHFTSPIRRYPDLIVHRQLKAALR 285
|
|
| RNase_R |
TIGR02063 |
ribonuclease R; This family consists of an exoribonuclease, ribonuclease R, also called VacB. ... |
231-742 |
1.59e-99 |
|
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: 326.15 E-value: 1.59e-99
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 134288890 231 RSAKVVYILEKKHSRAATGFLKLladknselfRKYALFSPSDHRVP-RIYVPLKDCpqdfvARPKDyaNTLFICRIVDWK 309
Cdd:TIGR02063 123 FEARVIKILERANDQIVGTFYIE---------NGIGFVIPDDKRIYlDIFIPPEQI-----LGAEE--GDKVLVEITKYP 186
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 134288890 310 EDCNFALGQLAKSLGQAGEIEPETEGILTEYGVDFsDFSSEVLEcLPQGLPWTIPPEEFSKRRDLRKDCIFTIDPSTARD 389
Cdd:TIGR02063 187 DRNRPAIGKVVEILGHADDPGIDILIIIRKHGIPY-EFPEEVLD-EAAKIPEEVPEEEIKGRKDLRDLPFVTIDGEDAKD 264
|
170 180 190 200 210 220 230 240
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 134288890 390 LDDALSCKPLADGNFKVGVHIADVSYFVPEGSDLDKVAAERATSVYLVQKVVPMLPRLLCEELCSLNPMSDKLTFSVIWT 469
Cdd:TIGR02063 265 FDDAVYVEKLKDGNYKLGVAIADVSHYVREGSALDKEALKRGTSVYLPDRVIPMLPERLSNGICSLNPNEDRLTLSCEME 344
|
250 260 270 280 290 300 310 320
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 134288890 470 LTPEGKILDEWFGRTIIRSCTKLSYEHAQSMIEspTEKIPAKELPPISPEhsseevhqaVLNLHGIAKQLRQQRFVDGAL 549
Cdd:TIGR02063 345 IDKKGRVKKYEFYEAVINSHARLTYNQVNDIIE--GKDALDKKEPPLKEM---------LKNLFELYKILRKKRKKRGAI 413
|
330 340 350 360 370 380 390 400
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 134288890 550 RLDQLKLAFTLDhETGLPQGCHIYEYRESNKLVEEFMLLANMAVAHKIHRAfPEQALLRRHPPPQTRMLSDLVEFCDQMG 629
Cdd:TIGR02063 414 DFDSKEAKIILD-ENGKPIDIVPRERGDAHKLIEEFMIAANETVAEHLEKA-KLPFIYRVHERPSEEKLQNLREFLKTLG 491
|
410 420 430 440 450 460 470 480
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 134288890 630 LPVDFSSA-----GALNKSLTQTFGDDKYSLARKEVLtnmcsRPMQMALYfcsgllqDPAQFRHYALNVPLYTHFTSPIR 704
Cdd:TIGR02063 492 ITLKGGTSdkpqpKDFQKLLEKVKGRPEEELINTVLL-----RSMQQAKY-------SPENIGHFGLALEYYTHFTSPIR 559
|
490 500 510 520
....*....|....*....|....*....|....*....|....
gi 134288890 705 RFADVLVHRLLAAALGYRERL------DMAPDTLQKQADHCNDR 742
Cdd:TIGR02063 560 RYPDLIVHRLIKKALFGGENTttekerEYLEAKLEEIAEHSSKT 603
|
|
| PRK11642 |
PRK11642 |
ribonuclease R; |
365-751 |
1.03e-40 |
|
ribonuclease R;
Pssm-ID: 236944 [Multi-domain] Cd Length: 813 Bit Score: 161.45 E-value: 1.03e-40
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 134288890 365 PEEFSKRR-DLRKDCIFTIDPSTARDLDDALSCKPLADGNFKVGVHIADVSYFVPEGSDLDKVAAERATSVYLVQKVVPM 443
Cdd:PRK11642 253 PEEAKAGRvDLRDLPLVTIDGEDARDFDDAVYCEKKRGGGWRLWVAIADVSYYVRPPTPLDREARNRGTSVYFPSQVVPM 332
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 134288890 444 LPRLLCEELCSLNPMSDKLTFSVIWTLTPEGKILDEWFGRTIIRSCTKLSYEHAQSMIESPTEKipakelppisPEHSSE 523
Cdd:PRK11642 333 LPEVLSNGLCSLNPQVDRLCMVCEMTISSKGRLTGYKFYEAVMSSHARLTYTKVWHILQGDQDL----------REQYAP 402
|
170 180 190 200 210 220 230 240
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 134288890 524 EVhQAVLNLHGIAKQLRQQRFVDGALRLDQLKLAFTLDHETGLPQgCHIYEYRESNKLVEEFMLLANMAVAHKIHRAfPE 603
Cdd:PRK11642 403 LV-KHLEELHNLYKVLDKAREERGGISFESEEAKFIFNAERRIER-IEQTQRNDAHKLIEECMILANISAARFVEKA-KE 479
|
250 260 270 280 290 300 310 320
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 134288890 604 QALLRRHPPPQTRMLSDLVEFCDQMGLpvdfsSAGALNKSLTQTFGDDKYSLARK---EVLTNMCSRPMQMALYfcsgll 680
Cdd:PRK11642 480 PALFRIHDKPSTEAITSFRSVLAELGL-----ELPGGNKPEPRDYAELLESVADRpdaEMLQTMLLRSMKQAIY------ 548
|
330 340 350 360 370 380 390 400
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 134288890 681 qDPAQFRHYALNVPLYTHFTSPIRRFADVLVHR----LLAAALGYRERL--------DMaPDTLQkQADHCNdrrMASKR 748
Cdd:PRK11642 549 -DPENRGHFGLALQSYAHFTSPIRRYPDLSLHRaikyLLAKEQGHKGNTtetggyhySM-EEMLQ-LGQHCS---MTERR 622
|
...
gi 134288890 749 VQE 751
Cdd:PRK11642 623 ADE 625
|
|
| Dis3l2_C_term |
pfam17877 |
DIS3-like exonuclease 2 C terminal; This is the C-terminal S1 domain found in Dis3L2 proteins. ... |
766-855 |
1.61e-30 |
|
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: 115.05 E-value: 1.61e-30
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 134288890 766 GPLESEAMVMGILKQAFDVLVLRYGVQKRIYCNALALRSHHFQKVGKkpeLTLVWEPEDMEQEPAQQVITIFSLVEVVLQ 845
Cdd:pfam17877 1 GPLETEAVVLGVLDSSFDVLIPEYGIEKRVYLDQLPLKKFEFDKTGV---LTLYWKKGVPSSAYVPEDERFSSLVVVVLK 77
|
90
....*....|
gi 134288890 846 AESTALKYSA 855
Cdd:pfam17877 78 SDSDPLKLEA 87
|
|
| Rrp44_CSD1 |
pfam17216 |
Rrp44-like cold shock domain; |
50-238 |
2.67e-11 |
|
Rrp44-like cold shock domain;
Pssm-ID: 375054 Cd Length: 148 Bit Score: 62.48 E-value: 2.67e-11
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 134288890 50 FETYMSKEDVSEGLKRGTLIQGVLRINPKKFHEAFIPSPDGDRDIFIDGVVARNRALNGDLVVVKLLPEEHWKVvkPESN 129
Cdd:pfam17216 4 FPEYYSTARVMGGLKNGVLYQGNIQISEYNFLEGSVSLPRFSKPVLIVGQKNLNRAFNGDQVIVELLPQSEWKA--PSSI 81
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 134288890 130 DKETEaayesdipeelcghHLpqqslkSYNDSPDViveaqfDGSDSEDGHGITQNVLVdgvkklsvcVSEKGREdgdaPV 209
Cdd:pfam17216 82 VLDSE--------------HF------DVNDNPDI------EAGDDDDNNESSSNTTV---------ISDKQRR----LL 122
|
170 180
....*....|....*....|....*....
gi 134288890 210 TKDetTCISQDTralseKSLQRSAKVVYI 238
Cdd:pfam17216 123 AKD--AMIAQRS-----KKIQPTAKVVYI 144
|
|
| |
|
Name |
Accession |
Description |
Interval |
E-value |
| VacB |
COG0557 |
Exoribonuclease R [Transcription]; |
231-745 |
2.81e-124 |
|
Exoribonuclease R [Transcription];
Pssm-ID: 440323 [Multi-domain] Cd Length: 711 Bit Score: 391.39 E-value: 2.81e-124
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 134288890 231 RSAKVVYILEkkhsRAATGFL-KLLADKNselfrkYALFSPSDHRVPR-IYVPLKDCPQdfvARPKDyantLFICRIVDW 308
Cdd:COG0557 122 PEGRVVEILE----RANTRVVgRFEKEKG------FGFVVPDDKRLLQdIFIPPDDLNG---AKDGD----LVVVEITRY 184
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 134288890 309 KEDCNFALGQLAKSLGQAGEIEPETEGILTEYGVDFsDFSSEVLECLpQGLPWTIPPEEFSKRRDLRKDCIFTIDPSTAR 388
Cdd:COG0557 185 PERRGPPEGRVVEVLGSPGDPGAEILIAIRKHGLPH-EFPEEVLAEA-EALPDEVPEADLKGRRDLRDLPLVTIDGEDAK 262
|
170 180 190 200 210 220 230 240
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 134288890 389 DLDDALSCKPLADGNFKVGVHIADVSYFVPEGSDLDKVAAERATSVYLVQKVVPMLPRLLCEELCSLNPMSDKLTFSVIW 468
Cdd:COG0557 263 DFDDAVSAEKLDNGGWRLGVHIADVSHYVRPGSALDREARKRGTSVYLPDRVIPMLPERLSNGLCSLNPGEDRLAMSCEM 342
|
250 260 270 280 290 300 310 320
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 134288890 469 TLTPEGKILDEWFGRTIIRSCTKLSYEHAQSMIESPTEKIPAKelppispehsSEEVHQAVLNLHGIAKQLRQQRFVDGA 548
Cdd:COG0557 343 EIDAKGEVVSYEFYRSVIRSDARLTYEEVQAILDGKDEELREE----------YADLVPMLEELYELAKILRKAREKRGA 412
|
330 340 350 360 370 380 390 400
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 134288890 549 LRLDQLKLAFTLDhETGLPQGCHIYEYRESNKLVEEFMLLANMAVAHKIHRAfpEQALLRR-HPPPQTRMLSDLVEFCDQ 627
Cdd:COG0557 413 IDFDLPETKIILD-EEGKPEDIVPRERNDAHKLIEEFMLLANEAVAEFLEKL--KLPFLYRvHEEPDPEKLEALREFLAN 489
|
410 420 430 440 450 460 470 480
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 134288890 628 MGLPVDFS---SAGALNKSLTQTFGDDKYslarkEVLTNMCSRPMQMALYfcsgllqDPAQFRHYALNVPLYTHFTSPIR 704
Cdd:COG0557 490 LGLKLKGGdepTPKDLQKLLEQVKGRPEE-----ELLNTLLLRSMKQAVY-------SPENIGHFGLALEAYTHFTSPIR 557
|
490 500 510 520
....*....|....*....|....*....|....*....|....*
gi 134288890 705 RFADVLVHRLLAAALG---YRERLDMAPDTLQKQADHCNDR-RMA 745
Cdd:COG0557 558 RYPDLLVHRALKAYLEgkrSPGLQEYLEEELEEIAEHCSETeRRA 602
|
|
| RNB |
pfam00773 |
RNB domain; This domain is the catalytic domain of ribonuclease II. |
371-719 |
2.77e-116 |
|
RNB domain; This domain is the catalytic domain of ribonuclease II.
Pssm-ID: 459934 [Multi-domain] Cd Length: 314 Bit Score: 356.98 E-value: 2.77e-116
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 134288890 371 RRDLRKDCIFTIDPSTARDLDDALSCKPLADGNFKVGVHIADVSYFVPEGSDLDKVAAERATSVYLVQKVVPMLPRLLCE 450
Cdd:pfam00773 1 RKDLRDLPFITIDPADAKDLDDAISVEKLPNGGYRLGVHIADVSHYVPPGSPLDREARKRGTSVYLPDRVIPMLPEKLSN 80
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 134288890 451 ELCSLNPMSDKLTFSVIWTLTPEGKILDEWFGRTIIRSCTKLSYEHAQSMIESPTEKIPAKELppispehsseevHQAVL 530
Cdd:pfam00773 81 DLCSLNPGEDRLALSVEITIDADGEVTSYEIYPSVIRSKARLTYEEVDDLLEGKDAEKDKPDL------------AEDLR 148
|
170 180 190 200 210 220 230 240
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 134288890 531 NLHGIAKQLRQQRFVDGALRLDQLKLAFTLDHETglPQGCHIYEYRESNKLVEEFMLLANMAVAHKIHrAFPEQALLRRH 610
Cdd:pfam00773 149 LLYELAKILRAKRLQRGALDLDTPENKLILDEEG--VIDILIQERTDAHSLIEEFMLLANEAVARHLQ-ELGIPALYRVH 225
|
250 260 270 280 290 300 310 320
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 134288890 611 PPPQTRMLSDLVEFCDQMGLPVDFSSAGALNKSLtqtfgddkyslarKEVLTNMCSRPMQMALYFcsgllqdPAQFRHYA 690
Cdd:pfam00773 226 PEPDLEKLNSLIKLLQLLPDDKGLSKSLEKIKDD-------------ERLLSILLLRTMPRAEYS-------PEPLGHFG 285
|
330 340
....*....|....*....|....*....
gi 134288890 691 LNVPLYTHFTSPIRRFADVLVHRLLAAAL 719
Cdd:pfam00773 286 LGLDIYTHFTSPIRRYPDLIVHRQLKALL 314
|
|
| RNB |
smart00955 |
This domain is the catalytic domain of ribonuclease II; |
371-720 |
4.18e-107 |
|
This domain is the catalytic domain of ribonuclease II;
Pssm-ID: 214935 [Multi-domain] Cd Length: 286 Bit Score: 331.92 E-value: 4.18e-107
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 134288890 371 RRDLRKDCIFTIDPSTARDLDDALSCKPLADGNFKVGVHIADVSYFVPEGSDLDKVAAERATSVYLVQKVVPMLPRLLCE 450
Cdd:smart00955 1 RVDLRDLPLFTIDPEDAKDIDDAVSVEKLDNGGYRLGVHIADVSHYVKPGSALDREARKRGTSVYLPDRVIPMLPEELSN 80
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 134288890 451 ELCSLNPMSDKLTFSVIWTLTPEG-KILDEWFGRTIIRSCTKLSYEHAQSMIESptekipakelppispehsseevhqav 529
Cdd:smart00955 81 GLCSLNPGEDRLALSVEMTLDADGgEILDYEFYRSVIRSKARLTYEEVDAILEK-------------------------- 134
|
170 180 190 200 210 220 230 240
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 134288890 530 lnlhgiakqlrqqrfvdgalrldqlklaFTLDHEtGLPQGCHIYEYRESNKLVEEFMLLANMAVAHKIHRAFPeQALLRR 609
Cdd:smart00955 135 ----------------------------IVLDEE-GKIEDIVPRERNDAHSLVEEFMILANEAVARFLAKNGI-PGLYRV 184
|
250 260 270 280 290 300 310 320
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 134288890 610 HPPPQTRMLSD-LVEFCDQMG-LPVDFSSAGALNKSLTQTFGDDKyslarKEVLTNMCSRPMQMALYFCSGLlqdpaqfR 687
Cdd:smart00955 185 HEGPDPEKLAElLKEFLALLGlLLLGGDGPKALAKLLEKIRDSPE-----ERLLELLLLRSMPHAEYSVDNS-------G 252
|
330 340 350
....*....|....*....|....*....|...
gi 134288890 688 HYALNVPLYTHFTSPIRRFADVLVHRLLAAALG 720
Cdd:smart00955 253 HFGLALDAYTHFTSPIRRYPDLIVHRQLKAALR 285
|
|
| RNase_R |
TIGR02063 |
ribonuclease R; This family consists of an exoribonuclease, ribonuclease R, also called VacB. ... |
231-742 |
1.59e-99 |
|
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: 326.15 E-value: 1.59e-99
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 134288890 231 RSAKVVYILEKKHSRAATGFLKLladknselfRKYALFSPSDHRVP-RIYVPLKDCpqdfvARPKDyaNTLFICRIVDWK 309
Cdd:TIGR02063 123 FEARVIKILERANDQIVGTFYIE---------NGIGFVIPDDKRIYlDIFIPPEQI-----LGAEE--GDKVLVEITKYP 186
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 134288890 310 EDCNFALGQLAKSLGQAGEIEPETEGILTEYGVDFsDFSSEVLEcLPQGLPWTIPPEEFSKRRDLRKDCIFTIDPSTARD 389
Cdd:TIGR02063 187 DRNRPAIGKVVEILGHADDPGIDILIIIRKHGIPY-EFPEEVLD-EAAKIPEEVPEEEIKGRKDLRDLPFVTIDGEDAKD 264
|
170 180 190 200 210 220 230 240
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 134288890 390 LDDALSCKPLADGNFKVGVHIADVSYFVPEGSDLDKVAAERATSVYLVQKVVPMLPRLLCEELCSLNPMSDKLTFSVIWT 469
Cdd:TIGR02063 265 FDDAVYVEKLKDGNYKLGVAIADVSHYVREGSALDKEALKRGTSVYLPDRVIPMLPERLSNGICSLNPNEDRLTLSCEME 344
|
250 260 270 280 290 300 310 320
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 134288890 470 LTPEGKILDEWFGRTIIRSCTKLSYEHAQSMIEspTEKIPAKELPPISPEhsseevhqaVLNLHGIAKQLRQQRFVDGAL 549
Cdd:TIGR02063 345 IDKKGRVKKYEFYEAVINSHARLTYNQVNDIIE--GKDALDKKEPPLKEM---------LKNLFELYKILRKKRKKRGAI 413
|
330 340 350 360 370 380 390 400
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 134288890 550 RLDQLKLAFTLDhETGLPQGCHIYEYRESNKLVEEFMLLANMAVAHKIHRAfPEQALLRRHPPPQTRMLSDLVEFCDQMG 629
Cdd:TIGR02063 414 DFDSKEAKIILD-ENGKPIDIVPRERGDAHKLIEEFMIAANETVAEHLEKA-KLPFIYRVHERPSEEKLQNLREFLKTLG 491
|
410 420 430 440 450 460 470 480
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 134288890 630 LPVDFSSA-----GALNKSLTQTFGDDKYSLARKEVLtnmcsRPMQMALYfcsgllqDPAQFRHYALNVPLYTHFTSPIR 704
Cdd:TIGR02063 492 ITLKGGTSdkpqpKDFQKLLEKVKGRPEEELINTVLL-----RSMQQAKY-------SPENIGHFGLALEYYTHFTSPIR 559
|
490 500 510 520
....*....|....*....|....*....|....*....|....
gi 134288890 705 RFADVLVHRLLAAALGYRERL------DMAPDTLQKQADHCNDR 742
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 ... |
231-759 |
6.18e-68 |
|
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: 238.85 E-value: 6.18e-68
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 134288890 231 RSAKVVYILEKKHSRAATGFLklladknselFRKYALFSPSDHrvPRIYVPLKdCPQDFVarPKDYA-NTLFICRIVDWK 309
Cdd:TIGR00358 70 FEAEVERILEPALTRFVGKFL----------GENDFGFVVPDD--PRIYLDII-VPKASV--KNELAeGDKVVVELTEYP 134
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 134288890 310 EDCNFALGQLAKSLGQAGEIEPETEGILTEYGVDFSDfsSEVLECLPQGLPWTIPPEEFSKRRDLRKDCIFTIDPSTARD 389
Cdd:TIGR00358 135 LRRNLFYGEITQILGNNDDPLIPWWVTLARHEIPFEF--PDGVEQQAAKLQFDVDEQAKKYREDLTDLAFVTIDGADAKD 212
|
170 180 190 200 210 220 230 240
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 134288890 390 LDDALSCKPLADGNFKVGVHIADVSYFVPEGSDLDKVAAERATSVYLVQKVVPMLPRLLCEELCSLNPMSDKLTFSVIWT 469
Cdd:TIGR00358 213 LDDAVYVKKLPDGGWKLYVAIADVSYYVAENSPLDKEAKHRGFSVYLPGFVIPMLPEELSNGLCSLNPNEDRLVLVCEMT 292
|
250 260 270 280 290 300 310 320
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 134288890 470 LTPEGKILDEWFGRTIIRSCTKLSYEHAQSMIESptekipAKELPPispehSSEEVHQAVLNLHGIAKQLRQQRFVDGAL 549
Cdd:TIGR00358 293 ISAQGRITDNEFYPATIESKARLTYDKVNDWLEN------DDELQP-----EYETLVEQLKALHQLSQALGEWRHKRGLI 361
|
330 340 350 360 370 380 390 400
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 134288890 550 RLDQLKLAFTLDhETGLPQGCHIYEYRESNKLVEEFMLLANMAVAHKIHRAfPEQALLRRHPPPQTRMLSDLVEFCDQMG 629
Cdd:TIGR00358 362 DFEHPETKFIVD-EEGRVIDIVAEVRRIAEKIIEEAMIVANICAARFLHNH-KVPGIYRVHPGPSKKKLQSLLEFLAELG 439
|
410 420 430 440 450 460 470 480
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 134288890 630 LPVDFSSAGALNKSltqtfgdDKYSLARK-------EVLTNMCSRPMQMALYfcsgllqDPAQFRHYALNVPLYTHFTSP 702
Cdd:TIGR00358 440 LTLPGGNAENVTTL-------DGACWLREvkdrpeyEILVTRLLRSLSQAEY-------SPEPLGHFGLGLEHYAHFTSP 505
|
490 500 510 520 530 540
....*....|....*....|....*....|....*....|....*....|....*....|....*
gi 134288890 703 IRRFADVLVHRLLAAALgYRERLDMAPDTLQ----KQADHCNDRR----MASKRVQELSTSLFFA 759
Cdd:TIGR00358 506 IRRYPDLTNHRLIKAVL-AKEQTDTERYQPQdellQIAEHCSDTErrarDAERDVADWLKCRYLL 569
|
|
| PRK11642 |
PRK11642 |
ribonuclease R; |
365-751 |
1.03e-40 |
|
ribonuclease R;
Pssm-ID: 236944 [Multi-domain] Cd Length: 813 Bit Score: 161.45 E-value: 1.03e-40
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 134288890 365 PEEFSKRR-DLRKDCIFTIDPSTARDLDDALSCKPLADGNFKVGVHIADVSYFVPEGSDLDKVAAERATSVYLVQKVVPM 443
Cdd:PRK11642 253 PEEAKAGRvDLRDLPLVTIDGEDARDFDDAVYCEKKRGGGWRLWVAIADVSYYVRPPTPLDREARNRGTSVYFPSQVVPM 332
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 134288890 444 LPRLLCEELCSLNPMSDKLTFSVIWTLTPEGKILDEWFGRTIIRSCTKLSYEHAQSMIESPTEKipakelppisPEHSSE 523
Cdd:PRK11642 333 LPEVLSNGLCSLNPQVDRLCMVCEMTISSKGRLTGYKFYEAVMSSHARLTYTKVWHILQGDQDL----------REQYAP 402
|
170 180 190 200 210 220 230 240
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 134288890 524 EVhQAVLNLHGIAKQLRQQRFVDGALRLDQLKLAFTLDHETGLPQgCHIYEYRESNKLVEEFMLLANMAVAHKIHRAfPE 603
Cdd:PRK11642 403 LV-KHLEELHNLYKVLDKAREERGGISFESEEAKFIFNAERRIER-IEQTQRNDAHKLIEECMILANISAARFVEKA-KE 479
|
250 260 270 280 290 300 310 320
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 134288890 604 QALLRRHPPPQTRMLSDLVEFCDQMGLpvdfsSAGALNKSLTQTFGDDKYSLARK---EVLTNMCSRPMQMALYfcsgll 680
Cdd:PRK11642 480 PALFRIHDKPSTEAITSFRSVLAELGL-----ELPGGNKPEPRDYAELLESVADRpdaEMLQTMLLRSMKQAIY------ 548
|
330 340 350 360 370 380 390 400
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 134288890 681 qDPAQFRHYALNVPLYTHFTSPIRRFADVLVHR----LLAAALGYRERL--------DMaPDTLQkQADHCNdrrMASKR 748
Cdd:PRK11642 549 -DPENRGHFGLALQSYAHFTSPIRRYPDLSLHRaikyLLAKEQGHKGNTtetggyhySM-EEMLQ-LGQHCS---MTERR 622
|
...
gi 134288890 749 VQE 751
Cdd:PRK11642 623 ADE 625
|
|
| Rnb |
COG4776 |
Exoribonuclease II [Transcription]; |
356-745 |
1.19e-35 |
|
Exoribonuclease II [Transcription];
Pssm-ID: 443808 [Multi-domain] Cd Length: 644 Bit Score: 144.22 E-value: 1.19e-35
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 134288890 356 PQGL-PWTIPPEEfSKRRDLRKDCIFTIDPSTARDLDDALSCKPLADGNFKVGVHIADVSYFVPEGSDLDKVAAERATSV 434
Cdd:COG4776 175 PEGDdEWELLDEG-LEREDLTALPFVTIDSESTEDMDDALYIEKLENGGWKLTVAIADPTAYIPEGSELDKEARQRAFTN 253
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 134288890 435 YLVQKVVPMLPRLLCEELCSLNPMSDKLTFSVIWTLTPEGKILD--EWFGRTiIRSCTKLSYEHAQSMIESPTEKIPAke 512
Cdd:COG4776 254 YLPGFNIPMLPRELSDDLCSLKENEKRPALVCRVTIDADGSIGDdiEFFAAW-IRSKAKLAYDNVSDWLEGKGEWQPE-- 330
|
170 180 190 200 210 220 230 240
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 134288890 513 lppispehsSEEVHQAVLNLHGIAK---QLRQQRfvdgALRL-DQLKLAFTLDhETGLPQGCHIYEYRESNKLVEEFMLL 588
Cdd:COG4776 331 ---------NEEIAEQIRLLHQFALarsQWRQQH----ALVFkDRPDYRFELD-EKGNVLDIHAEPRRIANRIVEEAMIA 396
|
250 260 270 280 290 300 310 320
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 134288890 589 ANMAVAHK-----------IHRAF-PE-----QALLRRHPPPQTR-MLSDLVEFCdQMGLPVDFSSAGALNKSLT--QTF 648
Cdd:COG4776 397 ANICAARVlrehlgfgifnVHSGFdPEkleqaVELLAEHGIEFDPeQLLTLEGFC-ALRRELDAQPTSYLDSRLRrfQTF 475
|
330 340 350 360 370 380 390 400
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 134288890 649 GDDKyslarkevltnmcsrpmqmalyfcsgllQDPAqfRHYALNVPLYTHFTSPIRRFADVLVHRLLAAALGYRERLDMA 728
Cdd:COG4776 476 AEIS----------------------------TEPG--PHFGLGLDAYATWTSPIRKYGDMVNHRLIKAVILGQPAEKPD 525
|
410
....*....|....*..
gi 134288890 729 PDTLQKQADHCNDRRMA 745
Cdd:COG4776 526 EELTERLAERRRLNRMA 542
|
|
| PRK05054 |
PRK05054 |
exoribonuclease II; Provisional |
356-749 |
2.34e-35 |
|
exoribonuclease II; Provisional
Pssm-ID: 179920 [Multi-domain] Cd Length: 644 Bit Score: 143.48 E-value: 2.34e-35
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 134288890 356 PQGL-PWTIPPEEfSKRRDLRKDCIFTIDPSTARDLDDALSCKPLADGNFKVGVHIADVSYFVPEGSDLDKVAAERATSV 434
Cdd:PRK05054 175 PAGGvAWEMLDEG-LEREDLTALDFVTIDSASTEDMDDALYVEKLPDGGLQLTVAIADPTAYIAEGSKLDKAARQRAFTN 253
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 134288890 435 YLVQKVVPMLPRLLCEELCSLNPMSDKLTFSVIWTLTPEGKILDE--WFGRTiIRSCTKLSYEHAQSMIESPTEKIPAke 512
Cdd:PRK05054 254 YLPGFNIPMLPRELSDDLCSLRPNERRPALACRVTIDADGTIEDDirFFAAW-IESKAKLAYDNVSDWLENGGDWQPE-- 330
|
170 180 190 200 210 220 230 240
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 134288890 513 lppispehsSEEVHQAVLNLHGIAKQLRQQRFVDGALRLDQLKLAFTLDhETGLPQGCHIYEYRESNKLVEEFMLLANMA 592
Cdd:PRK05054 331 ---------SEAIAEQIRLLHQFCLARSEWRKQHALVFKDRPDYRFELG-EKGEVLDIVAEPRRIANRIVEESMIAANIC 400
|
250 260 270 280 290 300 310 320
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 134288890 593 VAH-----------KIHRAF-PEQA-----LLRRHPPPQTRM-LSDLVEFCdQMGLPVDFSSAGALNKSLT--QTFGDDK 652
Cdd:PRK05054 401 AARvlrdklgfgiyNVHSGFdPANAeqavaLLKEHGLHFDAEeLLTLEGFC-KLRRELDAQPTGYLDSRIRrfQSFAEIS 479
|
330 340 350 360 370 380 390 400
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 134288890 653 YSLArkevltnmcsrPmqmalyfcsgllqdpaqfrHYALNVPLYTHFTSPIRRFADVLVHRLLAAALGYRERLDMAPDTL 732
Cdd:PRK05054 480 TEPG-----------P-------------------HFGLGLEAYATWTSPIRKYGDMINHRLLKAVIKGETAERPQDEIT 529
|
410
....*....|....*..
gi 134288890 733 QKQADHCNDRRMASKRV 749
Cdd:PRK05054 530 VQLAERRRLNRMAERDV 546
|
|
| OB_Dis3 |
pfam17849 |
Dis3-like cold-shock domain 2 (CSD2); This domain has an OB fold and is found in the Dis3l2 ... |
265-341 |
1.14e-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: 118.10 E-value: 1.14e-31
10 20 30 40 50 60 70
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*..
gi 134288890 265 YALFSPSDHRVPRIYVPLKDCPQDFVARPKDYANTLFICRIVDWKEDCNFALGQLAKSLGQAGEIEPETEGILTEYG 341
Cdd:pfam17849 1 YVLFVPRDKRIPRIRIPTKSAPEEFLENPEDLEGKLFVVKIDDWPENSRYPLGHIVKVLGEIGDIETETEAILLENG 77
|
|
| Dis3l2_C_term |
pfam17877 |
DIS3-like exonuclease 2 C terminal; This is the C-terminal S1 domain found in Dis3L2 proteins. ... |
766-855 |
1.61e-30 |
|
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: 115.05 E-value: 1.61e-30
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 134288890 766 GPLESEAMVMGILKQAFDVLVLRYGVQKRIYCNALALRSHHFQKVGKkpeLTLVWEPEDMEQEPAQQVITIFSLVEVVLQ 845
Cdd:pfam17877 1 GPLETEAVVLGVLDSSFDVLIPEYGIEKRVYLDQLPLKKFEFDKTGV---LTLYWKKGVPSSAYVPEDERFSSLVVVVLK 77
|
90
....*....|
gi 134288890 846 AESTALKYSA 855
Cdd:pfam17877 78 SDSDPLKLEA 87
|
|
| Rrp44_CSD1 |
pfam17216 |
Rrp44-like cold shock domain; |
50-238 |
2.67e-11 |
|
Rrp44-like cold shock domain;
Pssm-ID: 375054 Cd Length: 148 Bit Score: 62.48 E-value: 2.67e-11
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 134288890 50 FETYMSKEDVSEGLKRGTLIQGVLRINPKKFHEAFIPSPDGDRDIFIDGVVARNRALNGDLVVVKLLPEEHWKVvkPESN 129
Cdd:pfam17216 4 FPEYYSTARVMGGLKNGVLYQGNIQISEYNFLEGSVSLPRFSKPVLIVGQKNLNRAFNGDQVIVELLPQSEWKA--PSSI 81
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 134288890 130 DKETEaayesdipeelcghHLpqqslkSYNDSPDViveaqfDGSDSEDGHGITQNVLVdgvkklsvcVSEKGREdgdaPV 209
Cdd:pfam17216 82 VLDSE--------------HF------DVNDNPDI------EAGDDDDNNESSSNTTV---------ISDKQRR----LL 122
|
170 180
....*....|....*....|....*....
gi 134288890 210 TKDetTCISQDTralseKSLQRSAKVVYI 238
Cdd:pfam17216 123 AKD--AMIAQRS-----KKIQPTAKVVYI 144
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