|
Name |
Accession |
Description |
Interval |
E-value |
| VacB super family |
cl43181 |
Exoribonuclease R [Transcription]; |
214-743 |
5.07e-122 |
|
Exoribonuclease R [Transcription];
The actual alignment was detected with superfamily member COG0557:
Pssm-ID: 440323 [Multi-domain] Cd Length: 711 Bit Score: 385.23 E-value: 5.07e-122
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 24233556 214 PIPQDTRGLSEkslqksAKVVYILEKKHSRAaTGILKLLadknsdlfKKYALFSPSDHRVPR-IYVPLKDCPQdfmtrPK 292
Cdd:COG0557 113 VTKEDRRGRPE------GRVVEILERANTRV-VGRFEKE--------KGFGFVVPDDKRLLQdIFIPPDDLNG-----AK 172
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 24233556 293 DfaNTLFICRIIDWKEDCNFALGQLAKSLGQAGEIEPETEGILTEYGVDFsDFSSEVLECLpQSLPWTIPPDEVGKRRDL 372
Cdd:COG0557 173 D--GDLVVVEITRYPERRGPPEGRVVEVLGSPGDPGAEILIAIRKHGLPH-EFPEEVLAEA-EALPDEVPEADLKGRRDL 248
|
170 180 190 200 210 220 230 240
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 24233556 373 RKDCIFTIDPSTARDLDDALACRRLTDGTFEVGVHIADVSYFVPEGSSLDKVAAERATSVYLVQKVVPMLPRLLCEELCS 452
Cdd:COG0557 249 RDLPLVTIDGEDAKDFDDAVSAEKLDNGGWRLGVHIADVSHYVRPGSALDREARKRGTSVYLPDRVIPMLPERLSNGLCS 328
|
250 260 270 280 290 300 310 320
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 24233556 453 LNPMTDKLTFSVIWKLTPEGKILEEWFGRTIIRSCTKLSYDHAQSMIENPTEKIPEEElppispehsvEEVHQAVLNLHS 532
Cdd:COG0557 329 LNPGEDRLAMSCEMEIDAKGEVVSYEFYRSVIRSDARLTYEEVQAILDGKDEELREEY----------ADLVPMLEELYE 398
|
330 340 350 360 370 380 390 400
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 24233556 533 IAKQLRRQRFVDGALRLDQLKLAFTLDhETGLPQGCHIYEYRDSNKLVEEFMLLANMAVAHKIFRTfpEQALLRR-HPPP 611
Cdd:COG0557 399 LAKILRKAREKRGAIDFDLPETKIILD-EEGKPEDIVPRERNDAHKLIEEFMLLANEAVAEFLEKL--KLPFLYRvHEEP 475
|
410 420 430 440 450 460 470 480
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 24233556 612 QTKMLSDLVEFCDQMGLPM---DVSSAGALNKsLTKTFGDDKYSlarkEVLTNMYSRPMQMALYfcsgmlqDQEQFRHYA 688
Cdd:COG0557 476 DPEKLEALREFLANLGLKLkggDEPTPKDLQK-LLEQVKGRPEE----ELLNTLLLRSMKQAVY-------SPENIGHFG 543
|
490 500 510 520 530
....*....|....*....|....*....|....*....|....*....|....*....
gi 24233556 689 LNVPLYTHFTSPIRRFADVIVHRLLAAALG---YSEQPDVEPDTLQKQADHCNDR-RMA 743
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. ... |
764-853 |
4.56e-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: 116.59 E-value: 4.56e-31
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 24233556 764 GPLESEAMVMGVLNQAFDVLVLRFGVQKRIYCNALALRSYSFQKVGKkpeLTLVWEPDDLEEEPTQQVITIFSLVDVVLQ 843
Cdd:pfam17877 1 GPLETEAVVLGVLDSSFDVLIPEYGIEKRVYLDQLPLKKFEFDKTGV---LTLYWKKGVPSSAYVPEDERFSSLVVVVLK 77
|
90
....*....|
gi 24233556 844 AEATALKYSA 853
Cdd:pfam17877 78 SDSDPLKLEA 87
|
|
| Rrp44_CSD1 super family |
cl28867 |
Rrp44-like cold shock domain; |
50-236 |
1.06e-11 |
|
Rrp44-like cold shock domain;
The actual alignment was detected with superfamily member pfam17216:
Pssm-ID: 375054 Cd Length: 148 Bit Score: 63.64 E-value: 1.06e-11
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 24233556 50 FETYMSKEDVSEGLKRGTLIQGVLRINPKKFHEAFIPSPDGDRDIFIDGVVARNRALNGDLVVVKLLPEDQWKAVKPESN 129
Cdd:pfam17216 4 FPEYYSTARVMGGLKNGVLYQGNIQISEYNFLEGSVSLPRFSKPVLIVGQKNLNRAFNGDQVIVELLPQSEWKAPSSIVL 83
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 24233556 130 DKEieatyeadipeegcgHHPLQQSrkgwsgPDviIEAQfDDSDSEDRHGNTSGLVDGVKKLsistpdrgkedsstpVMK 209
Cdd:pfam17216 84 DSE---------------HFDVNDN------PD--IEAG-DDDDNNESSSNTTVISDKQRRL---------------LAK 124
|
170 180
....*....|....*....|....*..
gi 24233556 210 DenTPIPQDTrglseKSLQKSAKVVYI 236
Cdd:pfam17216 125 D--AMIAQRS-----KKIQPTAKVVYI 144
|
|
| |
|
Name |
Accession |
Description |
Interval |
E-value |
| VacB |
COG0557 |
Exoribonuclease R [Transcription]; |
214-743 |
5.07e-122 |
|
Exoribonuclease R [Transcription];
Pssm-ID: 440323 [Multi-domain] Cd Length: 711 Bit Score: 385.23 E-value: 5.07e-122
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 24233556 214 PIPQDTRGLSEkslqksAKVVYILEKKHSRAaTGILKLLadknsdlfKKYALFSPSDHRVPR-IYVPLKDCPQdfmtrPK 292
Cdd:COG0557 113 VTKEDRRGRPE------GRVVEILERANTRV-VGRFEKE--------KGFGFVVPDDKRLLQdIFIPPDDLNG-----AK 172
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 24233556 293 DfaNTLFICRIIDWKEDCNFALGQLAKSLGQAGEIEPETEGILTEYGVDFsDFSSEVLECLpQSLPWTIPPDEVGKRRDL 372
Cdd:COG0557 173 D--GDLVVVEITRYPERRGPPEGRVVEVLGSPGDPGAEILIAIRKHGLPH-EFPEEVLAEA-EALPDEVPEADLKGRRDL 248
|
170 180 190 200 210 220 230 240
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 24233556 373 RKDCIFTIDPSTARDLDDALACRRLTDGTFEVGVHIADVSYFVPEGSSLDKVAAERATSVYLVQKVVPMLPRLLCEELCS 452
Cdd:COG0557 249 RDLPLVTIDGEDAKDFDDAVSAEKLDNGGWRLGVHIADVSHYVRPGSALDREARKRGTSVYLPDRVIPMLPERLSNGLCS 328
|
250 260 270 280 290 300 310 320
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 24233556 453 LNPMTDKLTFSVIWKLTPEGKILEEWFGRTIIRSCTKLSYDHAQSMIENPTEKIPEEElppispehsvEEVHQAVLNLHS 532
Cdd:COG0557 329 LNPGEDRLAMSCEMEIDAKGEVVSYEFYRSVIRSDARLTYEEVQAILDGKDEELREEY----------ADLVPMLEELYE 398
|
330 340 350 360 370 380 390 400
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 24233556 533 IAKQLRRQRFVDGALRLDQLKLAFTLDhETGLPQGCHIYEYRDSNKLVEEFMLLANMAVAHKIFRTfpEQALLRR-HPPP 611
Cdd:COG0557 399 LAKILRKAREKRGAIDFDLPETKIILD-EEGKPEDIVPRERNDAHKLIEEFMLLANEAVAEFLEKL--KLPFLYRvHEEP 475
|
410 420 430 440 450 460 470 480
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 24233556 612 QTKMLSDLVEFCDQMGLPM---DVSSAGALNKsLTKTFGDDKYSlarkEVLTNMYSRPMQMALYfcsgmlqDQEQFRHYA 688
Cdd:COG0557 476 DPEKLEALREFLANLGLKLkggDEPTPKDLQK-LLEQVKGRPEE----ELLNTLLLRSMKQAVY-------SPENIGHFG 543
|
490 500 510 520 530
....*....|....*....|....*....|....*....|....*....|....*....
gi 24233556 689 LNVPLYTHFTSPIRRFADVIVHRLLAAALG---YSEQPDVEPDTLQKQADHCNDR-RMA 743
Cdd:COG0557 544 LALEAYTHFTSPIRRYPDLLVHRALKAYLEgkrSPGLQEYLEEELEEIAEHCSETeRRA 602
|
|
| RNB |
pfam00773 |
RNB domain; This domain is the catalytic domain of ribonuclease II. |
369-717 |
7.77e-114 |
|
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: 7.77e-114
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 24233556 369 RRDLRKDCIFTIDPSTARDLDDALACRRLTDGTFEVGVHIADVSYFVPEGSSLDKVAAERATSVYLVQKVVPMLPRLLCE 448
Cdd:pfam00773 1 RKDLRDLPFITIDPADAKDLDDAISVEKLPNGGYRLGVHIADVSHYVPPGSPLDREARKRGTSVYLPDRVIPMLPEKLSN 80
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 24233556 449 ELCSLNPMTDKLTFSVIWKLTPEGKILEEWFGRTIIRSCTKLSYDHAQSMIENPTEKIPEEELppispehsveevHQAVL 528
Cdd:pfam00773 81 DLCSLNPGEDRLALSVEITIDADGEVTSYEIYPSVIRSKARLTYEEVDDLLEGKDAEKDKPDL------------AEDLR 148
|
170 180 190 200 210 220 230 240
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 24233556 529 NLHSIAKQLRRQRFVDGALRLDQLKLAFTLDHETglPQGCHIYEYRDSNKLVEEFMLLANMAVAHKIfRTFPEQALLRRH 608
Cdd:pfam00773 149 LLYELAKILRAKRLQRGALDLDTPENKLILDEEG--VIDILIQERTDAHSLIEEFMLLANEAVARHL-QELGIPALYRVH 225
|
250 260 270 280 290 300 310 320
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 24233556 609 PPPQTKMLSDLVEFCDQMGLPMdvssagALNKSLTKTFGDdkyslarKEVLTNMYSRPMQMALYFcsgmlqdQEQFRHYA 688
Cdd:pfam00773 226 PEPDLEKLNSLIKLLQLLPDDK------GLSKSLEKIKDD-------ERLLSILLLRTMPRAEYS-------PEPLGHFG 285
|
330 340
....*....|....*....|....*....
gi 24233556 689 LNVPLYTHFTSPIRRFADVIVHRLLAAAL 717
Cdd:pfam00773 286 LGLDIYTHFTSPIRRYPDLIVHRQLKALL 314
|
|
| RNB |
smart00955 |
This domain is the catalytic domain of ribonuclease II; |
369-718 |
9.18e-105 |
|
This domain is the catalytic domain of ribonuclease II;
Pssm-ID: 214935 [Multi-domain] Cd Length: 286 Bit Score: 325.38 E-value: 9.18e-105
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 24233556 369 RRDLRKDCIFTIDPSTARDLDDALACRRLTDGTFEVGVHIADVSYFVPEGSSLDKVAAERATSVYLVQKVVPMLPRLLCE 448
Cdd:smart00955 1 RVDLRDLPLFTIDPEDAKDIDDAVSVEKLDNGGYRLGVHIADVSHYVKPGSALDREARKRGTSVYLPDRVIPMLPEELSN 80
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 24233556 449 ELCSLNPMTDKLTFSVIWKLTPEG-KILEEWFGRTIIRSCTKLSYDHAQSMIENptekipeeelppispehsveevhqav 527
Cdd:smart00955 81 GLCSLNPGEDRLALSVEMTLDADGgEILDYEFYRSVIRSKARLTYEEVDAILEK-------------------------- 134
|
170 180 190 200 210 220 230 240
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 24233556 528 lnlhsiakqlrrqrfvdgalrldqlklaFTLDHEtGLPQGCHIYEYRDSNKLVEEFMLLANMAVAHKIFRTFPeQALLRR 607
Cdd:smart00955 135 ----------------------------IVLDEE-GKIEDIVPRERNDAHSLVEEFMILANEAVARFLAKNGI-PGLYRV 184
|
250 260 270 280 290 300 310 320
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 24233556 608 HPPPQTKMLSD-LVEFCDQMGLPM-DVSSAGALNKSLTKTFGDDKyslarKEVLTNMYSRPMQMALYFCSGmlqdqeqFR 685
Cdd:smart00955 185 HEGPDPEKLAElLKEFLALLGLLLlGGDGPKALAKLLEKIRDSPE-----ERLLELLLLRSMPHAEYSVDN-------SG 252
|
330 340 350
....*....|....*....|....*....|...
gi 24233556 686 HYALNVPLYTHFTSPIRRFADVIVHRLLAAALG 718
Cdd:smart00955 253 HFGLALDAYTHFTSPIRRYPDLIVHRQLKAALR 285
|
|
| RNase_R |
TIGR02063 |
ribonuclease R; This family consists of an exoribonuclease, ribonuclease R, also called VacB. ... |
229-740 |
1.96e-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: 317.29 E-value: 1.96e-96
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 24233556 229 KSAKVVYILEKKHSRAATGILKLladknsdlfKKYALFSPSDHRVP-RIYVPLKDCpqdfmTRPKDfaNTLFICRIIDWK 307
Cdd:TIGR02063 123 FEARVIKILERANDQIVGTFYIE---------NGIGFVIPDDKRIYlDIFIPPEQI-----LGAEE--GDKVLVEITKYP 186
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 24233556 308 EDCNFALGQLAKSLGQAGEIEPETEGILTEYGVDFsDFSSEVLEcLPQSLPWTIPPDEVGKRRDLRKDCIFTIDPSTARD 387
Cdd:TIGR02063 187 DRNRPAIGKVVEILGHADDPGIDILIIIRKHGIPY-EFPEEVLD-EAAKIPEEVPEEEIKGRKDLRDLPFVTIDGEDAKD 264
|
170 180 190 200 210 220 230 240
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 24233556 388 LDDALACRRLTDGTFEVGVHIADVSYFVPEGSSLDKVAAERATSVYLVQKVVPMLPRLLCEELCSLNPMTDKLTFSVIWK 467
Cdd:TIGR02063 265 FDDAVYVEKLKDGNYKLGVAIADVSHYVREGSALDKEALKRGTSVYLPDRVIPMLPERLSNGICSLNPNEDRLTLSCEME 344
|
250 260 270 280 290 300 310 320
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 24233556 468 LTPEGKILEEWFGRTIIRSCTKLSYDHAQSMIENptEKIPEEELPPISPEhsveevhqaVLNLHSIAKQLRRQRFVDGAL 547
Cdd:TIGR02063 345 IDKKGRVKKYEFYEAVINSHARLTYNQVNDIIEG--KDALDKKEPPLKEM---------LKNLFELYKILRKKRKKRGAI 413
|
330 340 350 360 370 380 390 400
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 24233556 548 RLDQLKLAFTLDhETGLPQGCHIYEYRDSNKLVEEFMLLANMAVAHKIFRTfPEQALLRRHPPPQTKMLSDLVEFCDQMG 627
Cdd:TIGR02063 414 DFDSKEAKIILD-ENGKPIDIVPRERGDAHKLIEEFMIAANETVAEHLEKA-KLPFIYRVHERPSEEKLQNLREFLKTLG 491
|
410 420 430 440 450 460 470 480
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 24233556 628 LPMDVSSA-----GALNKSLTKTFGDDKYSLARKEVLtnmysRPMQMALYfcsgmlqDQEQFRHYALNVPLYTHFTSPIR 702
Cdd:TIGR02063 492 ITLKGGTSdkpqpKDFQKLLEKVKGRPEEELINTVLL-----RSMQQAKY-------SPENIGHFGLALEYYTHFTSPIR 559
|
490 500 510 520
....*....|....*....|....*....|....*....|....
gi 24233556 703 RFADVIVHRLLAAALG------YSEQPDVEPDTLQKQADHCNDR 740
Cdd:TIGR02063 560 RYPDLIVHRLIKKALFggenttTEKEREYLEAKLEEIAEHSSKT 603
|
|
| PRK11642 |
PRK11642 |
ribonuclease R; |
363-721 |
1.39e-40 |
|
ribonuclease R;
Pssm-ID: 236944 [Multi-domain] Cd Length: 813 Bit Score: 161.06 E-value: 1.39e-40
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 24233556 363 PDEVGKRR-DLRKDCIFTIDPSTARDLDDALACRRLTDGTFEVGVHIADVSYFVPEGSSLDKVAAERATSVYLVQKVVPM 441
Cdd:PRK11642 253 PEEAKAGRvDLRDLPLVTIDGEDARDFDDAVYCEKKRGGGWRLWVAIADVSYYVRPPTPLDREARNRGTSVYFPSQVVPM 332
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 24233556 442 LPRLLCEELCSLNPMTDKLTFSVIWKLTPEGKILEEWFGRTIIRSCTKLSYDHAQSMIENpTEKIPEEELPPISPehsVE 521
Cdd:PRK11642 333 LPEVLSNGLCSLNPQVDRLCMVCEMTISSKGRLTGYKFYEAVMSSHARLTYTKVWHILQG-DQDLREQYAPLVKH---LE 408
|
170 180 190 200 210 220 230 240
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 24233556 522 EVHqavlNLHSIAKQLRRQRfvdGALRLDQLKLAFTLDHETGLPQgCHIYEYRDSNKLVEEFMLLANMAVAhKIFRTFPE 601
Cdd:PRK11642 409 ELH----NLYKVLDKAREER---GGISFESEEAKFIFNAERRIER-IEQTQRNDAHKLIEECMILANISAA-RFVEKAKE 479
|
250 260 270 280 290 300 310 320
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 24233556 602 QALLRRHPPPQTKMLSDLVEFCDQMGLpmdvsSAGALNKSLTKTFGDDKYSLARK---EVLTNMYSRPMQMALYfcsgml 678
Cdd:PRK11642 480 PALFRIHDKPSTEAITSFRSVLAELGL-----ELPGGNKPEPRDYAELLESVADRpdaEMLQTMLLRSMKQAIY------ 548
|
330 340 350 360
....*....|....*....|....*....|....*....|....*..
gi 24233556 679 qDQEQFRHYALNVPLYTHFTSPIRRFADVIVHR----LLAAALGYSE 721
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. ... |
764-853 |
4.56e-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: 116.59 E-value: 4.56e-31
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 24233556 764 GPLESEAMVMGVLNQAFDVLVLRFGVQKRIYCNALALRSYSFQKVGKkpeLTLVWEPDDLEEEPTQQVITIFSLVDVVLQ 843
Cdd:pfam17877 1 GPLETEAVVLGVLDSSFDVLIPEYGIEKRVYLDQLPLKKFEFDKTGV---LTLYWKKGVPSSAYVPEDERFSSLVVVVLK 77
|
90
....*....|
gi 24233556 844 AEATALKYSA 853
Cdd:pfam17877 78 SDSDPLKLEA 87
|
|
| Rrp44_CSD1 |
pfam17216 |
Rrp44-like cold shock domain; |
50-236 |
1.06e-11 |
|
Rrp44-like cold shock domain;
Pssm-ID: 375054 Cd Length: 148 Bit Score: 63.64 E-value: 1.06e-11
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 24233556 50 FETYMSKEDVSEGLKRGTLIQGVLRINPKKFHEAFIPSPDGDRDIFIDGVVARNRALNGDLVVVKLLPEDQWKAVKPESN 129
Cdd:pfam17216 4 FPEYYSTARVMGGLKNGVLYQGNIQISEYNFLEGSVSLPRFSKPVLIVGQKNLNRAFNGDQVIVELLPQSEWKAPSSIVL 83
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 24233556 130 DKEieatyeadipeegcgHHPLQQSrkgwsgPDviIEAQfDDSDSEDRHGNTSGLVDGVKKLsistpdrgkedsstpVMK 209
Cdd:pfam17216 84 DSE---------------HFDVNDN------PD--IEAG-DDDDNNESSSNTTVISDKQRRL---------------LAK 124
|
170 180
....*....|....*....|....*..
gi 24233556 210 DenTPIPQDTrglseKSLQKSAKVVYI 236
Cdd:pfam17216 125 D--AMIAQRS-----KKIQPTAKVVYI 144
|
|
| |
|
Name |
Accession |
Description |
Interval |
E-value |
| VacB |
COG0557 |
Exoribonuclease R [Transcription]; |
214-743 |
5.07e-122 |
|
Exoribonuclease R [Transcription];
Pssm-ID: 440323 [Multi-domain] Cd Length: 711 Bit Score: 385.23 E-value: 5.07e-122
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 24233556 214 PIPQDTRGLSEkslqksAKVVYILEKKHSRAaTGILKLLadknsdlfKKYALFSPSDHRVPR-IYVPLKDCPQdfmtrPK 292
Cdd:COG0557 113 VTKEDRRGRPE------GRVVEILERANTRV-VGRFEKE--------KGFGFVVPDDKRLLQdIFIPPDDLNG-----AK 172
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 24233556 293 DfaNTLFICRIIDWKEDCNFALGQLAKSLGQAGEIEPETEGILTEYGVDFsDFSSEVLECLpQSLPWTIPPDEVGKRRDL 372
Cdd:COG0557 173 D--GDLVVVEITRYPERRGPPEGRVVEVLGSPGDPGAEILIAIRKHGLPH-EFPEEVLAEA-EALPDEVPEADLKGRRDL 248
|
170 180 190 200 210 220 230 240
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 24233556 373 RKDCIFTIDPSTARDLDDALACRRLTDGTFEVGVHIADVSYFVPEGSSLDKVAAERATSVYLVQKVVPMLPRLLCEELCS 452
Cdd:COG0557 249 RDLPLVTIDGEDAKDFDDAVSAEKLDNGGWRLGVHIADVSHYVRPGSALDREARKRGTSVYLPDRVIPMLPERLSNGLCS 328
|
250 260 270 280 290 300 310 320
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 24233556 453 LNPMTDKLTFSVIWKLTPEGKILEEWFGRTIIRSCTKLSYDHAQSMIENPTEKIPEEElppispehsvEEVHQAVLNLHS 532
Cdd:COG0557 329 LNPGEDRLAMSCEMEIDAKGEVVSYEFYRSVIRSDARLTYEEVQAILDGKDEELREEY----------ADLVPMLEELYE 398
|
330 340 350 360 370 380 390 400
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 24233556 533 IAKQLRRQRFVDGALRLDQLKLAFTLDhETGLPQGCHIYEYRDSNKLVEEFMLLANMAVAHKIFRTfpEQALLRR-HPPP 611
Cdd:COG0557 399 LAKILRKAREKRGAIDFDLPETKIILD-EEGKPEDIVPRERNDAHKLIEEFMLLANEAVAEFLEKL--KLPFLYRvHEEP 475
|
410 420 430 440 450 460 470 480
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 24233556 612 QTKMLSDLVEFCDQMGLPM---DVSSAGALNKsLTKTFGDDKYSlarkEVLTNMYSRPMQMALYfcsgmlqDQEQFRHYA 688
Cdd:COG0557 476 DPEKLEALREFLANLGLKLkggDEPTPKDLQK-LLEQVKGRPEE----ELLNTLLLRSMKQAVY-------SPENIGHFG 543
|
490 500 510 520 530
....*....|....*....|....*....|....*....|....*....|....*....
gi 24233556 689 LNVPLYTHFTSPIRRFADVIVHRLLAAALG---YSEQPDVEPDTLQKQADHCNDR-RMA 743
Cdd:COG0557 544 LALEAYTHFTSPIRRYPDLLVHRALKAYLEgkrSPGLQEYLEEELEEIAEHCSETeRRA 602
|
|
| RNB |
pfam00773 |
RNB domain; This domain is the catalytic domain of ribonuclease II. |
369-717 |
7.77e-114 |
|
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: 7.77e-114
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 24233556 369 RRDLRKDCIFTIDPSTARDLDDALACRRLTDGTFEVGVHIADVSYFVPEGSSLDKVAAERATSVYLVQKVVPMLPRLLCE 448
Cdd:pfam00773 1 RKDLRDLPFITIDPADAKDLDDAISVEKLPNGGYRLGVHIADVSHYVPPGSPLDREARKRGTSVYLPDRVIPMLPEKLSN 80
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 24233556 449 ELCSLNPMTDKLTFSVIWKLTPEGKILEEWFGRTIIRSCTKLSYDHAQSMIENPTEKIPEEELppispehsveevHQAVL 528
Cdd:pfam00773 81 DLCSLNPGEDRLALSVEITIDADGEVTSYEIYPSVIRSKARLTYEEVDDLLEGKDAEKDKPDL------------AEDLR 148
|
170 180 190 200 210 220 230 240
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 24233556 529 NLHSIAKQLRRQRFVDGALRLDQLKLAFTLDHETglPQGCHIYEYRDSNKLVEEFMLLANMAVAHKIfRTFPEQALLRRH 608
Cdd:pfam00773 149 LLYELAKILRAKRLQRGALDLDTPENKLILDEEG--VIDILIQERTDAHSLIEEFMLLANEAVARHL-QELGIPALYRVH 225
|
250 260 270 280 290 300 310 320
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 24233556 609 PPPQTKMLSDLVEFCDQMGLPMdvssagALNKSLTKTFGDdkyslarKEVLTNMYSRPMQMALYFcsgmlqdQEQFRHYA 688
Cdd:pfam00773 226 PEPDLEKLNSLIKLLQLLPDDK------GLSKSLEKIKDD-------ERLLSILLLRTMPRAEYS-------PEPLGHFG 285
|
330 340
....*....|....*....|....*....
gi 24233556 689 LNVPLYTHFTSPIRRFADVIVHRLLAAAL 717
Cdd:pfam00773 286 LGLDIYTHFTSPIRRYPDLIVHRQLKALL 314
|
|
| RNB |
smart00955 |
This domain is the catalytic domain of ribonuclease II; |
369-718 |
9.18e-105 |
|
This domain is the catalytic domain of ribonuclease II;
Pssm-ID: 214935 [Multi-domain] Cd Length: 286 Bit Score: 325.38 E-value: 9.18e-105
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 24233556 369 RRDLRKDCIFTIDPSTARDLDDALACRRLTDGTFEVGVHIADVSYFVPEGSSLDKVAAERATSVYLVQKVVPMLPRLLCE 448
Cdd:smart00955 1 RVDLRDLPLFTIDPEDAKDIDDAVSVEKLDNGGYRLGVHIADVSHYVKPGSALDREARKRGTSVYLPDRVIPMLPEELSN 80
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 24233556 449 ELCSLNPMTDKLTFSVIWKLTPEG-KILEEWFGRTIIRSCTKLSYDHAQSMIENptekipeeelppispehsveevhqav 527
Cdd:smart00955 81 GLCSLNPGEDRLALSVEMTLDADGgEILDYEFYRSVIRSKARLTYEEVDAILEK-------------------------- 134
|
170 180 190 200 210 220 230 240
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 24233556 528 lnlhsiakqlrrqrfvdgalrldqlklaFTLDHEtGLPQGCHIYEYRDSNKLVEEFMLLANMAVAHKIFRTFPeQALLRR 607
Cdd:smart00955 135 ----------------------------IVLDEE-GKIEDIVPRERNDAHSLVEEFMILANEAVARFLAKNGI-PGLYRV 184
|
250 260 270 280 290 300 310 320
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 24233556 608 HPPPQTKMLSD-LVEFCDQMGLPM-DVSSAGALNKSLTKTFGDDKyslarKEVLTNMYSRPMQMALYFCSGmlqdqeqFR 685
Cdd:smart00955 185 HEGPDPEKLAElLKEFLALLGLLLlGGDGPKALAKLLEKIRDSPE-----ERLLELLLLRSMPHAEYSVDN-------SG 252
|
330 340 350
....*....|....*....|....*....|...
gi 24233556 686 HYALNVPLYTHFTSPIRRFADVIVHRLLAAALG 718
Cdd:smart00955 253 HFGLALDAYTHFTSPIRRYPDLIVHRQLKAALR 285
|
|
| RNase_R |
TIGR02063 |
ribonuclease R; This family consists of an exoribonuclease, ribonuclease R, also called VacB. ... |
229-740 |
1.96e-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: 317.29 E-value: 1.96e-96
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 24233556 229 KSAKVVYILEKKHSRAATGILKLladknsdlfKKYALFSPSDHRVP-RIYVPLKDCpqdfmTRPKDfaNTLFICRIIDWK 307
Cdd:TIGR02063 123 FEARVIKILERANDQIVGTFYIE---------NGIGFVIPDDKRIYlDIFIPPEQI-----LGAEE--GDKVLVEITKYP 186
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 24233556 308 EDCNFALGQLAKSLGQAGEIEPETEGILTEYGVDFsDFSSEVLEcLPQSLPWTIPPDEVGKRRDLRKDCIFTIDPSTARD 387
Cdd:TIGR02063 187 DRNRPAIGKVVEILGHADDPGIDILIIIRKHGIPY-EFPEEVLD-EAAKIPEEVPEEEIKGRKDLRDLPFVTIDGEDAKD 264
|
170 180 190 200 210 220 230 240
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 24233556 388 LDDALACRRLTDGTFEVGVHIADVSYFVPEGSSLDKVAAERATSVYLVQKVVPMLPRLLCEELCSLNPMTDKLTFSVIWK 467
Cdd:TIGR02063 265 FDDAVYVEKLKDGNYKLGVAIADVSHYVREGSALDKEALKRGTSVYLPDRVIPMLPERLSNGICSLNPNEDRLTLSCEME 344
|
250 260 270 280 290 300 310 320
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 24233556 468 LTPEGKILEEWFGRTIIRSCTKLSYDHAQSMIENptEKIPEEELPPISPEhsveevhqaVLNLHSIAKQLRRQRFVDGAL 547
Cdd:TIGR02063 345 IDKKGRVKKYEFYEAVINSHARLTYNQVNDIIEG--KDALDKKEPPLKEM---------LKNLFELYKILRKKRKKRGAI 413
|
330 340 350 360 370 380 390 400
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 24233556 548 RLDQLKLAFTLDhETGLPQGCHIYEYRDSNKLVEEFMLLANMAVAHKIFRTfPEQALLRRHPPPQTKMLSDLVEFCDQMG 627
Cdd:TIGR02063 414 DFDSKEAKIILD-ENGKPIDIVPRERGDAHKLIEEFMIAANETVAEHLEKA-KLPFIYRVHERPSEEKLQNLREFLKTLG 491
|
410 420 430 440 450 460 470 480
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 24233556 628 LPMDVSSA-----GALNKSLTKTFGDDKYSLARKEVLtnmysRPMQMALYfcsgmlqDQEQFRHYALNVPLYTHFTSPIR 702
Cdd:TIGR02063 492 ITLKGGTSdkpqpKDFQKLLEKVKGRPEEELINTVLL-----RSMQQAKY-------SPENIGHFGLALEYYTHFTSPIR 559
|
490 500 510 520
....*....|....*....|....*....|....*....|....
gi 24233556 703 RFADVIVHRLLAAALG------YSEQPDVEPDTLQKQADHCNDR 740
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 ... |
213-741 |
1.23e-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: 237.69 E-value: 1.23e-67
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 24233556 213 TPIPQDTRGlsekslQKSAKVVYILEKKHSRAATGILklladknsdlFKKYALFSPSDHrvPRIYVPLKdCPQDfmTRPK 292
Cdd:TIGR00358 60 CPLSQPQRG------RFEAEVERILEPALTRFVGKFL----------GENDFGFVVPDD--PRIYLDII-VPKA--SVKN 118
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 24233556 293 DFA-NTLFICRIIDWKEDCNFALGQLAKSLGQAGEIEPETEGILTEYGVDFSDfsSEVLECLPQSLPWTIPPDEVGKRRD 371
Cdd:TIGR00358 119 ELAeGDKVVVELTEYPLRRNLFYGEITQILGNNDDPLIPWWVTLARHEIPFEF--PDGVEQQAAKLQFDVDEQAKKYRED 196
|
170 180 190 200 210 220 230 240
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 24233556 372 LRKDCIFTIDPSTARDLDDALACRRLTDGTFEVGVHIADVSYFVPEGSSLDKVAAERATSVYLVQKVVPMLPRLLCEELC 451
Cdd:TIGR00358 197 LTDLAFVTIDGADAKDLDDAVYVKKLPDGGWKLYVAIADVSYYVAENSPLDKEAKHRGFSVYLPGFVIPMLPEELSNGLC 276
|
250 260 270 280 290 300 310 320
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 24233556 452 SLNPMTDKLTFSVIWKLTPEGKILEEWFGRTIIRSCTKLSYDHAQSMIENptekipEEELPPISPEhSVEEVHQavlnLH 531
Cdd:TIGR00358 277 SLNPNEDRLVLVCEMTISAQGRITDNEFYPATIESKARLTYDKVNDWLEN------DDELQPEYET-LVEQLKA----LH 345
|
330 340 350 360 370 380 390 400
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 24233556 532 SIAKQLRRQRFVDGALRLDQLKLAFTLDhETGLPQGCHIYEYRDSNKLVEEFMLLANMAVAhKIFRTFPEQALLRRHPPP 611
Cdd:TIGR00358 346 QLSQALGEWRHKRGLIDFEHPETKFIVD-EEGRVIDIVAEVRRIAEKIIEEAMIVANICAA-RFLHNHKVPGIYRVHPGP 423
|
410 420 430 440 450 460 470 480
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 24233556 612 QTKMLSDLVEFCDQMGLPMDVSSAGALNKSltktfgdDKYSLARK-------EVLTNMYSRPMQMALYfcsgmlqDQEQF 684
Cdd:TIGR00358 424 SKKKLQSLLEFLAELGLTLPGGNAENVTTL-------DGACWLREvkdrpeyEILVTRLLRSLSQAEY-------SPEPL 489
|
490 500 510 520 530 540
....*....|....*....|....*....|....*....|....*....|....*....|.
gi 24233556 685 RHYALNVPLYTHFTSPIRRFADVIVHRLLAAALgYSEQPDVEPDTLQ----KQADHCNDRR 741
Cdd:TIGR00358 490 GHFGLGLEHYAHFTSPIRRYPDLTNHRLIKAVL-AKEQTDTERYQPQdellQIAEHCSDTE 549
|
|
| PRK11642 |
PRK11642 |
ribonuclease R; |
363-721 |
1.39e-40 |
|
ribonuclease R;
Pssm-ID: 236944 [Multi-domain] Cd Length: 813 Bit Score: 161.06 E-value: 1.39e-40
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 24233556 363 PDEVGKRR-DLRKDCIFTIDPSTARDLDDALACRRLTDGTFEVGVHIADVSYFVPEGSSLDKVAAERATSVYLVQKVVPM 441
Cdd:PRK11642 253 PEEAKAGRvDLRDLPLVTIDGEDARDFDDAVYCEKKRGGGWRLWVAIADVSYYVRPPTPLDREARNRGTSVYFPSQVVPM 332
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 24233556 442 LPRLLCEELCSLNPMTDKLTFSVIWKLTPEGKILEEWFGRTIIRSCTKLSYDHAQSMIENpTEKIPEEELPPISPehsVE 521
Cdd:PRK11642 333 LPEVLSNGLCSLNPQVDRLCMVCEMTISSKGRLTGYKFYEAVMSSHARLTYTKVWHILQG-DQDLREQYAPLVKH---LE 408
|
170 180 190 200 210 220 230 240
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 24233556 522 EVHqavlNLHSIAKQLRRQRfvdGALRLDQLKLAFTLDHETGLPQgCHIYEYRDSNKLVEEFMLLANMAVAhKIFRTFPE 601
Cdd:PRK11642 409 ELH----NLYKVLDKAREER---GGISFESEEAKFIFNAERRIER-IEQTQRNDAHKLIEECMILANISAA-RFVEKAKE 479
|
250 260 270 280 290 300 310 320
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 24233556 602 QALLRRHPPPQTKMLSDLVEFCDQMGLpmdvsSAGALNKSLTKTFGDDKYSLARK---EVLTNMYSRPMQMALYfcsgml 678
Cdd:PRK11642 480 PALFRIHDKPSTEAITSFRSVLAELGL-----ELPGGNKPEPRDYAELLESVADRpdaEMLQTMLLRSMKQAIY------ 548
|
330 340 350 360
....*....|....*....|....*....|....*....|....*..
gi 24233556 679 qDQEQFRHYALNVPLYTHFTSPIRRFADVIVHR----LLAAALGYSE 721
Cdd:PRK11642 549 -DPENRGHFGLALQSYAHFTSPIRRYPDLSLHRaikyLLAKEQGHKG 594
|
|
| Rnb |
COG4776 |
Exoribonuclease II [Transcription]; |
358-743 |
4.79e-36 |
|
Exoribonuclease II [Transcription];
Pssm-ID: 443808 [Multi-domain] Cd Length: 644 Bit Score: 145.38 E-value: 4.79e-36
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 24233556 358 PWTIPpDEVGKRRDLRKDCIFTIDPSTARDLDDALACRRLTDGTFEVGVHIADVSYFVPEGSSLDKVAAERATSVYLVQK 437
Cdd:COG4776 180 EWELL-DEGLEREDLTALPFVTIDSESTEDMDDALYIEKLENGGWKLTVAIADPTAYIPEGSELDKEARQRAFTNYLPGF 258
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 24233556 438 VVPMLPRLLCEELCSLNPMTDKLTFSVIWKLTPEGKILE--EWFGRTiIRSCTKLSYDHAQSMIENPTEKIPEEelppis 515
Cdd:COG4776 259 NIPMLPRELSDDLCSLKENEKRPALVCRVTIDADGSIGDdiEFFAAW-IRSKAKLAYDNVSDWLEGKGEWQPEN------ 331
|
170 180 190 200 210 220 230 240
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 24233556 516 pehsvEEVHQAVLNLHSIAkQLRRQRFVDGALRL-DQLKLAFTLDhETGLPQGCHIYEYRDSNKLVEEFMLLANMAVAHK 594
Cdd:COG4776 332 -----EEIAEQIRLLHQFA-LARSQWRQQHALVFkDRPDYRFELD-EKGNVLDIHAEPRRIANRIVEEAMIAANICAARV 404
|
250 260 270 280 290 300 310 320
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 24233556 595 --------IFRT---F-PE-----QALLRRHPPPQTK-MLSDLVEFCdQMGLPMDVSSAGALNKSLTK--TFGDDKysla 654
Cdd:COG4776 405 lrehlgfgIFNVhsgFdPEkleqaVELLAEHGIEFDPeQLLTLEGFC-ALRRELDAQPTSYLDSRLRRfqTFAEIS---- 479
|
330 340 350 360 370 380 390 400
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 24233556 655 rkevltnmysrpmqmalyfcsgmlqdQEQFRHYALNVPLYTHFTSPIRRFADVIVHRLLAAALgySEQPDVEPD--TLQK 732
Cdd:COG4776 480 --------------------------TEPGPHFGLGLDAYATWTSPIRKYGDMVNHRLIKAVI--LGQPAEKPDeeLTER 531
|
410
....*....|.
gi 24233556 733 QADHCNDRRMA 743
Cdd:COG4776 532 LAERRRLNRMA 542
|
|
| PRK05054 |
PRK05054 |
exoribonuclease II; Provisional |
358-747 |
3.43e-35 |
|
exoribonuclease II; Provisional
Pssm-ID: 179920 [Multi-domain] Cd Length: 644 Bit Score: 142.71 E-value: 3.43e-35
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 24233556 358 PWTIPpDEVGKRRDLRKDCIFTIDPSTARDLDDALACRRLTDGTFEVGVHIADVSYFVPEGSSLDKVAAERATSVYLVQK 437
Cdd:PRK05054 180 AWEML-DEGLEREDLTALDFVTIDSASTEDMDDALYVEKLPDGGLQLTVAIADPTAYIAEGSKLDKAARQRAFTNYLPGF 258
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 24233556 438 VVPMLPRLLCEELCSLNPMTDKLTFSVIWKLTPEGKILEE--WFGRTiIRSCTKLSYDHAQSMIENPTEKIPEEelppis 515
Cdd:PRK05054 259 NIPMLPRELSDDLCSLRPNERRPALACRVTIDADGTIEDDirFFAAW-IESKAKLAYDNVSDWLENGGDWQPES------ 331
|
170 180 190 200 210 220 230 240
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 24233556 516 pehsvEEVHQAVLNLHSIAkQLRRQ-RFVDGALRLDQLKLAFTLDhETGLPQGCHIYEYRDSNKLVEEFMLLANMAVAH- 593
Cdd:PRK05054 332 -----EAIAEQIRLLHQFC-LARSEwRKQHALVFKDRPDYRFELG-EKGEVLDIVAEPRRIANRIVEESMIAANICAARv 404
|
250 260 270 280 290 300 310 320
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 24233556 594 -------KIFRT-------FPEQA--LLRRHPPPQT-KMLSDLVEFCdQMGLPMDVSSAGALNKSLTK--TFGDDKYSLA 654
Cdd:PRK05054 405 lrdklgfGIYNVhsgfdpaNAEQAvaLLKEHGLHFDaEELLTLEGFC-KLRRELDAQPTGYLDSRIRRfqSFAEISTEPG 483
|
330 340 350 360 370 380 390 400
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 24233556 655 rkevltnmysrPmqmalyfcsgmlqdqeqfrHYALNVPLYTHFTSPIRRFADVIVHRLLAAALGYSEQPDVEPDTLQKQA 734
Cdd:PRK05054 484 -----------P-------------------HFGLGLEAYATWTSPIRKYGDMINHRLLKAVIKGETAERPQDEITVQLA 533
|
410
....*....|...
gi 24233556 735 DHCNDRRMASKRV 747
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. ... |
764-853 |
4.56e-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: 116.59 E-value: 4.56e-31
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 24233556 764 GPLESEAMVMGVLNQAFDVLVLRFGVQKRIYCNALALRSYSFQKVGKkpeLTLVWEPDDLEEEPTQQVITIFSLVDVVLQ 843
Cdd:pfam17877 1 GPLETEAVVLGVLDSSFDVLIPEYGIEKRVYLDQLPLKKFEFDKTGV---LTLYWKKGVPSSAYVPEDERFSSLVVVVLK 77
|
90
....*....|
gi 24233556 844 AEATALKYSA 853
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 ... |
263-339 |
1.10e-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: 115.40 E-value: 1.10e-30
10 20 30 40 50 60 70
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*..
gi 24233556 263 YALFSPSDHRVPRIYVPLKDCPQDFMTRPKDFANTLFICRIIDWKEDCNFALGQLAKSLGQAGEIEPETEGILTEYG 339
Cdd:pfam17849 1 YVLFVPRDKRIPRIRIPTKSAPEEFLENPEDLEGKLFVVKIDDWPENSRYPLGHIVKVLGEIGDIETETEAILLENG 77
|
|
| Rrp44_CSD1 |
pfam17216 |
Rrp44-like cold shock domain; |
50-236 |
1.06e-11 |
|
Rrp44-like cold shock domain;
Pssm-ID: 375054 Cd Length: 148 Bit Score: 63.64 E-value: 1.06e-11
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 24233556 50 FETYMSKEDVSEGLKRGTLIQGVLRINPKKFHEAFIPSPDGDRDIFIDGVVARNRALNGDLVVVKLLPEDQWKAVKPESN 129
Cdd:pfam17216 4 FPEYYSTARVMGGLKNGVLYQGNIQISEYNFLEGSVSLPRFSKPVLIVGQKNLNRAFNGDQVIVELLPQSEWKAPSSIVL 83
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 24233556 130 DKEieatyeadipeegcgHHPLQQSrkgwsgPDviIEAQfDDSDSEDRHGNTSGLVDGVKKLsistpdrgkedsstpVMK 209
Cdd:pfam17216 84 DSE---------------HFDVNDN------PD--IEAG-DDDDNNESSSNTTVISDKQRRL---------------LAK 124
|
170 180
....*....|....*....|....*..
gi 24233556 210 DenTPIPQDTrglseKSLQKSAKVVYI 236
Cdd:pfam17216 125 D--AMIAQRS-----KKIQPTAKVVYI 144
|
|
| |
