|
Name |
Accession |
Description |
Interval |
E-value |
| RNB |
pfam00773 |
RNB domain; This domain is the catalytic domain of ribonuclease II. |
721-1054 |
4.11e-103 |
|
RNB domain; This domain is the catalytic domain of ribonuclease II.
:
Pssm-ID: 459934 [Multi-domain] Cd Length: 314 Bit Score: 330.02 E-value: 4.11e-103
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 631371350 721 RRDFRSETTFTIDPNGSKELDDAIHFKELGDGLIEVGIHVTDVAHFIKANSLVDREAKKRGTGVYLMNRTVDMLPPRLSQ 800
Cdd:pfam00773 1 RKDLRDLPFITIDPADAKDLDDAISVEKLPNGGYRLGVHIADVSHYVPPGSPLDREARKRGTSVYLPDRVIPMLPEKLSN 80
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 631371350 801 EICCLVPGEERYTVSVVFKVDaATGRVIddDTWIGKSVIKSSGKLAYEDVDAVINGQTVSSLGGERSKQILLLHSITQKL 880
Cdd:pfam00773 81 DLCSLNPGEDRLALSVEITID-ADGEVT--SYEIYPSVIRSKARLTYEEVDDLLEGKDAEKDKPDLAEDLRLLYELAKIL 157
|
170 180 190 200 210 220 230 240
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 631371350 881 RKARYGTDEAHVPSLRLLYSLDDENvPVEENIFNSSPSHEMIEELSHKTNAVVAKKIHDtLGDRALLRTIAPPKPRRLQT 960
Cdd:pfam00773 158 RAKRLQRGALDLDTPENKLILDEEG-VIDILIQERTDAHSLIEEFMLLANEAVARHLQE-LGIPALYRVHPEPDLEKLNS 235
|
250 260 270 280 290 300 310 320
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 631371350 961 FAQRMSNIGYEIdtssssALHNSLFHVEDAdiRTGMETLVFKCFNRAKYQvparadnPQDLAHFALNLPLYTHFTNPSRR 1040
Cdd:pfam00773 236 LIKLLQLLPDDK------GLSKSLEKIKDD--ERLLSILLLRTMPRAEYS-------PEPLGHFGLGLDIYTHFTSPIRR 300
|
330
....*....|....
gi 631371350 1041 YADIVVHRQLEAAL 1054
Cdd:pfam00773 301 YPDLIVHRQLKALL 314
|
|
| Dis3l2_C_term |
pfam17877 |
DIS3-like exonuclease 2 C terminal; This is the C-terminal S1 domain found in Dis3L2 proteins. ... |
1107-1175 |
6.62e-34 |
|
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: 125.45 E-value: 6.62e-34
10 20 30 40 50 60
....*....|....*....|....*....|....*....|....*....|....*....|....*....
gi 631371350 1107 GDLISIGIVVCVYESAFDVFIPEYGFEKRVHCDQLPLKKAEFDKnTRLLELYWEKGVPSSAFVPEDERP 1175
Cdd:pfam17877 1 GPLETEAVVLGVLDSSFDVLIPEYGIEKRVYLDQLPLKKFEFDK-TGVLTLYWKKGVPSSAYVPEDERF 68
|
|
| OB_Dis3 |
pfam17849 |
Dis3-like cold-shock domain 2 (CSD2); This domain has an OB fold and is found in the Dis3l2 ... |
614-689 |
1.60e-33 |
|
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: 123.87 E-value: 1.60e-33
10 20 30 40 50 60 70
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*.
gi 631371350 614 VWFKPTDKRVPLIAIPTEQAPKDFVDNHQKYADQIFVACIKRWPITSLHPFGTLVEQLGQAGELKVETEALLRDNN 689
Cdd:pfam17849 2 VLFVPRDKRIPRIRIPTKSAPEEFLENPEDLEGKLFVVKIDDWPENSRYPLGHIVKVLGEIGDIETETEAILLENG 77
|
|
| Rrp44_CSD1 super family |
cl28867 |
Rrp44-like cold shock domain; |
401-527 |
8.51e-04 |
|
Rrp44-like cold shock domain;
The actual alignment was detected with superfamily member pfam17216:
Pssm-ID: 375054 Cd Length: 148 Bit Score: 41.29 E-value: 8.51e-04
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 631371350 401 FTPYLPQATLPALLADGQLVAGTLRVNKKNRSDAYVTTLDLDADIFICGSKDRNRALEGDYVAVELLDVDEvWGQKREKE 480
Cdd:pfam17216 4 FPEYYSTARVMGGLKNGVLYQGNIQISEYNFLEGSVSLPRFSKPVLIVGQKNLNRAFNGDQVIVELLPQSE-WKAPSSIV 82
|
90 100 110 120 130 140
....*....|....*....|....*....|....*....|....*....|....*....|
gi 631371350 481 EKKKRKDVTD-------------QRSGSVTAVNDatTQPESAADGGLRRRGSLKQRPTQK 527
Cdd:pfam17216 83 LDSEHFDVNDnpdieagddddnnESSSNTTVISD--KQRRLLAKDAMIAQRSKKIQPTAK 140
|
|
| Med15 super family |
cl26621 |
ARC105 or Med15 subunit of Mediator complex non-fungal; The approx. 70 residue Med15 domain of ... |
169-348 |
2.08e-03 |
|
ARC105 or Med15 subunit of Mediator complex non-fungal; The approx. 70 residue Med15 domain of the ARC-Mediator co-activator is a three-helix bundle with marked similarity to the KIX domain. The sterol regulatory element binding protein (SREBP) family of transcription activators use the ARC105 subunit to activate target genes in the regulation of cholesterol and fatty acid homeostasis. In addition, Med15 is a critical transducer of gene activation signals that control early metazoan development.
The actual alignment was detected with superfamily member pfam09606:
Pssm-ID: 312941 [Multi-domain] Cd Length: 732 Bit Score: 42.69 E-value: 2.08e-03
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 631371350 169 TSGFQFPLPGASGSSPSAKDRSDSPGNGETTQTPSSTTRGGMAGGRGHGRSQSMAVGGRGMAQSSRGGPQGFQFPPPQAS 248
Cdd:pfam09606 127 LGRPQMPMGGAGFPSQMSRVGRMQPGGQAGGMMQPSSGQPGSGTPNQMGPNGGPGQGQAGGMNGGQQGPMGGQMPPQMGV 206
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 631371350 249 DGGNtselGRRNSQGHGRsasrNFEGNWRNPNNNQAAdsQGSNmgNFQMNQQATAQpfQPGHRQRQSINNQsissiqnFQ 328
Cdd:pfam09606 207 PGMP----GPADAGAQMG----QQAQANGGMNPQQMG--GAPN--QVAMQQQQPQQ--QGQQSQLGMGINQ-------MQ 265
|
170 180
....*....|....*....|....*.
gi 631371350 329 QYAQPQLVQLPQG------QVLVQQP 348
Cdd:pfam09606 266 QMPQGVGGGAGQGgpgqpmGPPGQQP 291
|
|
| |
|
Name |
Accession |
Description |
Interval |
E-value |
| RNB |
pfam00773 |
RNB domain; This domain is the catalytic domain of ribonuclease II. |
721-1054 |
4.11e-103 |
|
RNB domain; This domain is the catalytic domain of ribonuclease II.
Pssm-ID: 459934 [Multi-domain] Cd Length: 314 Bit Score: 330.02 E-value: 4.11e-103
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 631371350 721 RRDFRSETTFTIDPNGSKELDDAIHFKELGDGLIEVGIHVTDVAHFIKANSLVDREAKKRGTGVYLMNRTVDMLPPRLSQ 800
Cdd:pfam00773 1 RKDLRDLPFITIDPADAKDLDDAISVEKLPNGGYRLGVHIADVSHYVPPGSPLDREARKRGTSVYLPDRVIPMLPEKLSN 80
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 631371350 801 EICCLVPGEERYTVSVVFKVDaATGRVIddDTWIGKSVIKSSGKLAYEDVDAVINGQTVSSLGGERSKQILLLHSITQKL 880
Cdd:pfam00773 81 DLCSLNPGEDRLALSVEITID-ADGEVT--SYEIYPSVIRSKARLTYEEVDDLLEGKDAEKDKPDLAEDLRLLYELAKIL 157
|
170 180 190 200 210 220 230 240
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 631371350 881 RKARYGTDEAHVPSLRLLYSLDDENvPVEENIFNSSPSHEMIEELSHKTNAVVAKKIHDtLGDRALLRTIAPPKPRRLQT 960
Cdd:pfam00773 158 RAKRLQRGALDLDTPENKLILDEEG-VIDILIQERTDAHSLIEEFMLLANEAVARHLQE-LGIPALYRVHPEPDLEKLNS 235
|
250 260 270 280 290 300 310 320
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 631371350 961 FAQRMSNIGYEIdtssssALHNSLFHVEDAdiRTGMETLVFKCFNRAKYQvparadnPQDLAHFALNLPLYTHFTNPSRR 1040
Cdd:pfam00773 236 LIKLLQLLPDDK------GLSKSLEKIKDD--ERLLSILLLRTMPRAEYS-------PEPLGHFGLGLDIYTHFTSPIRR 300
|
330
....*....|....
gi 631371350 1041 YADIVVHRQLEAAL 1054
Cdd:pfam00773 301 YPDLIVHRQLKALL 314
|
|
| VacB |
COG0557 |
Exoribonuclease R [Transcription]; |
608-1076 |
2.93e-92 |
|
Exoribonuclease R [Transcription];
Pssm-ID: 440323 [Multi-domain] Cd Length: 711 Bit Score: 313.97 E-value: 2.93e-92
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 631371350 608 QDRPKIVWFKPTDKRVPL-IAIPTEQA--PKDfvdnhqkyaDQIFVACIKRWPITSLHPFGTLVEQLGQAGELKVETEAL 684
Cdd:COG0557 142 EKEKGFGFVVPDDKRLLQdIFIPPDDLngAKD---------GDLVVVEITRYPERRGPPEGRVVEVLGSPGDPGAEILIA 212
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 631371350 685 LRDNNFgPDDFSDAVLKNvghedwsvAND-----GEAALEGRRDFRSETTFTIDPNGSKELDDAIHFKELGDGLIEVGIH 759
Cdd:COG0557 213 IRKHGL-PHEFPEEVLAE--------AEAlpdevPEADLKGRRDLRDLPLVTIDGEDAKDFDDAVSAEKLDNGGWRLGVH 283
|
170 180 190 200 210 220 230 240
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 631371350 760 VTDVAHFIKANSLVDREAKKRGTGVYLMNRTVDMLPPRLSQEICCLVPGEERYTVSVVFKVDaATGRVIddDTWIGKSVI 839
Cdd:COG0557 284 IADVSHYVRPGSALDREARKRGTSVYLPDRVIPMLPERLSNGLCSLNPGEDRLAMSCEMEID-AKGEVV--SYEFYRSVI 360
|
250 260 270 280 290 300 310 320
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 631371350 840 KSSGKLAYEDVDAVINGQT--VSSLGGERSKQILLLHSITQKLRKARYG-------TDEAHVPslrllysLDDENVPVEE 910
Cdd:COG0557 361 RSDARLTYEEVQAILDGKDeeLREEYADLVPMLEELYELAKILRKAREKrgaidfdLPETKII-------LDEEGKPEDI 433
|
330 340 350 360 370 380 390 400
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 631371350 911 NIFNSSPSHEMIEELSHKTNAVVAKKIHDtLGDRALLRTIAPPKPRRLQTFAQRMSNIGYEI---DTSSSSALHNSLFHV 987
Cdd:COG0557 434 VPRERNDAHKLIEEFMLLANEAVAEFLEK-LKLPFLYRVHEEPDPEKLEALREFLANLGLKLkggDEPTPKDLQKLLEQV 512
|
410 420 430 440 450 460 470 480
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 631371350 988 EDADIRTGMETLVFKCFNRAKYQvparadnPQDLAHFALNLPLYTHFTNPSRRYADIVVHRQLEAALSEG--AIEFNDDV 1065
Cdd:COG0557 513 KGRPEEELLNTLLLRSMKQAVYS-------PENIGHFGLALEAYTHFTSPIRRYPDLLVHRALKAYLEGKrsPGLQEYLE 585
|
490
....*....|.
gi 631371350 1066 ENLHKTAEACN 1076
Cdd:COG0557 586 EELEEIAEHCS 596
|
|
| RNB |
smart00955 |
This domain is the catalytic domain of ribonuclease II; |
721-1056 |
5.72e-91 |
|
This domain is the catalytic domain of ribonuclease II;
Pssm-ID: 214935 [Multi-domain] Cd Length: 286 Bit Score: 295.72 E-value: 5.72e-91
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 631371350 721 RRDFRSETTFTIDPNGSKELDDAIHFKELGDGLIEVGIHVTDVAHFIKANSLVDREAKKRGTGVYLMNRTVDMLPPRLSQ 800
Cdd:smart00955 1 RVDLRDLPLFTIDPEDAKDIDDAVSVEKLDNGGYRLGVHIADVSHYVKPGSALDREARKRGTSVYLPDRVIPMLPEELSN 80
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 631371350 801 EICCLVPGEERYTVSVVFKVDAATGRVIddDTWIGKSVIKSSGKLAYEDVDAVINgqtvsslggerskqilllhsitqkl 880
Cdd:smart00955 81 GLCSLNPGEDRLALSVEMTLDADGGEIL--DYEFYRSVIRSKARLTYEEVDAILE------------------------- 133
|
170 180 190 200 210 220 230 240
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 631371350 881 rkarygtdeahvpslrlLYSLDDENVPVEENIFNSSPSHEMIEELSHKTNAVVAKKIHDtLGDRALLRTIAPPKPRRLQT 960
Cdd:smart00955 134 -----------------KIVLDEEGKIEDIVPRERNDAHSLVEEFMILANEAVARFLAK-NGIPGLYRVHEGPDPEKLAE 195
|
250 260 270 280 290 300 310 320
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 631371350 961 FAQR-MSNIGYEI-DTSSSSALHNSLFHVEDADIRTGMETLVFKCFNRAKYQvparadnPQDLAHFALNLPLYTHFTNPS 1038
Cdd:smart00955 196 LLKEfLALLGLLLlGGDGPKALAKLLEKIRDSPEERLLELLLLRSMPHAEYS-------VDNSGHFGLALDAYTHFTSPI 268
|
330
....*....|....*...
gi 631371350 1039 RRYADIVVHRQLEAALSE 1056
Cdd:smart00955 269 RRYPDLIVHRQLKAALRG 286
|
|
| RNase_R |
TIGR02063 |
ribonuclease R; This family consists of an exoribonuclease, ribonuclease R, also called VacB. ... |
611-1142 |
2.12e-80 |
|
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: 280.31 E-value: 2.12e-80
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 631371350 611 PKIVWFKPTDKRVPL-IAIPTEQaPKDFVDNHqkyadqIFVACIKRWPITSLHPFGTLVEQLGQAGELKVETEALLRDNN 689
Cdd:TIGR02063 146 NGIGFVIPDDKRIYLdIFIPPEQ-ILGAEEGD------KVLVEITKYPDRNRPAIGKVVEILGHADDPGIDILIIIRKHG 218
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 631371350 690 FgPDDFSDAVLKNVghedwSVANDG--EAALEGRRDFRSETTFTIDPNGSKELDDAIHFKELGDGLIEVGIHVTDVAHFI 767
Cdd:TIGR02063 219 I-PYEFPEEVLDEA-----AKIPEEvpEEEIKGRKDLRDLPFVTIDGEDAKDFDDAVYVEKLKDGNYKLGVAIADVSHYV 292
|
170 180 190 200 210 220 230 240
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 631371350 768 KANSLVDREAKKRGTGVYLMNRTVDMLPPRLSQEICCLVPGEERYTVSVVFKVDAaTGRVIDDDtwIGKSVIKSSGKLAY 847
Cdd:TIGR02063 293 REGSALDKEALKRGTSVYLPDRVIPMLPERLSNGICSLNPNEDRLTLSCEMEIDK-KGRVKKYE--FYEAVINSHARLTY 369
|
250 260 270 280 290 300 310 320
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 631371350 848 EDVDAVINGQTVSSLGGERSKQILL----LHSITQKLRKAR----YGTDEAHVpslrllySLDDENVPVEENIFNSSPSH 919
Cdd:TIGR02063 370 NQVNDIIEGKDALDKKEPPLKEMLKnlfeLYKILRKKRKKRgaidFDSKEAKI-------ILDENGKPIDIVPRERGDAH 442
|
330 340 350 360 370 380 390 400
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 631371350 920 EMIEELSHKTNAVVAKKIHDtLGDRALLRTIAPPKPRRLQTFAQRMSNIGYEIDTSSSSALH-----NSLFHVEDADIRT 994
Cdd:TIGR02063 443 KLIEEFMIAANETVAEHLEK-AKLPFIYRVHERPSEEKLQNLREFLKTLGITLKGGTSDKPQpkdfqKLLEKVKGRPEEE 521
|
410 420 430 440 450 460 470 480
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 631371350 995 GMETLVFKCFNRAKYQvparadnPQDLAHFALNLPLYTHFTNPSRRYADIVVHRQLEAALSEGA-----IEFNDDVENLH 1069
Cdd:TIGR02063 522 LINTVLLRSMQQAKYS-------PENIGHFGLALEYYTHFTSPIRRYPDLIVHRLIKKALFGGEnttteKEREYLEAKLE 594
|
490 500 510 520 530 540 550
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*.
gi 631371350 1070 KTAEACNVKKDSAHSAQQQSVHIEACRRMN-RVSEEqggdliSIGIVVCVyeSAFDVFI--PEYGFEKRVHCDQLP 1142
Cdd:TIGR02063 595 EIAEHSSKTERRADEAERDVNDWKKAEYMSeKIGEE------FEGVISGV--TSFGLFVelENNTIEGLVHISTLK 662
|
|
| Dis3l2_C_term |
pfam17877 |
DIS3-like exonuclease 2 C terminal; This is the C-terminal S1 domain found in Dis3L2 proteins. ... |
1107-1175 |
6.62e-34 |
|
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: 125.45 E-value: 6.62e-34
10 20 30 40 50 60
....*....|....*....|....*....|....*....|....*....|....*....|....*....
gi 631371350 1107 GDLISIGIVVCVYESAFDVFIPEYGFEKRVHCDQLPLKKAEFDKnTRLLELYWEKGVPSSAFVPEDERP 1175
Cdd:pfam17877 1 GPLETEAVVLGVLDSSFDVLIPEYGIEKRVYLDQLPLKKFEFDK-TGVLTLYWKKGVPSSAYVPEDERF 68
|
|
| OB_Dis3 |
pfam17849 |
Dis3-like cold-shock domain 2 (CSD2); This domain has an OB fold and is found in the Dis3l2 ... |
614-689 |
1.60e-33 |
|
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: 123.87 E-value: 1.60e-33
10 20 30 40 50 60 70
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*.
gi 631371350 614 VWFKPTDKRVPLIAIPTEQAPKDFVDNHQKYADQIFVACIKRWPITSLHPFGTLVEQLGQAGELKVETEALLRDNN 689
Cdd:pfam17849 2 VLFVPRDKRIPRIRIPTKSAPEEFLENPEDLEGKLFVVKIDDWPENSRYPLGHIVKVLGEIGDIETETEAILLENG 77
|
|
| PRK05054 |
PRK05054 |
exoribonuclease II; Provisional |
730-1108 |
5.96e-24 |
|
exoribonuclease II; Provisional
Pssm-ID: 179920 [Multi-domain] Cd Length: 644 Bit Score: 108.81 E-value: 5.96e-24
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 631371350 730 FTIDPNGSKELDDAIHFKELGDGLIEVGIHVTDVAHFIKANSLVDREAKKRGTGVYLMNRTVDMLPPRLSQEICCLVPGE 809
Cdd:PRK05054 199 VTIDSASTEDMDDALYVEKLPDGGLQLTVAIADPTAYIAEGSKLDKAARQRAFTNYLPGFNIPMLPRELSDDLCSLRPNE 278
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 631371350 810 ERYTVSVVFKVDaATGRVIDD----DTWigksvIKSSGKLAYEDV-DAVINGQTVSSLGGERSKQILLLHSITQKLRKAR 884
Cdd:PRK05054 279 RRPALACRVTID-ADGTIEDDirffAAW-----IESKAKLAYDNVsDWLENGGDWQPESEAIAEQIRLLHQFCLARSEWR 352
|
170 180 190 200 210 220 230 240
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 631371350 885 ygTDEAHV----PSLRLLYSLDDE--NVPVEENifnsSPSHEMIEELSHKTNAVVAKKIHDTLG----------DRALLR 948
Cdd:PRK05054 353 --KQHALVfkdrPDYRFELGEKGEvlDIVAEPR----RIANRIVEESMIAANICAARVLRDKLGfgiynvhsgfDPANAE 426
|
250 260 270 280 290 300 310 320
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 631371350 949 TIAppkpRRLQTFAQRMS--NI----GY-----EIDTSSSSALhnslfhveDADIRtgmetlvfkcfnraKYQVPARADN 1017
Cdd:PRK05054 427 QAV----ALLKEHGLHFDaeELltleGFcklrrELDAQPTGYL--------DSRIR--------------RFQSFAEIST 480
|
330 340 350 360 370 380 390 400
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 631371350 1018 pQDLAHFALNLPLYTHFTNPSRRYADIVVHRQLEAALS-EGAIEFNDDVenlhktaeacnvkkdsahsaqqqSVHIEACR 1096
Cdd:PRK05054 481 -EPGPHFGLGLEAYATWTSPIRKYGDMINHRLLKAVIKgETAERPQDEI-----------------------TVQLAERR 536
|
410
....*....|..
gi 631371350 1097 RMNRVSEEQGGD 1108
Cdd:PRK05054 537 RLNRMAERDVGD 548
|
|
| Rrp44_CSD1 |
pfam17216 |
Rrp44-like cold shock domain; |
401-527 |
8.51e-04 |
|
Rrp44-like cold shock domain;
Pssm-ID: 375054 Cd Length: 148 Bit Score: 41.29 E-value: 8.51e-04
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 631371350 401 FTPYLPQATLPALLADGQLVAGTLRVNKKNRSDAYVTTLDLDADIFICGSKDRNRALEGDYVAVELLDVDEvWGQKREKE 480
Cdd:pfam17216 4 FPEYYSTARVMGGLKNGVLYQGNIQISEYNFLEGSVSLPRFSKPVLIVGQKNLNRAFNGDQVIVELLPQSE-WKAPSSIV 82
|
90 100 110 120 130 140
....*....|....*....|....*....|....*....|....*....|....*....|
gi 631371350 481 EKKKRKDVTD-------------QRSGSVTAVNDatTQPESAADGGLRRRGSLKQRPTQK 527
Cdd:pfam17216 83 LDSEHFDVNDnpdieagddddnnESSSNTTVISD--KQRRLLAKDAMIAQRSKKIQPTAK 140
|
|
| Med15 |
pfam09606 |
ARC105 or Med15 subunit of Mediator complex non-fungal; The approx. 70 residue Med15 domain of ... |
169-348 |
2.08e-03 |
|
ARC105 or Med15 subunit of Mediator complex non-fungal; The approx. 70 residue Med15 domain of the ARC-Mediator co-activator is a three-helix bundle with marked similarity to the KIX domain. The sterol regulatory element binding protein (SREBP) family of transcription activators use the ARC105 subunit to activate target genes in the regulation of cholesterol and fatty acid homeostasis. In addition, Med15 is a critical transducer of gene activation signals that control early metazoan development.
Pssm-ID: 312941 [Multi-domain] Cd Length: 732 Bit Score: 42.69 E-value: 2.08e-03
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 631371350 169 TSGFQFPLPGASGSSPSAKDRSDSPGNGETTQTPSSTTRGGMAGGRGHGRSQSMAVGGRGMAQSSRGGPQGFQFPPPQAS 248
Cdd:pfam09606 127 LGRPQMPMGGAGFPSQMSRVGRMQPGGQAGGMMQPSSGQPGSGTPNQMGPNGGPGQGQAGGMNGGQQGPMGGQMPPQMGV 206
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 631371350 249 DGGNtselGRRNSQGHGRsasrNFEGNWRNPNNNQAAdsQGSNmgNFQMNQQATAQpfQPGHRQRQSINNQsissiqnFQ 328
Cdd:pfam09606 207 PGMP----GPADAGAQMG----QQAQANGGMNPQQMG--GAPN--QVAMQQQQPQQ--QGQQSQLGMGINQ-------MQ 265
|
170 180
....*....|....*....|....*.
gi 631371350 329 QYAQPQLVQLPQG------QVLVQQP 348
Cdd:pfam09606 266 QMPQGVGGGAGQGgpgqpmGPPGQQP 291
|
|
| |
|
Name |
Accession |
Description |
Interval |
E-value |
| RNB |
pfam00773 |
RNB domain; This domain is the catalytic domain of ribonuclease II. |
721-1054 |
4.11e-103 |
|
RNB domain; This domain is the catalytic domain of ribonuclease II.
Pssm-ID: 459934 [Multi-domain] Cd Length: 314 Bit Score: 330.02 E-value: 4.11e-103
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 631371350 721 RRDFRSETTFTIDPNGSKELDDAIHFKELGDGLIEVGIHVTDVAHFIKANSLVDREAKKRGTGVYLMNRTVDMLPPRLSQ 800
Cdd:pfam00773 1 RKDLRDLPFITIDPADAKDLDDAISVEKLPNGGYRLGVHIADVSHYVPPGSPLDREARKRGTSVYLPDRVIPMLPEKLSN 80
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 631371350 801 EICCLVPGEERYTVSVVFKVDaATGRVIddDTWIGKSVIKSSGKLAYEDVDAVINGQTVSSLGGERSKQILLLHSITQKL 880
Cdd:pfam00773 81 DLCSLNPGEDRLALSVEITID-ADGEVT--SYEIYPSVIRSKARLTYEEVDDLLEGKDAEKDKPDLAEDLRLLYELAKIL 157
|
170 180 190 200 210 220 230 240
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 631371350 881 RKARYGTDEAHVPSLRLLYSLDDENvPVEENIFNSSPSHEMIEELSHKTNAVVAKKIHDtLGDRALLRTIAPPKPRRLQT 960
Cdd:pfam00773 158 RAKRLQRGALDLDTPENKLILDEEG-VIDILIQERTDAHSLIEEFMLLANEAVARHLQE-LGIPALYRVHPEPDLEKLNS 235
|
250 260 270 280 290 300 310 320
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 631371350 961 FAQRMSNIGYEIdtssssALHNSLFHVEDAdiRTGMETLVFKCFNRAKYQvparadnPQDLAHFALNLPLYTHFTNPSRR 1040
Cdd:pfam00773 236 LIKLLQLLPDDK------GLSKSLEKIKDD--ERLLSILLLRTMPRAEYS-------PEPLGHFGLGLDIYTHFTSPIRR 300
|
330
....*....|....
gi 631371350 1041 YADIVVHRQLEAAL 1054
Cdd:pfam00773 301 YPDLIVHRQLKALL 314
|
|
| VacB |
COG0557 |
Exoribonuclease R [Transcription]; |
608-1076 |
2.93e-92 |
|
Exoribonuclease R [Transcription];
Pssm-ID: 440323 [Multi-domain] Cd Length: 711 Bit Score: 313.97 E-value: 2.93e-92
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 631371350 608 QDRPKIVWFKPTDKRVPL-IAIPTEQA--PKDfvdnhqkyaDQIFVACIKRWPITSLHPFGTLVEQLGQAGELKVETEAL 684
Cdd:COG0557 142 EKEKGFGFVVPDDKRLLQdIFIPPDDLngAKD---------GDLVVVEITRYPERRGPPEGRVVEVLGSPGDPGAEILIA 212
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 631371350 685 LRDNNFgPDDFSDAVLKNvghedwsvAND-----GEAALEGRRDFRSETTFTIDPNGSKELDDAIHFKELGDGLIEVGIH 759
Cdd:COG0557 213 IRKHGL-PHEFPEEVLAE--------AEAlpdevPEADLKGRRDLRDLPLVTIDGEDAKDFDDAVSAEKLDNGGWRLGVH 283
|
170 180 190 200 210 220 230 240
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 631371350 760 VTDVAHFIKANSLVDREAKKRGTGVYLMNRTVDMLPPRLSQEICCLVPGEERYTVSVVFKVDaATGRVIddDTWIGKSVI 839
Cdd:COG0557 284 IADVSHYVRPGSALDREARKRGTSVYLPDRVIPMLPERLSNGLCSLNPGEDRLAMSCEMEID-AKGEVV--SYEFYRSVI 360
|
250 260 270 280 290 300 310 320
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 631371350 840 KSSGKLAYEDVDAVINGQT--VSSLGGERSKQILLLHSITQKLRKARYG-------TDEAHVPslrllysLDDENVPVEE 910
Cdd:COG0557 361 RSDARLTYEEVQAILDGKDeeLREEYADLVPMLEELYELAKILRKAREKrgaidfdLPETKII-------LDEEGKPEDI 433
|
330 340 350 360 370 380 390 400
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 631371350 911 NIFNSSPSHEMIEELSHKTNAVVAKKIHDtLGDRALLRTIAPPKPRRLQTFAQRMSNIGYEI---DTSSSSALHNSLFHV 987
Cdd:COG0557 434 VPRERNDAHKLIEEFMLLANEAVAEFLEK-LKLPFLYRVHEEPDPEKLEALREFLANLGLKLkggDEPTPKDLQKLLEQV 512
|
410 420 430 440 450 460 470 480
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 631371350 988 EDADIRTGMETLVFKCFNRAKYQvparadnPQDLAHFALNLPLYTHFTNPSRRYADIVVHRQLEAALSEG--AIEFNDDV 1065
Cdd:COG0557 513 KGRPEEELLNTLLLRSMKQAVYS-------PENIGHFGLALEAYTHFTSPIRRYPDLLVHRALKAYLEGKrsPGLQEYLE 585
|
490
....*....|.
gi 631371350 1066 ENLHKTAEACN 1076
Cdd:COG0557 586 EELEEIAEHCS 596
|
|
| RNB |
smart00955 |
This domain is the catalytic domain of ribonuclease II; |
721-1056 |
5.72e-91 |
|
This domain is the catalytic domain of ribonuclease II;
Pssm-ID: 214935 [Multi-domain] Cd Length: 286 Bit Score: 295.72 E-value: 5.72e-91
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 631371350 721 RRDFRSETTFTIDPNGSKELDDAIHFKELGDGLIEVGIHVTDVAHFIKANSLVDREAKKRGTGVYLMNRTVDMLPPRLSQ 800
Cdd:smart00955 1 RVDLRDLPLFTIDPEDAKDIDDAVSVEKLDNGGYRLGVHIADVSHYVKPGSALDREARKRGTSVYLPDRVIPMLPEELSN 80
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 631371350 801 EICCLVPGEERYTVSVVFKVDAATGRVIddDTWIGKSVIKSSGKLAYEDVDAVINgqtvsslggerskqilllhsitqkl 880
Cdd:smart00955 81 GLCSLNPGEDRLALSVEMTLDADGGEIL--DYEFYRSVIRSKARLTYEEVDAILE------------------------- 133
|
170 180 190 200 210 220 230 240
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 631371350 881 rkarygtdeahvpslrlLYSLDDENVPVEENIFNSSPSHEMIEELSHKTNAVVAKKIHDtLGDRALLRTIAPPKPRRLQT 960
Cdd:smart00955 134 -----------------KIVLDEEGKIEDIVPRERNDAHSLVEEFMILANEAVARFLAK-NGIPGLYRVHEGPDPEKLAE 195
|
250 260 270 280 290 300 310 320
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 631371350 961 FAQR-MSNIGYEI-DTSSSSALHNSLFHVEDADIRTGMETLVFKCFNRAKYQvparadnPQDLAHFALNLPLYTHFTNPS 1038
Cdd:smart00955 196 LLKEfLALLGLLLlGGDGPKALAKLLEKIRDSPEERLLELLLLRSMPHAEYS-------VDNSGHFGLALDAYTHFTSPI 268
|
330
....*....|....*...
gi 631371350 1039 RRYADIVVHRQLEAALSE 1056
Cdd:smart00955 269 RRYPDLIVHRQLKAALRG 286
|
|
| RNase_R |
TIGR02063 |
ribonuclease R; This family consists of an exoribonuclease, ribonuclease R, also called VacB. ... |
611-1142 |
2.12e-80 |
|
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: 280.31 E-value: 2.12e-80
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 631371350 611 PKIVWFKPTDKRVPL-IAIPTEQaPKDFVDNHqkyadqIFVACIKRWPITSLHPFGTLVEQLGQAGELKVETEALLRDNN 689
Cdd:TIGR02063 146 NGIGFVIPDDKRIYLdIFIPPEQ-ILGAEEGD------KVLVEITKYPDRNRPAIGKVVEILGHADDPGIDILIIIRKHG 218
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 631371350 690 FgPDDFSDAVLKNVghedwSVANDG--EAALEGRRDFRSETTFTIDPNGSKELDDAIHFKELGDGLIEVGIHVTDVAHFI 767
Cdd:TIGR02063 219 I-PYEFPEEVLDEA-----AKIPEEvpEEEIKGRKDLRDLPFVTIDGEDAKDFDDAVYVEKLKDGNYKLGVAIADVSHYV 292
|
170 180 190 200 210 220 230 240
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 631371350 768 KANSLVDREAKKRGTGVYLMNRTVDMLPPRLSQEICCLVPGEERYTVSVVFKVDAaTGRVIDDDtwIGKSVIKSSGKLAY 847
Cdd:TIGR02063 293 REGSALDKEALKRGTSVYLPDRVIPMLPERLSNGICSLNPNEDRLTLSCEMEIDK-KGRVKKYE--FYEAVINSHARLTY 369
|
250 260 270 280 290 300 310 320
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 631371350 848 EDVDAVINGQTVSSLGGERSKQILL----LHSITQKLRKAR----YGTDEAHVpslrllySLDDENVPVEENIFNSSPSH 919
Cdd:TIGR02063 370 NQVNDIIEGKDALDKKEPPLKEMLKnlfeLYKILRKKRKKRgaidFDSKEAKI-------ILDENGKPIDIVPRERGDAH 442
|
330 340 350 360 370 380 390 400
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 631371350 920 EMIEELSHKTNAVVAKKIHDtLGDRALLRTIAPPKPRRLQTFAQRMSNIGYEIDTSSSSALH-----NSLFHVEDADIRT 994
Cdd:TIGR02063 443 KLIEEFMIAANETVAEHLEK-AKLPFIYRVHERPSEEKLQNLREFLKTLGITLKGGTSDKPQpkdfqKLLEKVKGRPEEE 521
|
410 420 430 440 450 460 470 480
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 631371350 995 GMETLVFKCFNRAKYQvparadnPQDLAHFALNLPLYTHFTNPSRRYADIVVHRQLEAALSEGA-----IEFNDDVENLH 1069
Cdd:TIGR02063 522 LINTVLLRSMQQAKYS-------PENIGHFGLALEYYTHFTSPIRRYPDLIVHRLIKKALFGGEnttteKEREYLEAKLE 594
|
490 500 510 520 530 540 550
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*.
gi 631371350 1070 KTAEACNVKKDSAHSAQQQSVHIEACRRMN-RVSEEqggdliSIGIVVCVyeSAFDVFI--PEYGFEKRVHCDQLP 1142
Cdd:TIGR02063 595 EIAEHSSKTERRADEAERDVNDWKKAEYMSeKIGEE------FEGVISGV--TSFGLFVelENNTIEGLVHISTLK 662
|
|
| 3_prime_RNase |
TIGR00358 |
VacB and RNase II family 3'-5' exoribonucleases; This model is defined to identify a pair of ... |
573-1134 |
4.17e-57 |
|
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: 210.34 E-value: 4.17e-57
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 631371350 573 GTLGLLRPSSQATKEKQEAE-----RQAREGNSGRQPErQQDRPKIVwfkPTDKRVPLiAIPteqAPKDFVDNHQKYADQ 647
Cdd:TIGR00358 54 GDLVEACPLSQPQRGRFEAEverilEPALTRFVGKFLG-ENDFGFVV---PDDPRIYL-DII---VPKASVKNELAEGDK 125
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 631371350 648 IfVACIKRWPITSLHPFGTLVEQLGQAGELKVETEALLRDNNFgPDDFSDAVLKNVGHEDWSVAndgEAALEGRRDFRSE 727
Cdd:TIGR00358 126 V-VVELTEYPLRRNLFYGEITQILGNNDDPLIPWWVTLARHEI-PFEFPDGVEQQAAKLQFDVD---EQAKKYREDLTDL 200
|
170 180 190 200 210 220 230 240
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 631371350 728 TTFTIDPNGSKELDDAIHFKELGDGLIEVGIHVTDVAHFIKANSLVDREAKKRGTGVYLMNRTVDMLPPRLSQEICCLVP 807
Cdd:TIGR00358 201 AFVTIDGADAKDLDDAVYVKKLPDGGWKLYVAIADVSYYVAENSPLDKEAKHRGFSVYLPGFVIPMLPEELSNGLCSLNP 280
|
250 260 270 280 290 300 310 320
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 631371350 808 GEERYTVSVVFKVDaATGRVIDDDtwIGKSVIKSSGKLAYEDVDAVINGQtvSSLGGERS---KQILLLHSITQKLRKAR 884
Cdd:TIGR00358 281 NEDRLVLVCEMTIS-AQGRITDNE--FYPATIESKARLTYDKVNDWLEND--DELQPEYEtlvEQLKALHQLSQALGEWR 355
|
330 340 350 360 370 380 390 400
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 631371350 885 --YGTDEAHVPSLRLLysLDDENVPVEENIFNSSPSHEMIEELSHKTNAVVAKKIHDTLGdRALLRTIAPPKPRRLQTFA 962
Cdd:TIGR00358 356 hkRGLIDFEHPETKFI--VDEEGRVIDIVAEVRRIAEKIIEEAMIVANICAARFLHNHKV-PGIYRVHPGPSKKKLQSLL 432
|
410 420 430 440 450 460 470 480
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 631371350 963 QRMSNIGYE-----IDTSSSSALHNSLFHVEDADIRTGMETLVFKCFNRAKYqvparadNPQDLAHFALNLPLYTHFTNP 1037
Cdd:TIGR00358 433 EFLAELGLTlpggnAENVTTLDGACWLREVKDRPEYEILVTRLLRSLSQAEY-------SPEPLGHFGLGLEHYAHFTSP 505
|
490 500 510 520 530 540 550 560
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 631371350 1038 SRRYADIVVHRQLEAAL-----SEGAIEFNDDVENLhktAEACNVKKDSAHSAQQQSVHIEACRRM-NRVSEEQGGDLIS 1111
Cdd:TIGR00358 506 IRRYPDLTNHRLIKAVLakeqtDTERYQPQDELLQI---AEHCSDTERRARDAERDVADWLKCRYLlDKVGTEFSGEISS 582
|
570 580 590
....*....|....*....|....*....|...
gi 631371350 1112 I---GIVVCVYESAFDVFIP-------EYGFEK 1134
Cdd:TIGR00358 583 VtrfGMFVRLDDNGIDGLIHistlhndYYVFDQ 615
|
|
| Dis3l2_C_term |
pfam17877 |
DIS3-like exonuclease 2 C terminal; This is the C-terminal S1 domain found in Dis3L2 proteins. ... |
1107-1175 |
6.62e-34 |
|
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: 125.45 E-value: 6.62e-34
10 20 30 40 50 60
....*....|....*....|....*....|....*....|....*....|....*....|....*....
gi 631371350 1107 GDLISIGIVVCVYESAFDVFIPEYGFEKRVHCDQLPLKKAEFDKnTRLLELYWEKGVPSSAFVPEDERP 1175
Cdd:pfam17877 1 GPLETEAVVLGVLDSSFDVLIPEYGIEKRVYLDQLPLKKFEFDK-TGVLTLYWKKGVPSSAYVPEDERF 68
|
|
| OB_Dis3 |
pfam17849 |
Dis3-like cold-shock domain 2 (CSD2); This domain has an OB fold and is found in the Dis3l2 ... |
614-689 |
1.60e-33 |
|
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: 123.87 E-value: 1.60e-33
10 20 30 40 50 60 70
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*.
gi 631371350 614 VWFKPTDKRVPLIAIPTEQAPKDFVDNHQKYADQIFVACIKRWPITSLHPFGTLVEQLGQAGELKVETEALLRDNN 689
Cdd:pfam17849 2 VLFVPRDKRIPRIRIPTKSAPEEFLENPEDLEGKLFVVKIDDWPENSRYPLGHIVKVLGEIGDIETETEAILLENG 77
|
|
| PRK05054 |
PRK05054 |
exoribonuclease II; Provisional |
730-1108 |
5.96e-24 |
|
exoribonuclease II; Provisional
Pssm-ID: 179920 [Multi-domain] Cd Length: 644 Bit Score: 108.81 E-value: 5.96e-24
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 631371350 730 FTIDPNGSKELDDAIHFKELGDGLIEVGIHVTDVAHFIKANSLVDREAKKRGTGVYLMNRTVDMLPPRLSQEICCLVPGE 809
Cdd:PRK05054 199 VTIDSASTEDMDDALYVEKLPDGGLQLTVAIADPTAYIAEGSKLDKAARQRAFTNYLPGFNIPMLPRELSDDLCSLRPNE 278
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 631371350 810 ERYTVSVVFKVDaATGRVIDD----DTWigksvIKSSGKLAYEDV-DAVINGQTVSSLGGERSKQILLLHSITQKLRKAR 884
Cdd:PRK05054 279 RRPALACRVTID-ADGTIEDDirffAAW-----IESKAKLAYDNVsDWLENGGDWQPESEAIAEQIRLLHQFCLARSEWR 352
|
170 180 190 200 210 220 230 240
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 631371350 885 ygTDEAHV----PSLRLLYSLDDE--NVPVEENifnsSPSHEMIEELSHKTNAVVAKKIHDTLG----------DRALLR 948
Cdd:PRK05054 353 --KQHALVfkdrPDYRFELGEKGEvlDIVAEPR----RIANRIVEESMIAANICAARVLRDKLGfgiynvhsgfDPANAE 426
|
250 260 270 280 290 300 310 320
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 631371350 949 TIAppkpRRLQTFAQRMS--NI----GY-----EIDTSSSSALhnslfhveDADIRtgmetlvfkcfnraKYQVPARADN 1017
Cdd:PRK05054 427 QAV----ALLKEHGLHFDaeELltleGFcklrrELDAQPTGYL--------DSRIR--------------RFQSFAEIST 480
|
330 340 350 360 370 380 390 400
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 631371350 1018 pQDLAHFALNLPLYTHFTNPSRRYADIVVHRQLEAALS-EGAIEFNDDVenlhktaeacnvkkdsahsaqqqSVHIEACR 1096
Cdd:PRK05054 481 -EPGPHFGLGLEAYATWTSPIRKYGDMINHRLLKAVIKgETAERPQDEI-----------------------TVQLAERR 536
|
410
....*....|..
gi 631371350 1097 RMNRVSEEQGGD 1108
Cdd:PRK05054 537 RLNRMAERDVGD 548
|
|
| PRK11642 |
PRK11642 |
ribonuclease R; |
665-1056 |
2.10e-21 |
|
ribonuclease R;
Pssm-ID: 236944 [Multi-domain] Cd Length: 813 Bit Score: 100.97 E-value: 2.10e-21
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 631371350 665 GTLVEQLGQAGELKVETEALLRDNNFgPDDFSDAVLKNVGHEDWSVAndgEAALEGRRDFRSETTFTIDPNGSKELDDAI 744
Cdd:PRK11642 208 GKIVEVLGDNMGTGMAVDIALRTHEI-PYIWPQAVEQQVAGLKEEVP---EEAKAGRVDLRDLPLVTIDGEDARDFDDAV 283
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 631371350 745 HFKELGDGLIEVGIHVTDVAHFIKANSLVDREAKKRGTGVYLMNRTVDMLPPRLSQEICCLVPGEERYTVSVVFKVdAAT 824
Cdd:PRK11642 284 YCEKKRGGGWRLWVAIADVSYYVRPPTPLDREARNRGTSVYFPSQVVPMLPEVLSNGLCSLNPQVDRLCMVCEMTI-SSK 362
|
170 180 190 200 210 220 230 240
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 631371350 825 GRVIDDDTWigKSVIKSSGKLAYEDVDAVING-QTVSSLGGERSKQILLLHSITQKLRKAR-------YGTDEAhvpslR 896
Cdd:PRK11642 363 GRLTGYKFY--EAVMSSHARLTYTKVWHILQGdQDLREQYAPLVKHLEELHNLYKVLDKAReerggisFESEEA-----K 435
|
250 260 270 280 290 300 310 320
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 631371350 897 LLYSLDDENVPVEENIFNSspSHEMIEELSHKTNAVVAK-----------KIHDTLGDRAL--LRTI-----------AP 952
Cdd:PRK11642 436 FIFNAERRIERIEQTQRND--AHKLIEECMILANISAARfvekakepalfRIHDKPSTEAItsFRSVlaelglelpggNK 513
|
330 340 350 360 370 380 390 400
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 631371350 953 PKPRrlqTFAQRMSNIGYEIDtssssalHNSLfhvedadirtgmETLVFKCFNRAKYqvparadNPQDLAHFALNLPLYT 1032
Cdd:PRK11642 514 PEPR---DYAELLESVADRPD-------AEML------------QTMLLRSMKQAIY-------DPENRGHFGLALQSYA 564
|
410 420
....*....|....*....|....
gi 631371350 1033 HFTNPSRRYADIVVHRQLEAALSE 1056
Cdd:PRK11642 565 HFTSPIRRYPDLSLHRAIKYLLAK 588
|
|
| Rrp44_CSD1 |
pfam17216 |
Rrp44-like cold shock domain; |
401-527 |
8.51e-04 |
|
Rrp44-like cold shock domain;
Pssm-ID: 375054 Cd Length: 148 Bit Score: 41.29 E-value: 8.51e-04
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 631371350 401 FTPYLPQATLPALLADGQLVAGTLRVNKKNRSDAYVTTLDLDADIFICGSKDRNRALEGDYVAVELLDVDEvWGQKREKE 480
Cdd:pfam17216 4 FPEYYSTARVMGGLKNGVLYQGNIQISEYNFLEGSVSLPRFSKPVLIVGQKNLNRAFNGDQVIVELLPQSE-WKAPSSIV 82
|
90 100 110 120 130 140
....*....|....*....|....*....|....*....|....*....|....*....|
gi 631371350 481 EKKKRKDVTD-------------QRSGSVTAVNDatTQPESAADGGLRRRGSLKQRPTQK 527
Cdd:pfam17216 83 LDSEHFDVNDnpdieagddddnnESSSNTTVISD--KQRRLLAKDAMIAQRSKKIQPTAK 140
|
|
| Med15 |
pfam09606 |
ARC105 or Med15 subunit of Mediator complex non-fungal; The approx. 70 residue Med15 domain of ... |
169-348 |
2.08e-03 |
|
ARC105 or Med15 subunit of Mediator complex non-fungal; The approx. 70 residue Med15 domain of the ARC-Mediator co-activator is a three-helix bundle with marked similarity to the KIX domain. The sterol regulatory element binding protein (SREBP) family of transcription activators use the ARC105 subunit to activate target genes in the regulation of cholesterol and fatty acid homeostasis. In addition, Med15 is a critical transducer of gene activation signals that control early metazoan development.
Pssm-ID: 312941 [Multi-domain] Cd Length: 732 Bit Score: 42.69 E-value: 2.08e-03
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 631371350 169 TSGFQFPLPGASGSSPSAKDRSDSPGNGETTQTPSSTTRGGMAGGRGHGRSQSMAVGGRGMAQSSRGGPQGFQFPPPQAS 248
Cdd:pfam09606 127 LGRPQMPMGGAGFPSQMSRVGRMQPGGQAGGMMQPSSGQPGSGTPNQMGPNGGPGQGQAGGMNGGQQGPMGGQMPPQMGV 206
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 631371350 249 DGGNtselGRRNSQGHGRsasrNFEGNWRNPNNNQAAdsQGSNmgNFQMNQQATAQpfQPGHRQRQSINNQsissiqnFQ 328
Cdd:pfam09606 207 PGMP----GPADAGAQMG----QQAQANGGMNPQQMG--GAPN--QVAMQQQQPQQ--QGQQSQLGMGINQ-------MQ 265
|
170 180
....*....|....*....|....*.
gi 631371350 329 QYAQPQLVQLPQG------QVLVQQP 348
Cdd:pfam09606 266 QMPQGVGGGAGQGgpgqpmGPPGQQP 291
|
|
| |
