Psyllid ID: psy8410
Local Sequence Feature Prediction
| Prediction and (Method) | Result |
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Close Homologs for Annotation Transfer
Close Homologs in SWISS-PROT Database Detected by BLAST 
Original result of BLAST against SWISS-PROT Database
| ID | Alignment graph | Length |
Definition |
RBH(Q2H) |
RBH(H2Q) |
Q cover |
H cover |
Identity |
E-value |
| Query | 951 | 2.2.26 [Sep-21-2011] | |||||||
| P20028 | 1129 | DNA-directed RNA polymera | yes | N/A | 0.905 | 0.762 | 0.441 | 0.0 | |
| Q9H9Y6 | 1135 | DNA-directed RNA polymera | yes | N/A | 0.912 | 0.764 | 0.416 | 0.0 | |
| P70700 | 1135 | DNA-directed RNA polymera | yes | N/A | 0.912 | 0.764 | 0.417 | 0.0 | |
| Q5REE8 | 1136 | DNA-directed RNA polymera | yes | N/A | 0.912 | 0.764 | 0.411 | 0.0 | |
| O54888 | 1135 | DNA-directed RNA polymera | yes | N/A | 0.907 | 0.760 | 0.383 | 1e-179 | |
| Q9P7X8 | 1174 | Probable DNA-directed RNA | yes | N/A | 0.899 | 0.728 | 0.382 | 1e-178 | |
| P22138 | 1203 | DNA-directed RNA polymera | yes | N/A | 0.896 | 0.709 | 0.377 | 1e-171 | |
| Q54BM1 | 1130 | DNA-directed RNA polymera | yes | N/A | 0.890 | 0.749 | 0.367 | 1e-171 | |
| Q75DS1 | 1196 | DNA-directed RNA polymera | yes | N/A | 0.898 | 0.714 | 0.370 | 1e-167 | |
| O74633 | 1234 | DNA-directed RNA polymera | N/A | N/A | 0.901 | 0.694 | 0.36 | 1e-163 |
| >sp|P20028|RPA2_DROME DNA-directed RNA polymerase I subunit RPA2 OS=Drosophila melanogaster GN=RpI135 PE=2 SV=2 | Back alignment and function desciption |
|---|
Score = 806 bits (2083), Expect = 0.0, Method: Compositional matrix adjust.
Identities = 427/968 (44%), Positives = 582/968 (60%), Gaps = 107/968 (11%)
Query: 38 QNTLSAPSLKNLTDKNFGKPPDKQNEFLLTLGAPHIASFDFMLDEGLDLAVEDIAPIEF- 96
Q + P L N + F + P K + L LG PH+ SFD ML GLD + + + P +
Sbjct: 6 QQMKTIPVLTN-SRPEFKQIPKKLSRHLANLGGPHVDSFDEMLTVGLDNSAKHMIPNHWL 64
Query: 97 EIYGKTLKLNIVKAAISEPKVPAGPVGIHFNKYYPTEARQTRSVYSGPFNVTVAWSWDGK 156
G+ + + + I++PKVP + + + YPT++RQ YSG +V + WS +G
Sbjct: 65 SPAGEKISMKVESIWIAKPKVPQDVIDVRTREIYPTDSRQLHVSYSGMCSVRLGWSVNGV 124
Query: 157 AGGTFTKEVGRVPIMLKSKRCHLRNLTPAQLIERGEHPDEWGGYFIVGGHEKLVRLLINN 216
++G VPIML+SK C+L TP ++++ GEH EWGG F++ G+EK+VR+LI
Sbjct: 125 QKTPINMDLGEVPIMLRSKACNLGQATPEEMVKHGEHDSEWGGIFVIRGNEKIVRMLIMT 184
Query: 217 RRNHPIAIKRNAWKNRGLLFSDLGVYIRSVKRDESATNNVLHFVTNGSARFMFSHRKSM- 275
RRNHPI +KR++WK+RG FSDLG+ +++V+ DES+ +NV+H++ NG+A+FMFSH K +
Sbjct: 185 RRNHPICVKRSSWKDRGQNFSDLGMLVQTVREDESSLSNVVHYLNNGTAKFMFSHVKRLS 244
Query: 276 -----------------------------------CLLGMMQSLHEEGIHTQHDSKVFFG 300
C+ M++ + E ++T K F G
Sbjct: 245 YVPVCLILKCLMDYTDEEIYNRLVQGYESDQYYVSCVQAMLREVQNENVYTHAQCKSFIG 304
Query: 301 QIFKEKLQYDLRHLNEVEICDYMLTNCILPHLDDYWDKFLCLSHMTCKLFHVVQGMVQLD 360
+F+ + + ++ D++L ++ HLD Y DKF + M KLF QG +++
Sbjct: 305 NLFRARFPEVPEWQPDDDVTDFILRERVMIHLDTYEDKFQLIVFMIQKLFQCAQGKYKVE 364
Query: 361 SEDSIMLQEIMTGGSLYLQ---------------LLKKEKSGTSAVLKESDIYAAFR-AS 404
+ DS M+QE++ G LY + L+K+ + A++ + + R A
Sbjct: 365 NVDSAMMQEVLLPGHLYQKYLSERVESWVSQVRRCLQKKLTSPDALVTSAVMTQCMRQAG 424
Query: 405 SIESAMTNFLATGNVSAGKNSTLQLMQASGFVIMAENINRMRYMSHFRAVHRGSYFQEMR 464
+ A+ +FLATGN+++ + L LMQ SG VIMAENINRMRYMSHFRA+HRGSYF MR
Sbjct: 425 GVGRAIESFLATGNIAS--RTGLGLMQNSGLVIMAENINRMRYMSHFRAIHRGSYFTTMR 482
Query: 465 SSEPRQLRTDAWGFICPVHTPDGTPCGLLNHLTTNCQISEYIPSKVLAQIPSVLVSLGML 524
++E RQL DAWGFICPVHTPDGTPCGLLNHLT C+IS K++ IP L+ +GM+
Sbjct: 483 TTEARQLLPDAWGFICPVHTPDGTPCGLLNHLTLTCEISMRPDPKLVKAIPKHLIDMGMM 542
Query: 525 PLTPVIQSIPEQALMVMLDGRIVGYILDQIATSLVPKLRMLKIVGEKIPKSLEIVYLKRP 584
PL+ + + E+ +V LDG+ +G+I A +V +LR KI G +P+ +EI ++ P
Sbjct: 543 PLSNR-RYLGEKLYVVFLDGKHLGHIHQSEAEKIVDELRYGKIFG-TLPQMMEIGFI--P 598
Query: 585 EKGMGLYPGLYLFTGPGRMLRPVMNLAAGNIEWIGTFEQVFMDICITMKEAYPGITTHRE 644
K G +PGLY+ TGP RM+RPV NL +E+IGT EQ++M+I I KE YP TTH E
Sbjct: 599 FKKNGQFPGLYIATGPARMMRPVWNLKWKRVEYIGTLEQLYMEIAIDAKEMYPDFTTHLE 658
Query: 645 LSKTDFLSNLANLIPMPDCNQSPRNMYQCQMGKQTMGTPCLNWRYQGVGKLYRLQTPASP 704
L+KT F+SNLANLIPMPD NQSPRNMYQCQMGKQTMGTPCLNW Q KLYRLQTP +P
Sbjct: 659 LAKTHFMSNLANLIPMPDYNQSPRNMYQCQMGKQTMGTPCLNWPKQAANKLYRLQTPGTP 718
Query: 705 FFRPVHYDTLDMDNFPMGTNAIVAVISYTGYDMEDAMILNKSSYERGFAHGCIFKSMFIE 764
FRPVHYD + +D+F MGTNAIVAVISYTGYDMEDAMI+NK++YERGFA+G I+K+ F+
Sbjct: 719 LFRPVHYDNIQLDDFAMGTNAIVAVISYTGYDMEDAMIINKAAYERGFAYGSIYKTKFLT 778
Query: 765 LESGYNYYGTETMYSGVDGSMMQAQIFFGVVHYQRLRHMVSDKWQTKDYFGRDPANKALE 824
L+ + YF R P L
Sbjct: 779 LD------------------------------------------KKSSYFARHPHMPELI 796
Query: 825 DKLGPDGLVYVGAKLNERDPMYSYWKESENRYVTCRYSGKEEMCVEVVRMSSGFTEGGSV 884
L DGL + G+KL+ P+Y Y+ Y + KE+ VE +R F +
Sbjct: 797 KHLDTDGLPHPGSKLSYGSPLYCYFDGEVATYKVVKMDEKEDCIVESIRQLGSF----DL 852
Query: 885 TP-NCAYIGYRIQRNPTVGDKFASRAGQKGICSVKWPAEDLPFTDSGLVPDIVFNPHGFP 943
+P I R+ R T+GDKFASRAGQKGICS K+PAEDLPFT+SGL+PDIVFNPHGFP
Sbjct: 853 SPKKMVAITLRVPRPATIGDKFASRAGQKGICSQKYPAEDLPFTESGLIPDIVFNPHGFP 912
Query: 944 SRMTIGFL 951
SRMTI +
Sbjct: 913 SRMTIAMM 920
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DNA-dependent RNA polymerase catalyzes the transcription of DNA into RNA using the four ribonucleoside triphosphates as substrates. Second largest core component of RNA polymerase I which synthesizes ribosomal RNA precursors. Proposed to contribute to the polymerase catalytic activity and forms the polymerase active center together with the largest subunit. Pol I is composed of mobile elements and RPA2 is part of the core element with the central large cleft and probably a clamp element that moves to open and close the cleft. Drosophila melanogaster (taxid: 7227) EC: 2EC: .EC: 7EC: .EC: 7EC: .EC: 6 |
| >sp|Q9H9Y6|RPA2_HUMAN DNA-directed RNA polymerase I subunit RPA2 OS=Homo sapiens GN=POLR1B PE=1 SV=2 | Back alignment and function description |
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| >sp|P70700|RPA2_MOUSE DNA-directed RNA polymerase I subunit RPA2 OS=Mus musculus GN=Polr1b PE=2 SV=2 | Back alignment and function description |
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| >sp|Q5REE8|RPA2_PONAB DNA-directed RNA polymerase I subunit RPA2 OS=Pongo abelii GN=POLR1B PE=2 SV=1 | Back alignment and function description |
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| >sp|O54888|RPA2_RAT DNA-directed RNA polymerase I subunit RPA2 OS=Rattus norvegicus GN=Polr1b PE=1 SV=1 | Back alignment and function description |
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| >sp|Q9P7X8|RPA2_SCHPO Probable DNA-directed RNA polymerase I subunit RPA2 OS=Schizosaccharomyces pombe (strain 972 / ATCC 24843) GN=rpa2 PE=3 SV=2 | Back alignment and function description |
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| >sp|P22138|RPA2_YEAST DNA-directed RNA polymerase I subunit RPA135 OS=Saccharomyces cerevisiae (strain ATCC 204508 / S288c) GN=RPA135 PE=1 SV=1 | Back alignment and function description |
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| >sp|Q54BM1|RPA2_DICDI DNA-directed RNA polymerase I subunit rpa2 OS=Dictyostelium discoideum GN=polr1b PE=3 SV=1 | Back alignment and function description |
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| >sp|Q75DS1|RPA2_ASHGO DNA-directed RNA polymerase I subunit RPA2 OS=Ashbya gossypii (strain ATCC 10895 / CBS 109.51 / FGSC 9923 / NRRL Y-1056) GN=RPA2 PE=3 SV=2 | Back alignment and function description |
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| >sp|O74633|RPA2_NEUCR DNA-directed RNA polymerase I subunit RPA2 OS=Neurospora crassa (strain ATCC 24698 / 74-OR23-1A / CBS 708.71 / DSM 1257 / FGSC 987) GN=acr-2 PE=1 SV=2 | Back alignment and function description |
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Close Homologs in the Non-Redundant Database Detected by BLAST
Original result of BLAST against Nonredundant Database
| GI | Alignment Graph | Length |
Definition |
Q cover |
H cover |
Identity |
E-value |
| Query | 951 | ||||||
| 345484997 | 1122 | PREDICTED: DNA-directed RNA polymerase I | 0.902 | 0.764 | 0.486 | 0.0 | |
| 383852408 | 1122 | PREDICTED: DNA-directed RNA polymerase I | 0.903 | 0.765 | 0.478 | 0.0 | |
| 328792060 | 1122 | PREDICTED: DNA-directed RNA polymerase I | 0.903 | 0.765 | 0.483 | 0.0 | |
| 340712517 | 1122 | PREDICTED: DNA-directed RNA polymerase I | 0.902 | 0.764 | 0.475 | 0.0 | |
| 350399850 | 1122 | PREDICTED: DNA-directed RNA polymerase I | 0.903 | 0.765 | 0.475 | 0.0 | |
| 380016936 | 1122 | PREDICTED: DNA-directed RNA polymerase I | 0.903 | 0.765 | 0.475 | 0.0 | |
| 307213328 | 1119 | DNA-directed RNA polymerase I subunit RP | 0.903 | 0.767 | 0.481 | 0.0 | |
| 328704219 | 1121 | PREDICTED: DNA-directed RNA polymerase I | 0.905 | 0.768 | 0.486 | 0.0 | |
| 403182650 | 1129 | AAEL017010-PA [Aedes aegypti] | 0.899 | 0.757 | 0.484 | 0.0 | |
| 170032393 | 1129 | DNA-directed RNA polymerase I 135 kDa po | 0.901 | 0.759 | 0.481 | 0.0 |
| >gi|345484997|ref|XP_001606574.2| PREDICTED: DNA-directed RNA polymerase I subunit RPA2 [Nasonia vitripennis] | Back alignment and taxonomy information |
|---|
Score = 928 bits (2398), Expect = 0.0, Method: Compositional matrix adjust.
Identities = 470/967 (48%), Positives = 619/967 (64%), Gaps = 109/967 (11%)
Query: 41 LSAPSLKNLTDKNFGKPPDKQNEFLLTLGAPHIASFDFMLDEGLDLAVEDIAPIEFEIY- 99
L P L N T +FG+P KQN L LGAPHI SF++ L +GL A++++ P+ +
Sbjct: 2 LIEPKLTN-TAPDFGQPAAKQNPLLQRLGAPHIDSFNYALGQGLTEAIDNLLPVYLTLAS 60
Query: 100 GKTLKLNIVKAAISEPKVPAGPVGIHFNKYYPTEARQTRSVYSGPFNVTVAWSWDGKAGG 159
G ++L I I+ P VP+G +G+ +K YPTE RQ + Y G N + WS +G+
Sbjct: 61 GDRIELRIEDVTINHPTVPSGTIGVKNHKIYPTECRQRAATYKGKINAKIGWSINGRKQE 120
Query: 160 TFTKEVGRVPIMLKSKRCHLRNLTPAQLIERGEHPDEWGGYFIVGGHEKLVRLLINNRRN 219
T + +G VPIM+KS +CHL N+ PAQL+ EH EWGGYFI+ GHE+L+R+L+ RRN
Sbjct: 121 TVERSLGEVPIMVKSNKCHLNNMKPAQLVAVKEHEQEWGGYFIIKGHERLIRMLLMTRRN 180
Query: 220 HPIAIKRNAWKNRGLLFSDLGVYIRSVKRDESATNNVLHFVTNGSARFMFSHRKSM---- 275
+PIAIKR+ WK RG FSDLG+ +R V+ D +ATNN LH+VT+GSA+ MF+HRK +
Sbjct: 181 YPIAIKRSGWKQRGDQFSDLGILLRCVRDDNTATNNSLHYVTDGSAKLMFTHRKVLYYVP 240
Query: 276 --------------------------------CLLGMMQSLHEEGIHTQHDSKVFFGQIF 303
C+L MM+++HE+ +H+ K + G++F
Sbjct: 241 LILMLKCLMNVSDKYIYNALTAGCDDDVYYKNCVLNMMRTVHEKDLHSHEQCKAYIGKMF 300
Query: 304 KEKLQYDLRHLNEVEICDYMLTNCILPHLDDYWDKFLCLSHMTCKLFHVVQGMVQLDSED 363
+ K + ++E+CD+++ CI HLDD DKF L MT KLF + ++ D
Sbjct: 301 RIKFYELPVNATDIEVCDFIIKYCIAIHLDDPADKFHLLCFMTKKLFALADNKCAVEGAD 360
Query: 364 SIMLQEIMTGGSLYLQLLKKE-----------------KSGTSAVLKESDIYAAFRA-SS 405
++M+QE + GG LYLQ++K++ G + L ++ A ++ +
Sbjct: 361 AVMVQECLLGGHLYLQVIKEKLYSWLMGLRSVIVRRAKNVGNNFTLNVQEMLNALKSCGT 420
Query: 406 IESAMTNFLATGNVSAGKNSTLQLMQASGFVIMAENINRMRYMSHFRAVHRGSYFQEMRS 465
+S M NFLATGNV + + L LMQ++G I+AENINRMRYMSHFRA+HRGS+FQEMR+
Sbjct: 421 FDSQMENFLATGNVRS--QTGLGLMQSTGLSIVAENINRMRYMSHFRAIHRGSFFQEMRT 478
Query: 466 SEPRQLRTDAWGFICPVHTPDGTPCGLLNHLTTNCQISEYIPSKVLAQIPSVLVSLGMLP 525
+E RQL DAWGFICPVHTPDG PCGLLNHLT NC ++++ K+ IP++L+ LGMLP
Sbjct: 479 TEARQLLPDAWGFICPVHTPDGAPCGLLNHLTMNCIVTKHPDPKLKNAIPTILLDLGMLP 538
Query: 526 LTPVIQSIPEQALMVMLDGRIVGYILDQIATSLVPKLRMLKIVGEKIPKSLEIVYLKRPE 585
++ I + + V+LDGR++G I D I +V KLR+LKI EK+P ++EIV + P+
Sbjct: 539 MS--IADDWKNSYTVVLDGRVIGLIEDNIVGRVVDKLRVLKI-NEKVPPTMEIVLV--PK 593
Query: 586 KGM-GLYPGLYLFTGPGRMLRPVMNLAAGNIEWIGTFEQVFMDICITMKEAYPGITTHRE 644
K + YPG++LFTGP RM+RPV NL+ E IGTFEQV+++IC+T +EA G+TTH+E
Sbjct: 594 KNVPSQYPGVFLFTGPTRMMRPVKNLSVNKTELIGTFEQVYLNICVTAEEADEGLTTHQE 653
Query: 645 LSKTDFLSNLANLIPMPDCNQSPRNMYQCQMGKQTMGTPCLNWRYQGVGKLYRLQTPASP 704
LSKT FLSNLA LIPMPDCNQSPRNMYQCQMGKQTMGTPCL W+ Q KLYRLQTP++P
Sbjct: 654 LSKTTFLSNLACLIPMPDCNQSPRNMYQCQMGKQTMGTPCLTWQQQAETKLYRLQTPSTP 713
Query: 705 FFRPVHYDTLDMDNFPMGTNAIVAVISYTGYDMEDAMILNKSSYERGFAHGCIFKSMFIE 764
FRPVH+D +++D F MGTNAIVAVISYTGYDMEDAMI+NKS+YERGFAHG I+KS FIE
Sbjct: 714 LFRPVHHDNINLDEFAMGTNAIVAVISYTGYDMEDAMIINKSAYERGFAHGMIYKSEFIE 773
Query: 765 LESGYNYYGTETMYSGVDGSMMQAQIFFGVVHYQRLRHMVSDKWQTKDYFGRDPANKALE 824
L+ + DYF RDP L
Sbjct: 774 LK------------------------------------------EQSDYFARDPNRADLV 791
Query: 825 DKLGPDGLVYVGAKLNERDPMYSYWKESENRYVTCRYSGKEEMCVEVVRMSSGFTEGGSV 884
DKL DGL G L E DP YSY++ ++ +Y GKE V+ +++ S
Sbjct: 792 DKLDSDGLPNPGTILQEGDPYYSYYQVDHKTFLIGKYKGKEAAFVDNIKLCGSLQ---SS 848
Query: 885 TPNCAYIGYRIQRNPTVGDKFASRAGQKGICSVKWPAEDLPFTDSGLVPDIVFNPHGFPS 944
T I RI RNP+VGDKFASRAGQKGICS KWPAEDLPFT++GL+PDIVFNPHGFPS
Sbjct: 849 TKGKVCITLRISRNPSVGDKFASRAGQKGICSQKWPAEDLPFTETGLIPDIVFNPHGFPS 908
Query: 945 RMTIGFL 951
RMTI +
Sbjct: 909 RMTIAMM 915
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Source: Nasonia vitripennis Species: Nasonia vitripennis Genus: Nasonia Family: Pteromalidae Order: Hymenoptera Class: Insecta Phylum: Arthropoda Superkingdom: Eukaryota |
| >gi|383852408|ref|XP_003701720.1| PREDICTED: DNA-directed RNA polymerase I subunit RPA2-like [Megachile rotundata] | Back alignment and taxonomy information |
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| >gi|328792060|ref|XP_001120416.2| PREDICTED: DNA-directed RNA polymerase I subunit RPA2 [Apis mellifera] | Back alignment and taxonomy information |
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| >gi|340712517|ref|XP_003394805.1| PREDICTED: DNA-directed RNA polymerase I subunit RPA2-like [Bombus terrestris] | Back alignment and taxonomy information |
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| >gi|350399850|ref|XP_003485659.1| PREDICTED: DNA-directed RNA polymerase I subunit RPA2-like [Bombus impatiens] | Back alignment and taxonomy information |
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| >gi|380016936|ref|XP_003692423.1| PREDICTED: DNA-directed RNA polymerase I subunit RPA2-like [Apis florea] | Back alignment and taxonomy information |
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| >gi|307213328|gb|EFN88780.1| DNA-directed RNA polymerase I subunit RPA2 [Harpegnathos saltator] | Back alignment and taxonomy information |
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| >gi|328704219|ref|XP_001948731.2| PREDICTED: DNA-directed RNA polymerase I subunit RPA2-like [Acyrthosiphon pisum] | Back alignment and taxonomy information |
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| >gi|403182650|gb|EJY57536.1| AAEL017010-PA [Aedes aegypti] | Back alignment and taxonomy information |
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| >gi|170032393|ref|XP_001844066.1| DNA-directed RNA polymerase I 135 kDa polypeptide [Culex quinquefasciatus] gi|167872352|gb|EDS35735.1| DNA-directed RNA polymerase I 135 kDa polypeptide [Culex quinquefasciatus] | Back alignment and taxonomy information |
|---|
Prediction of Gene Ontology (GO) Terms
Close Homologs with Gene Ontology terms Detected by BLAST
Original result of BLAST against Gene Ontology (AMIGO)
| ID |
Alignment graph |
Length |
Definition |
Q cover |
H cover |
Identity |
E-value |
| Query | 951 | ||||||
| FB|FBgn0003278 | 1129 | RpI135 "RNA polymerase I 135kD | 0.516 | 0.434 | 0.508 | 1e-218 | |
| MGI|MGI:108014 | 1135 | Polr1b "polymerase (RNA) I pol | 0.525 | 0.440 | 0.446 | 6.5e-194 | |
| UNIPROTKB|F5GZX4 | 1173 | POLR1B "DNA-directed RNA polym | 0.519 | 0.421 | 0.436 | 8.3e-194 | |
| UNIPROTKB|Q9H9Y6 | 1135 | POLR1B "DNA-directed RNA polym | 0.519 | 0.435 | 0.436 | 8.3e-194 | |
| UNIPROTKB|F1SUA2 | 1172 | POLR1B "DNA-directed RNA polym | 0.519 | 0.421 | 0.440 | 2.2e-191 | |
| UNIPROTKB|A6QLS0 | 1135 | POLR1B "DNA-directed RNA polym | 0.520 | 0.436 | 0.439 | 2.8e-191 | |
| UNIPROTKB|E2REX8 | 1135 | POLR1B "DNA-directed RNA polym | 0.520 | 0.436 | 0.437 | 3.6e-191 | |
| ZFIN|ZDB-GENE-040426-1598 | 1132 | polr1b "polymerase (RNA) I pol | 0.528 | 0.444 | 0.422 | 1.9e-179 | |
| UNIPROTKB|F1NLV9 | 1016 | F1NLV9 "DNA-directed RNA polym | 0.521 | 0.488 | 0.424 | 3.2e-169 | |
| CGD|CAL0002109 | 1166 | RPA135 [Candida albicans (taxi | 0.501 | 0.409 | 0.407 | 6.6e-167 |
| FB|FBgn0003278 RpI135 "RNA polymerase I 135kD subunit" [Drosophila melanogaster (taxid:7227)] | Back alignment and assigned GO terms |
|---|
Score = 1295 (460.9 bits), Expect = 1.0e-218, Sum P(3) = 1.0e-218
Identities = 261/513 (50%), Positives = 347/513 (67%)
Query: 276 CLLGMMQSLHEEGIHTQHDSKVFFGQIFKEKLQYDLRHLNEVEICDYMLTNCILPHLDDY 335
C+ M++ + E ++T K F G +F+ + + ++ D++L ++ HLD Y
Sbjct: 280 CVQAMLREVQNENVYTHAQCKSFIGNLFRARFPEVPEWQPDDDVTDFILRERVMIHLDTY 339
Query: 336 WDKFLCLSHMTCKLFHVVQGMVQLDSEDSIMLQEIMTGGSLYLQLLKK------------ 383
DKF + M KLF QG ++++ DS M+QE++ G LY + L +
Sbjct: 340 EDKFQLIVFMIQKLFQCAQGKYKVENVDSAMMQEVLLPGHLYQKYLSERVESWVSQVRRC 399
Query: 384 -EKSGTS--AVLKESDIYAAFR-ASSIESAMTNFLATGNVSAGKNSTLQLMQASGFVIMA 439
+K TS A++ + + R A + A+ +FLATGN+++ + L LMQ SG VIMA
Sbjct: 400 LQKKLTSPDALVTSAVMTQCMRQAGGVGRAIESFLATGNIAS--RTGLGLMQNSGLVIMA 457
Query: 440 ENINRMRYMSHFRAVHRGSYFQEMRSSEPRQLRTDAWGFICPVHTPDGTPCGLLNHLTTN 499
ENINRMRYMSHFRA+HRGSYF MR++E RQL DAWGFICPVHTPDGTPCGLLNHLT
Sbjct: 458 ENINRMRYMSHFRAIHRGSYFTTMRTTEARQLLPDAWGFICPVHTPDGTPCGLLNHLTLT 517
Query: 500 CQISEYIPSKVLAQIPSVLVSLGMLPLTPVIQSIPEQALMVMLDGRIVGYILDQIATSLV 559
C+IS K++ IP L+ +GM+PL+ + + E+ +V LDG+ +G+I A +V
Sbjct: 518 CEISMRPDPKLVKAIPKHLIDMGMMPLSNR-RYLGEKLYVVFLDGKHLGHIHQSEAEKIV 576
Query: 560 PKLRMLKIVGEKIPKSLEIVYLKRPEKGMGLYPGLYLFTGPGRMLRPVMNLAAGNIEWIG 619
+LR KI G +P+ +EI ++ P K G +PGLY+ TGP RM+RPV NL +E+IG
Sbjct: 577 DELRYGKIFGT-LPQMMEIGFI--PFKKNGQFPGLYIATGPARMMRPVWNLKWKRVEYIG 633
Query: 620 TFEQVFMDICITMKEAYPGITTHRELSKTDFLSNLANLIPMPDCNQSPRNMYQCQMGKQT 679
T EQ++M+I I KE YP TTH EL+KT F+SNLANLIPMPD NQSPRNMYQCQMGKQT
Sbjct: 634 TLEQLYMEIAIDAKEMYPDFTTHLELAKTHFMSNLANLIPMPDYNQSPRNMYQCQMGKQT 693
Query: 680 MGTPCLNWRYQGVGKLYRLQTPASPFFRPVHYDTLDMDNFPMGTNAIVAVISYTGYDMED 739
MGTPCLNW Q KLYRLQTP +P FRPVHYD + +D+F MGTNAIVAVISYTGYDMED
Sbjct: 694 MGTPCLNWPKQAANKLYRLQTPGTPLFRPVHYDNIQLDDFAMGTNAIVAVISYTGYDMED 753
Query: 740 AMILNKSSYERGFAHGCIFKSMFIELESGYNYY 772
AMI+NK++YERGFA+G I+K+ F+ L+ +Y+
Sbjct: 754 AMIINKAAYERGFAYGSIYKTKFLTLDKKSSYF 786
|
|
| MGI|MGI:108014 Polr1b "polymerase (RNA) I polypeptide B" [Mus musculus (taxid:10090)] | Back alignment and assigned GO terms |
|---|
| UNIPROTKB|F5GZX4 POLR1B "DNA-directed RNA polymerase" [Homo sapiens (taxid:9606)] | Back alignment and assigned GO terms |
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| UNIPROTKB|Q9H9Y6 POLR1B "DNA-directed RNA polymerase I subunit RPA2" [Homo sapiens (taxid:9606)] | Back alignment and assigned GO terms |
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| UNIPROTKB|F1SUA2 POLR1B "DNA-directed RNA polymerase" [Sus scrofa (taxid:9823)] | Back alignment and assigned GO terms |
|---|
| UNIPROTKB|A6QLS0 POLR1B "DNA-directed RNA polymerase" [Bos taurus (taxid:9913)] | Back alignment and assigned GO terms |
|---|
| UNIPROTKB|E2REX8 POLR1B "DNA-directed RNA polymerase" [Canis lupus familiaris (taxid:9615)] | Back alignment and assigned GO terms |
|---|
| ZFIN|ZDB-GENE-040426-1598 polr1b "polymerase (RNA) I polypeptide B" [Danio rerio (taxid:7955)] | Back alignment and assigned GO terms |
|---|
| UNIPROTKB|F1NLV9 F1NLV9 "DNA-directed RNA polymerase" [Gallus gallus (taxid:9031)] | Back alignment and assigned GO terms |
|---|
| CGD|CAL0002109 RPA135 [Candida albicans (taxid:5476)] | Back alignment and assigned GO terms |
|---|
Prediction of Enzyme Commission (EC) Number
EC Number Prediction by Annotation Transfer from SWISS-PROT Entries
Original result of BLAST against SWISS-PROT
| ID | Name | Annotated EC number | Identity | Query coverage | Hit coverage | RBH(Q2H) | RBH(H2Q) |
| Q5REE8 | RPA2_PONAB | 2, ., 7, ., 7, ., 6 | 0.4111 | 0.9127 | 0.7640 | yes | N/A |
| P22138 | RPA2_YEAST | 2, ., 7, ., 7, ., 6 | 0.3777 | 0.8969 | 0.7090 | yes | N/A |
| O54888 | RPA2_RAT | 2, ., 7, ., 7, ., 6 | 0.3833 | 0.9074 | 0.7603 | yes | N/A |
| Q9H9Y6 | RPA2_HUMAN | 2, ., 7, ., 7, ., 6 | 0.4163 | 0.9127 | 0.7647 | yes | N/A |
| Q9P7X8 | RPA2_SCHPO | 2, ., 7, ., 7, ., 6 | 0.3823 | 0.8990 | 0.7282 | yes | N/A |
| P70700 | RPA2_MOUSE | 2, ., 7, ., 7, ., 6 | 0.4173 | 0.9127 | 0.7647 | yes | N/A |
| Q54BM1 | RPA2_DICDI | 2, ., 7, ., 7, ., 6 | 0.3676 | 0.8906 | 0.7495 | yes | N/A |
| Q75DS1 | RPA2_ASHGO | 2, ., 7, ., 7, ., 6 | 0.3702 | 0.8980 | 0.7140 | yes | N/A |
| P20028 | RPA2_DROME | 2, ., 7, ., 7, ., 6 | 0.4411 | 0.9053 | 0.7626 | yes | N/A |
EC Number Prediction by EFICAz Software
| Prediction Level | EC number | Confidence of Prediction |
| 3rd Layer | 2.7.7 | 0.766 |
| 4th Layer | 2.7.7.6 | 0.824 |
Prediction of Functionally Associated Proteins
Conserved Domains and Related Protein Families
Conserved Domains Detected by RPS-BLAST
Original result of RPS-BLAST against CDD database
| ID | Alignment Graph | Length |
Definition |
E-value |
| Query | 951 | |||
| COG0085 | 1060 | COG0085, RpoB, DNA-directed RNA polymerase, beta s | 1e-106 | |
| cd00653 | 866 | cd00653, RNA_pol_B_RPB2, RNA polymerase beta subun | 4e-95 | |
| cd00653 | 866 | cd00653, RNA_pol_B_RPB2, RNA polymerase beta subun | 2e-77 | |
| pfam00562 | 373 | pfam00562, RNA_pol_Rpb2_6, RNA polymerase Rpb2, do | 4e-77 | |
| PRK08565 | 1103 | PRK08565, PRK08565, DNA-directed RNA polymerase su | 1e-71 | |
| TIGR03670 | 599 | TIGR03670, rpoB_arch, DNA-directed RNA polymerase | 1e-57 | |
| PRK07225 | 605 | PRK07225, PRK07225, DNA-directed RNA polymerase su | 4e-52 | |
| pfam04563 | 394 | pfam04563, RNA_pol_Rpb2_1, RNA polymerase beta sub | 5e-42 | |
| PRK09606 | 494 | PRK09606, PRK09606, DNA-directed RNA polymerase su | 2e-32 | |
| pfam04565 | 68 | pfam04565, RNA_pol_Rpb2_3, RNA polymerase Rpb2, do | 3e-24 | |
| PRK08565 | 1103 | PRK08565, PRK08565, DNA-directed RNA polymerase su | 3e-20 | |
| cd00653 | 866 | cd00653, RNA_pol_B_RPB2, RNA polymerase beta subun | 7e-18 | |
| pfam00562 | 373 | pfam00562, RNA_pol_Rpb2_6, RNA polymerase Rpb2, do | 2e-15 | |
| pfam06883 | 58 | pfam06883, RNA_pol_Rpa2_4, RNA polymerase I, Rpa2 | 5e-14 | |
| COG0085 | 1060 | COG0085, RpoB, DNA-directed RNA polymerase, beta s | 2e-12 | |
| PRK08565 | 1103 | PRK08565, PRK08565, DNA-directed RNA polymerase su | 3e-12 | |
| TIGR02013 | 1065 | TIGR02013, rpoB, DNA-directed RNA polymerase, beta | 1e-11 | |
| CHL00207 | 1077 | CHL00207, rpoB, RNA polymerase beta subunit; Provi | 3e-11 | |
| TIGR03670 | 599 | TIGR03670, rpoB_arch, DNA-directed RNA polymerase | 1e-10 | |
| PRK00405 | 1112 | PRK00405, rpoB, DNA-directed RNA polymerase subuni | 2e-10 | |
| PRK07225 | 605 | PRK07225, PRK07225, DNA-directed RNA polymerase su | 5e-10 | |
| PRK09603 | 2890 | PRK09603, PRK09603, bifunctional DNA-directed RNA | 2e-09 | |
| CHL00001 | 1070 | CHL00001, rpoB, RNA polymerase beta subunit | 6e-09 | |
| PRK14844 | 2836 | PRK14844, PRK14844, bifunctional DNA-directed RNA | 5e-08 | |
| pfam04567 | 46 | pfam04567, RNA_pol_Rpb2_5, RNA polymerase Rpb2, do | 6e-05 | |
| CHL00207 | 1077 | CHL00207, rpoB, RNA polymerase beta subunit; Provi | 6e-04 | |
| PRK09603 | 2890 | PRK09603, PRK09603, bifunctional DNA-directed RNA | 0.002 |
| >gnl|CDD|223163 COG0085, RpoB, DNA-directed RNA polymerase, beta subunit/140 kD subunit [Transcription] | Back alignment and domain information |
|---|
Score = 353 bits (909), Expect = e-106
Identities = 213/1009 (21%), Positives = 332/1009 (32%), Gaps = 243/1009 (24%)
Query: 47 KNLTDKNFGK---PPDKQNEFLLTLGAPHIASFDFMLDEGLDLAVEDIAPIEFEIYGKTL 103
K +FGK D N L + S++ EGL +I PIE Y
Sbjct: 8 KKRIRDSFGKIPEFLDLPN-----LVEIQLDSYNAFFLEGLQEVFREIFPIE--SYNGNT 60
Query: 104 KLNIVKAAISEPKVPAGPVGIHFNKYYPTEARQTRSVYSGPFNVTVAWSWDGKAGGTFTK 163
+L + EP K+YP E R YS P V + + +
Sbjct: 61 ELEYGSYRLGEPP-----------KFYPEECRLRGLTYSAPLYVKLRLVVNETGEEIKEQ 109
Query: 164 EV--GRVPIMLKSKRCHLRNLTPAQLIERGEHPDEWGGYFIVGGHEKLVRLLINNRRNHP 221
EV G +P+M + GGYFI+ G E+++ +
Sbjct: 110 EVYMGDIPLMTR------------------------GGYFIINGTERVIVSQEHRSPGVI 145
Query: 222 IA---IKRNAWK--------NRG--LLFS---DLGVYIR-SVKRDESAT----------- 253
K + RG L F +Y+R KR T
Sbjct: 146 FVEKKDKTGSKVLYVARVIPYRGSWLEFEFDPKDNLYVRIDRKRKIPVTILLRALGLETD 205
Query: 254 NNVLHFVTNGSARFMFSHRKSMCLLGMMQSLHEEGIHTQHDSKVFFGQIFKEKLQYDLRH 313
++ + LL + + E I ++ + G +YD +
Sbjct: 206 EEIIEAFGGDELTDLVPPEGEEALLEIYEEAKGEKITARN-ALELIGSRVFVVKRYDAK- 263
Query: 314 LNEVEICDYMLTNCILPHL----DDYWDKFLC----LSHMTCKLFHVVQGMVQLDSEDSI 365
+ Y+L +LPHL + Y + + M L + G + D D +
Sbjct: 264 EGRYKRAKYVLDKELLPHLGEAGERYDLSRVGKAKDIIAMIKYLIELRLGKGEEDDIDHL 323
Query: 366 MLQEIMTGGSLYLQLLK----------KEKSGTSAVLKESDIYAAFRASSIESAMTNFLA 415
+ + G L L + KE+ A ++ I + + L
Sbjct: 324 GNRRLRLVGELLENLFRVGLSRMERDVKERL-EKADKRD----TLVPQDLINAKPIHALI 378
Query: 416 TGNVSAGKNSTLQLMQASGFVIMAENINRMRYMSHFRAVHRGSYFQEMRSSEPRQLRTDA 475
TG + S Q M + N + +SH R + +E E R +
Sbjct: 379 TGFFGRSQLS--QFM---------DQTNPLSELSHKRRLSALGLSRERAGFEVRDVHPTH 427
Query: 476 WGFICPVHTPDGTPCGLLNHLTTNCQISEY--IPSKVLAQIPSVLVSLGMLPLTPVIQSI 533
+G ICP+ TP+G GL+ L +I+EY + + + SL + + +
Sbjct: 428 YGRICPIETPEGPNIGLIKSLALYARINEYGFLETPY---RKVLDGSLVVDEIEYLSADE 484
Query: 534 PEQALMVMLDGRIVGYILDQIATSLVPKLRMLKIVGEKIPKSLEIVYLKRPEKGMGLYPG 593
+ V + G+ G + LV +L + G V + PE +
Sbjct: 485 ED----VYVIGQANGTL--DEPGELVEELVECRRGGSG------EVSVADPEGVDYMDVS 532
Query: 594 LYLFTGPGRMLRP----------VMN-----LAAGN-----------IEWIGTFEQVFMD 627
GR L P +M A +E++ +
Sbjct: 533 PKQVVSVGRSLIPFLEHDDANRALMGSNMQRQAVPLLRTEAPLVGTGMEYLDAEDSGAAV 592
Query: 628 ICITMKEAYPGITTHRELSKTDFLSNLANLIPMPDCNQSPRNMYQCQMGKQTMGTPCLNW 687
I PG+ TH E+S L A+LIP P+ NQSP N+Y+ Q G
Sbjct: 593 IAK-----RPGVVTHVEISPIVILGIEASLIPYPEHNQSPYNLYKFARSNQATGINQRPL 647
Query: 688 RYQGVGKLYRLQTPASPFFRPVHYDTLDMDNFPMGTNAIVAVISYTGYDMEDAMILNKSS 747
+G L P D +G NA+VA + + GY+ EDA+I+++ S
Sbjct: 648 VKRGDTVEKGLVYADGPSV--------DTGELALGQNALVAFMPWNGYNYEDAIIISERS 699
Query: 748 YERGFAHGCIFKSMFIELESGYNYYGTETMYSGVDGSMMQAQIFFGVVHYQRLRHMVSDK 807
ER F S+ IE
Sbjct: 700 VERDL-----FTSIHIEEYET--------------------------------------- 715
Query: 808 WQTKDYFG-----RDPANKALE--DKLGPDGLVYVGAKLNERDPMYSYWKESENRYVTC- 859
+ +D RD N + E L DG++ +GA++ D + K +
Sbjct: 716 -EARDTKLGPEEIRDIPNVSEEALRNLDEDGIIRIGAEVKGGDILVG--KVTPKGETELT 772
Query: 860 ------------------RYSGKEEMCVEVVRMSSGFTEGGSVTPN-CAYIGYRIQRNPT 900
R EE V+ V++ + E G N + +R P
Sbjct: 773 PEERLLRIFGEKVRDTSLRVPHGEEGIVDDVQVFT--REDGDPGVNKLVKVYVAQKRKPQ 830
Query: 901 VGDKFASRAGQKGICSVKWPAEDLPFTDSGLVPDIVFNPHGFPSRMTIG 949
+GDK A R G KG+ S P ED+PF + G PDI+ NP G PSRM IG
Sbjct: 831 IGDKMAGRHGNKGVVSKIVPQEDMPFLEDGTPPDIILNPLGVPSRMNIG 879
|
Length = 1060 |
| >gnl|CDD|238353 cd00653, RNA_pol_B_RPB2, RNA polymerase beta subunit | Back alignment and domain information |
|---|
| >gnl|CDD|238353 cd00653, RNA_pol_B_RPB2, RNA polymerase beta subunit | Back alignment and domain information |
|---|
| >gnl|CDD|215994 pfam00562, RNA_pol_Rpb2_6, RNA polymerase Rpb2, domain 6 | Back alignment and domain information |
|---|
| >gnl|CDD|236291 PRK08565, PRK08565, DNA-directed RNA polymerase subunit B; Provisional | Back alignment and domain information |
|---|
| >gnl|CDD|132709 TIGR03670, rpoB_arch, DNA-directed RNA polymerase subunit B | Back alignment and domain information |
|---|
| >gnl|CDD|235972 PRK07225, PRK07225, DNA-directed RNA polymerase subunit B'; Validated | Back alignment and domain information |
|---|
| >gnl|CDD|191028 pfam04563, RNA_pol_Rpb2_1, RNA polymerase beta subunit | Back alignment and domain information |
|---|
| >gnl|CDD|236587 PRK09606, PRK09606, DNA-directed RNA polymerase subunit B''; Validated | Back alignment and domain information |
|---|
| >gnl|CDD|146955 pfam04565, RNA_pol_Rpb2_3, RNA polymerase Rpb2, domain 3 | Back alignment and domain information |
|---|
| >gnl|CDD|236291 PRK08565, PRK08565, DNA-directed RNA polymerase subunit B; Provisional | Back alignment and domain information |
|---|
| >gnl|CDD|238353 cd00653, RNA_pol_B_RPB2, RNA polymerase beta subunit | Back alignment and domain information |
|---|
| >gnl|CDD|215994 pfam00562, RNA_pol_Rpb2_6, RNA polymerase Rpb2, domain 6 | Back alignment and domain information |
|---|
| >gnl|CDD|219216 pfam06883, RNA_pol_Rpa2_4, RNA polymerase I, Rpa2 specific domain | Back alignment and domain information |
|---|
| >gnl|CDD|223163 COG0085, RpoB, DNA-directed RNA polymerase, beta subunit/140 kD subunit [Transcription] | Back alignment and domain information |
|---|
| >gnl|CDD|236291 PRK08565, PRK08565, DNA-directed RNA polymerase subunit B; Provisional | Back alignment and domain information |
|---|
| >gnl|CDD|233685 TIGR02013, rpoB, DNA-directed RNA polymerase, beta subunit | Back alignment and domain information |
|---|
| >gnl|CDD|214397 CHL00207, rpoB, RNA polymerase beta subunit; Provisional | Back alignment and domain information |
|---|
| >gnl|CDD|132709 TIGR03670, rpoB_arch, DNA-directed RNA polymerase subunit B | Back alignment and domain information |
|---|
| >gnl|CDD|234749 PRK00405, rpoB, DNA-directed RNA polymerase subunit beta; Reviewed | Back alignment and domain information |
|---|
| >gnl|CDD|235972 PRK07225, PRK07225, DNA-directed RNA polymerase subunit B'; Validated | Back alignment and domain information |
|---|
| >gnl|CDD|181983 PRK09603, PRK09603, bifunctional DNA-directed RNA polymerase subunit beta/beta'; Reviewed | Back alignment and domain information |
|---|
| >gnl|CDD|214330 CHL00001, rpoB, RNA polymerase beta subunit | Back alignment and domain information |
|---|
| >gnl|CDD|173305 PRK14844, PRK14844, bifunctional DNA-directed RNA polymerase subunit beta/beta'; Provisional | Back alignment and domain information |
|---|
| >gnl|CDD|191029 pfam04567, RNA_pol_Rpb2_5, RNA polymerase Rpb2, domain 5 | Back alignment and domain information |
|---|
| >gnl|CDD|214397 CHL00207, rpoB, RNA polymerase beta subunit; Provisional | Back alignment and domain information |
|---|
| >gnl|CDD|181983 PRK09603, PRK09603, bifunctional DNA-directed RNA polymerase subunit beta/beta'; Reviewed | Back alignment and domain information |
|---|
Conserved Domains Detected by HHsearch
Original result of HHsearch against CDD database
| ID | Alignment Graph | Length |
Definition |
Probability |
| Query | 951 | |||
| KOG0216|consensus | 1111 | 100.0 | ||
| PRK08565 | 1103 | DNA-directed RNA polymerase subunit B; Provisional | 100.0 | |
| KOG0214|consensus | 1141 | 100.0 | ||
| KOG0215|consensus | 1153 | 100.0 | ||
| cd00653 | 866 | RNA_pol_B_RPB2 RNA polymerase beta subunit. RNA po | 100.0 | |
| COG0085 | 1060 | RpoB DNA-directed RNA polymerase, beta subunit/140 | 100.0 | |
| TIGR02013 | 1065 | rpoB DNA-directed RNA polymerase, beta subunit. Th | 100.0 | |
| PRK00405 | 1112 | rpoB DNA-directed RNA polymerase subunit beta; Rev | 100.0 | |
| CHL00001 | 1070 | rpoB RNA polymerase beta subunit | 100.0 | |
| CHL00207 | 1077 | rpoB RNA polymerase beta subunit; Provisional | 100.0 | |
| PRK07225 | 605 | DNA-directed RNA polymerase subunit B'; Validated | 100.0 | |
| TIGR03670 | 599 | rpoB_arch DNA-directed RNA polymerase subunit B. T | 100.0 | |
| PRK09603 | 2890 | bifunctional DNA-directed RNA polymerase subunit b | 100.0 | |
| PRK14844 | 2836 | bifunctional DNA-directed RNA polymerase subunit b | 100.0 | |
| PRK09606 | 494 | DNA-directed RNA polymerase subunit B''; Validated | 100.0 | |
| PF00562 | 386 | RNA_pol_Rpb2_6: RNA polymerase Rpb2, domain 6; Int | 100.0 | |
| PF04563 | 203 | RNA_pol_Rpb2_1: RNA polymerase beta subunit; Inter | 100.0 | |
| PF04565 | 68 | RNA_pol_Rpb2_3: RNA polymerase Rpb2, domain 3; Int | 99.93 | |
| KOG0215|consensus | 1153 | 99.82 | ||
| PF04566 | 63 | RNA_pol_Rpb2_4: RNA polymerase Rpb2, domain 4; Int | 99.59 | |
| PF04561 | 190 | RNA_pol_Rpb2_2: RNA polymerase Rpb2, domain 2; Int | 99.44 | |
| PRK07225 | 605 | DNA-directed RNA polymerase subunit B'; Validated | 99.16 | |
| TIGR03670 | 599 | rpoB_arch DNA-directed RNA polymerase subunit B. T | 99.14 | |
| PF06883 | 58 | RNA_pol_Rpa2_4: RNA polymerase I, Rpa2 specific do | 99.13 | |
| KOG0216|consensus | 1111 | 99.11 | ||
| PRK08565 | 1103 | DNA-directed RNA polymerase subunit B; Provisional | 99.01 | |
| cd00653 | 866 | RNA_pol_B_RPB2 RNA polymerase beta subunit. RNA po | 98.94 | |
| PRK00405 | 1112 | rpoB DNA-directed RNA polymerase subunit beta; Rev | 98.88 | |
| TIGR02013 | 1065 | rpoB DNA-directed RNA polymerase, beta subunit. Th | 98.8 | |
| KOG0214|consensus | 1141 | 98.76 | ||
| CHL00207 | 1077 | rpoB RNA polymerase beta subunit; Provisional | 98.71 | |
| PF00562 | 386 | RNA_pol_Rpb2_6: RNA polymerase Rpb2, domain 6; Int | 98.69 | |
| COG0085 | 1060 | RpoB DNA-directed RNA polymerase, beta subunit/140 | 98.65 | |
| CHL00001 | 1070 | rpoB RNA polymerase beta subunit | 98.62 | |
| PF04567 | 48 | RNA_pol_Rpb2_5: RNA polymerase Rpb2, domain 5; Int | 98.61 | |
| PRK09603 | 2890 | bifunctional DNA-directed RNA polymerase subunit b | 97.93 | |
| PRK14844 | 2836 | bifunctional DNA-directed RNA polymerase subunit b | 97.88 | |
| PHA03394 | 865 | lef-8 DNA-directed RNA polymerase subunit beta-lik | 93.88 |
| >KOG0216|consensus | Back alignment and domain information |
|---|
Probab=100.00 E-value=2.2e-234 Score=1970.98 Aligned_cols=838 Identities=46% Similarity=0.773 Sum_probs=776.9
Q ss_pred hhhhhhhHHHHHhHHHHHHHHHHHHHhcc-CCeEEeecccEEEEEEeeEEEcCCcccCCCCCcccccCChHHHHhcCCcc
Q psy8410 63 EFLLTLGAPHIASFDFMLDEGLDLAVEDI-APIEFEIYGKTLKLNIVKAAISEPKVPAGPVGIHFNKYYPTEARQTRSVY 141 (951)
Q Consensus 63 ~~l~~Lv~~hIdSFN~Fi~~gL~~iv~~~-~~i~~~~~~~~~~l~~~~i~i~~P~~~~~~~~~~~~~l~P~EcRlr~lTY 141 (951)
+.++.++++||+|||...+.||.+..-+. ..-.....+++++++++++++.+|+++.....+.+++|||.|||+|++||
T Consensus 13 p~l~~a~~pHi~sfnal~~~gll~~~v~~~~ek~~~~~g~kis~~ve~i~iakP~l~~~~~ss~~r~lyPaEcRqR~~TY 92 (1111)
T KOG0216|consen 13 PELQDAASPHIDSFNALTNGGLLNAGVAGIAEKVPLKAGDKISMKVESIQIAKPMLSDKVHSSDTRKLYPAECRQRGLTY 92 (1111)
T ss_pred hhhhhhhhhhhccccchhhhhHHHHHhhchhhhcccccCCceeEEEEEEEecCCCCCccccccccccccchhHhhcccee
Confidence 68899999999999999998876664333 22222222479999999999999999975544478899999999999999
Q ss_pred ceeEEEEEEEEeCCCcceEEEEeecccceEecCCcccCCCCCHHHHHHcCCCCCCCCCeEEEcCceeEEEEEEeccCCee
Q psy8410 142 SGPFNVTVAWSWDGKAGGTFTKEVGRVPIMLKSKRCHLRNLTPAQLIERGEHPDEWGGYFIVGGHEKLVRLLINNRRNHP 221 (951)
Q Consensus 142 sa~l~v~i~~~~~~~~~~~~~v~iG~IPIMvkS~~C~L~~~s~~eli~~gE~~~D~GGYFIInG~EKVIr~li~~r~N~~ 221 (951)
+|.+.|++.|.+||.....++.++|++||||||++|||.|++|+||++++|++.|+||||||||+||||||||++|||+|
T Consensus 93 ~Gkl~v~v~wsVNg~~~~~e~~dlG~vPIMlrSklChL~g~sp~eLV~hkEe~~EmGGYFIvNGIEKvIRmLIm~RRNHP 172 (1111)
T KOG0216|consen 93 KGKLVVRVSWSVNGGHVVIEKRDLGHVPIMLRSKLCHLNGASPKELVKHKEESSEMGGYFIVNGIEKVIRMLIMPRRNHP 172 (1111)
T ss_pred cceEEEEEEEEECCeeeeeeeeecCccceEEeccccccCCCChHHHhhccCchhhcCcEEEEcChHHhhhhheeccCCCc
Confidence 99999999999999988889999999999999999999999999999999999999999999999999999999999999
Q ss_pred EEEEeccccccCcccceeEEEEEEecCCCcceeEEEEEeecCcEEEEeehhhHH--------------------------
Q psy8410 222 IAIKRNAWKNRGLLFSDLGVYIRSVKRDESATNNVLHFVTNGSARFMFSHRKSM-------------------------- 275 (951)
Q Consensus 222 ia~~R~~~~~rg~~~t~~~v~ir~v~~d~~s~~~~l~yl~~g~~~~~~~~~k~l-------------------------- 275 (951)
+|++|++|++||..||+||+.|||||+|+++.+++|||++||+++++|+++|.+
T Consensus 173 iAiIR~Sfk~RG~~yS~yGVsmRcVReDqSsvtn~LHYLnnGtv~~~F~~rK~eylvPv~lILKAL~~tsDeEIf~~lv~ 252 (1111)
T KOG0216|consen 173 IAIIRPSFKDRGSSYSDYGVSMRCVREDQSSVTNVLHYLNNGTVMFRFSHRKREYLVPVVLILKALTNTTDEEIFEGLVG 252 (1111)
T ss_pred eEEechhhhhcCCCccccceEEEEeccccccceeEEEEecCCcEEEEEEEeeeeehhhHHHHHHHHhccCHHHHHHHHhC
Confidence 999999999999999999999999999999999999999999999999887653
Q ss_pred ----------HHHHhHHHHHHhCCCCHHHHHHHHHhhhcccccccccCCcHHHHHHHHhhccccCCCCCchhhHhHHHHH
Q psy8410 276 ----------CLLGMMQSLHEEGIHTQHDSKVFFGQIFKEKLQYDLRHLNEVEICDYMLTNCILPHLDDYWDKFLCLSHM 345 (951)
Q Consensus 276 ----------~v~~~L~~~~~~~i~t~e~aL~yIG~~fr~~~~~~~~~~~~~~~~~~iL~~~llpHl~~~~~K~~~L~~M 345 (951)
|+..||+++.+++++||+|||+|||++||+.+...|+ +++.++|+++|++++|+||+++.+||.+|++|
T Consensus 253 g~~gdqfl~~rv~~mLr~v~ee~l~trtqcl~yLGs~FRaVl~~v~~-~~D~evg~fILr~~VlvHLd~~~DKF~lLifm 331 (1111)
T KOG0216|consen 253 GDEGDQFLTSRVELMLREVQEENLFTRTQCLQYLGSRFRAVLDFVPE-QPDLEVGRFILREYVLVHLDSDEDKFNLLIFM 331 (1111)
T ss_pred CccCceeHHHHHHHHHHHHhhcccccHHHHHHHHhhhhhhhhcCCCC-CchHHHHHHHHHhheEEEecccHHHHHHHHHH
Confidence 7899999999999999999999999999988765666 88999999999999999999999999999999
Q ss_pred HHHHHHHhcCCccCCCcccccchhhhhhHHHHHHHHHHHhhcccc-------------c-----CChhhHHhhh--ccch
Q psy8410 346 TCKLFHVVQGMVQLDSEDSIMLQEIMTGGSLYLQLLKKEKSGTSA-------------V-----LKESDIYAAF--RASS 405 (951)
Q Consensus 346 i~kLl~~~~g~~~~Dd~D~~~nkrv~l~G~Ll~~lfke~~~~~~~-------------~-----~~~~~~~~~i--~~~~ 405 (951)
+|||++++.|+|.+||+|+.+|||++++|+||..+|||+++.... . ++...+.+++ .+..
T Consensus 332 iqKL~slv~ge~~~dnpDs~q~qEil~~ghl~~~~LkEriEe~l~~~~~~vr~~l~~~~~~~~~~~~~~i~~~~~r~~~~ 411 (1111)
T KOG0216|consen 332 IQKLYSLVDGECTPDNPDSPQNQEILLPGHLYGSILKERIEEWLRFISAQVRRDLYKLGFKEDFLDISAIRKVFMRTNGN 411 (1111)
T ss_pred HHHHHHHhcCCcCCCCCCChhhhhcccccchHHHHHHHHHHHHHHHHHHHHHHHHHhhcCCchhHhHHHHHHHHhhcccc
Confidence 999999999999999999999999999999999999999887210 0 1234456666 4689
Q ss_pred HHHHHHHHHhcCCcCCCccchhhhhhccceeEEecccchhhhcccccccccCccccccccCCCccccCCCCceeecccCC
Q psy8410 406 IESAMTNFLATGNVSAGKNSTLQLMQASGFVIMAENINRMRYMSHFRAVHRGSYFQEMRSSEPRQLRTDAWGFICPVHTP 485 (951)
Q Consensus 406 It~~i~~~laTGNw~~~k~~~~~~~q~sGvsqvl~rlN~l~~lSh~Rrv~rg~~f~~~k~t~~R~Lhps~wGfiCPv~TP 485 (951)
|+++|+|||||||+.+ ++|+++||++|+|++|||+||+|||||||+||||++|++||||++|||+|++|||+||||||
T Consensus 412 Ig~~me~fLsTGnl~s--~sgldLqQ~sG~tv~AEriNf~RflShFRavhRGa~f~~mrTTtvRKLlPEsWGFlCPVHTP 489 (1111)
T KOG0216|consen 412 IGRKMEYFLSTGNLVS--RSGLDLQQTSGYTVVAERINFYRFLSHFRAVHRGAFFAEMRTTTVRKLLPESWGFLCPVHTP 489 (1111)
T ss_pred HHHHHHHHHhcCCeee--ccchhhHhhcCcEEehhhhhHHHHHHHHHHHhcccchhheeehhhHhhCchhhcccccccCC
Confidence 9999999999999999 89999999999999999999999999999999999999999999999999999999999999
Q ss_pred CCccccccccccceeEEeeccCccccccHHHHHHHCCCeeccccccCCCCcceEEEECCEEEEEEeCccHHHHHHHHHHh
Q psy8410 486 DGTPCGLLNHLTTNCQISEYIPSKVLAQIPSVLVSLGMLPLTPVIQSIPEQALMVMLDGRIVGYILDQIATSLVPKLRML 565 (951)
Q Consensus 486 eG~~cGLvk~La~~~~Vt~~~~~~~~~~i~~~L~~lG~~~~~~~~~~~~~~~~~V~lnG~~iG~~~~~~~~~~~~~lR~~ 565 (951)
||+||||+||||..|+|++..+. .+.|+++|.++||.|.... ....+..|+|+|||+++||++.+.+..+++.||++
T Consensus 490 DG~PCGlLnH~t~~c~I~t~~dd--~s~ip~~L~~~Gm~p~~~~-~~~G~~l~~VlldGk~vG~~s~~~a~~i~~~lR~~ 566 (1111)
T KOG0216|consen 490 DGAPCGLLNHMTRTCRIVTRPDD--VSFIPSILFELGMVPSSHL-VEAGEPLYPVLLDGKVVGWVSSPLAKKIVDYLRYY 566 (1111)
T ss_pred CCCchhHHHhhhhheeEeecCcc--hhhhhHHHHhcCCCchhcc-ccCCCceeEEEECCEEEEeeccHHHHHHHHHHHHH
Confidence 99999999999999999999876 6899999999999986521 12223479999999999999999999999999999
Q ss_pred hhcCC-CCCCceEEEEEcCCCCCCCCCCeEEEEecCcccccceeeeccccccccCCccceeeeeeecccccCcceeeeec
Q psy8410 566 KIVGE-KIPKSLEIVYLKRPEKGMGLYPGLYLFTGPGRMLRPVMNLAAGNIEWIGTFEQVFMDICITMKEAYPGITTHRE 644 (951)
Q Consensus 566 k~~g~-~i~~~~ei~~~~~~~~~~~~~~~i~i~td~gR~~RPv~~l~~g~iE~I~~~Eq~~~~Ia~~~~~~~~~~~th~E 644 (951)
|.+.. .||.++||.|++.+ .. +||||+||||++||++|||.|++.+.+||||++||+|++||+.++|+.++.+||.|
T Consensus 567 Kv~~p~~iP~~leIg~Vp~s-~~-gqyPglyi~s~~aR~~RpV~nl~~~~~e~iG~fEQvym~i~~~~~e~~~~v~th~E 644 (1111)
T KOG0216|consen 567 KVEAPAVIPNDLEIGYVPTS-TN-GQYPGLYIFSGPARMIRPVKNLSLDSVEWIGPFEQVYMNIAIDPKEIFPDVTTHVE 644 (1111)
T ss_pred hhcCcccCCCcceEeeeecC-CC-CCCceeEEecCchhhhhehhccccCchhhcccHHHhhhhhccchhhcCCCcceeEE
Confidence 97633 29999999999987 45 99999999999999999999999999999999999999999999999999999999
Q ss_pred ccCCccccceeeeecCCCCCCCccchhhccccccccccccccccccCCcceEEecCCCceeeecccccccccccCCCCce
Q psy8410 645 LSKTDFLSNLANLIPMPDCNQSPRNMYQCQMGKQTMGTPCLNWRYQGVGKLYRLQTPASPFFRPVHYDTLDMDNFPMGTN 724 (951)
Q Consensus 645 i~p~~iLsv~AslIPf~~hNqSpRn~yqc~M~KQamG~~~~n~~~R~D~~~y~L~ypQ~Plv~t~~~~~~~~~~~p~G~N 724 (951)
++|+.+||++|+|||||||||||||||||||||||||+|++||+.|+|+|+|+|+|||.|+|++..||.+++|++|.|+|
T Consensus 645 ~~pt~~ls~~anliP~sD~NQSPRNmYQCQMgKQtmg~p~~a~~~radnklYrlqt~qsP~vr~~~y~~y~~d~yp~GtN 724 (1111)
T KOG0216|consen 645 LHPTGILSIVANLIPFSDHNQSPRNMYQCQMGKQTMGTPGHALRTRADNKLYRLQTPQSPIVRPELYDTYGMDDYPNGTN 724 (1111)
T ss_pred ecccchHhHhhcCccccccCCCchhHHHhhhhhhhcCCccccchhcccCceEEecCCCCceeecccccccccccCCCCcc
Confidence 99999999999999999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred EEEEEEeccCCCCCCcEEEeccccccCceeeeEEEeEEEEEeccccCcceeeeeeCCCCccceeEEEeceeeeeeeeecc
Q psy8410 725 AIVAVISYTGYDMEDAMILNKSSYERGFAHGCIFKSMFIELESGYNYYGTETMYSGVDGSMMQAQIFFGVVHYQRLRHMV 804 (951)
Q Consensus 725 aiVAv~sytGYn~EDAiIiNkss~dRG~~~~~~yks~~~~~~~~~~~~g~E~~y~g~~G~~~~~~i~~g~~~yq~l~h~v 804 (951)
|||||+|||||||||||||||+|+||||+++++||++++++.++.+
T Consensus 725 aiVAVisyTgyDMeDAmiiNK~s~eRGf~~G~vykte~i~L~~~~~---------------------------------- 770 (1111)
T KOG0216|consen 725 AIVAVISYTGYDMEDAMIINKSSYERGFAYGTVYKTEKIDLSKKRS---------------------------------- 770 (1111)
T ss_pred eEEEEEeecccChhhhhhhchhhhhccccceeEEeeeeechhhccc----------------------------------
Confidence 9999999999999999999999999999999999999999876321
Q ss_pred cccccccccccCCCCChhhhhcCCCCCceeecceecCCCCEEEEecCCCCeEEEEEeCCCccEEEEEEEEecCCCCCCCC
Q psy8410 805 SDKWQTKDYFGRDPANKALEDKLGPDGLVYVGAKLNERDPMYSYWKESENRYVTCRYSGKEEMCVEVVRMSSGFTEGGSV 884 (951)
Q Consensus 805 ~dk~~~~~~~~~~p~~~~~~~~Ld~DGl~~~G~~v~~gd~l~~~~~~~~~~~~~~~~~~~e~g~vd~v~~~~~~~~~~~~ 884 (951)
....|++.|.++. .++||+||||.+|+++..||++|++++.++++....+|++.|+|+||.|++.+++...
T Consensus 771 -----r~~~F~~~p~~~~-~~~ld~dgLP~~G~kl~~~dp~~~y~d~~t~~~~~~~~~~~ep~~vd~vr~~~~~~~~--- 841 (1111)
T KOG0216|consen 771 -----RSKHFGRSPGEPE-LKKLDADGLPSIGQKLEYGDPYYAYFDEETGKTRIKKYHGTEPGIVDEVRVLGNDMGD--- 841 (1111)
T ss_pred -----ceeeeeeCCCCcc-ccccCCCCCCCCcccccCCCcEEEEEcccCCceEEEEecCCCCeeeEEEEEccccCCC---
Confidence 1247888887765 7899999999999999999999999999999999999999999999999999987432
Q ss_pred CCeEEEEEEeeecCCCcccceeccCCCccEEeeeecCCCCCCCCCCCCCcEEeCCCCCCcccCCCCC
Q psy8410 885 TPNCAYIGYRIQRNPTVGDKFASRAGQKGICSVKWPAEDLPFTDSGLVPDIVFNPHGFPSRMTIGFL 951 (951)
Q Consensus 885 ~~~~~~i~~r~~R~p~iGDKfssRHGQKGv~~~i~~~edmPft~~G~~PDiI~NPhg~PSRMTiG~l 951 (951)
..+.+.|++|++|+|.||||||||||||||||+.||.+||||||+|++|||||||||||||||||||
T Consensus 842 ~~k~~~i~~Ri~R~p~IGDKFsSRhGQKGicS~~wP~~dmPFtesGm~PDii~NPH~FPSRMTIgM~ 908 (1111)
T KOG0216|consen 842 QEKCATITLRIPRNPIIGDKFSSRHGQKGICSQKWPTIDMPFTESGMVPDIIINPHAFPSRMTIGML 908 (1111)
T ss_pred ccceEEEEEEecCCCcccchhhhhccccccccccCCCCCCCccccCcCcceeeCCCCCcccccHHHH
Confidence 2488999999999999999999999999999999999999999999999999999999999999996
|
|
| >PRK08565 DNA-directed RNA polymerase subunit B; Provisional | Back alignment and domain information |
|---|
| >KOG0214|consensus | Back alignment and domain information |
|---|
| >KOG0215|consensus | Back alignment and domain information |
|---|
| >cd00653 RNA_pol_B_RPB2 RNA polymerase beta subunit | Back alignment and domain information |
|---|
| >COG0085 RpoB DNA-directed RNA polymerase, beta subunit/140 kD subunit [Transcription] | Back alignment and domain information |
|---|
| >TIGR02013 rpoB DNA-directed RNA polymerase, beta subunit | Back alignment and domain information |
|---|
| >PRK00405 rpoB DNA-directed RNA polymerase subunit beta; Reviewed | Back alignment and domain information |
|---|
| >CHL00001 rpoB RNA polymerase beta subunit | Back alignment and domain information |
|---|
| >CHL00207 rpoB RNA polymerase beta subunit; Provisional | Back alignment and domain information |
|---|
| >PRK07225 DNA-directed RNA polymerase subunit B'; Validated | Back alignment and domain information |
|---|
| >TIGR03670 rpoB_arch DNA-directed RNA polymerase subunit B | Back alignment and domain information |
|---|
| >PRK09603 bifunctional DNA-directed RNA polymerase subunit beta/beta'; Reviewed | Back alignment and domain information |
|---|
| >PRK14844 bifunctional DNA-directed RNA polymerase subunit beta/beta'; Provisional | Back alignment and domain information |
|---|
| >PRK09606 DNA-directed RNA polymerase subunit B''; Validated | Back alignment and domain information |
|---|
| >PF00562 RNA_pol_Rpb2_6: RNA polymerase Rpb2, domain 6; InterPro: IPR007120 DNA-directed RNA polymerases 2 | Back alignment and domain information |
|---|
| >PF04563 RNA_pol_Rpb2_1: RNA polymerase beta subunit; InterPro: IPR007644 RNA polymerases catalyse the DNA dependent polymerisation of RNA | Back alignment and domain information |
|---|
| >PF04565 RNA_pol_Rpb2_3: RNA polymerase Rpb2, domain 3; InterPro: IPR007645 RNA polymerases catalyse the DNA dependent polymerisation of RNA | Back alignment and domain information |
|---|
| >KOG0215|consensus | Back alignment and domain information |
|---|
| >PF04566 RNA_pol_Rpb2_4: RNA polymerase Rpb2, domain 4; InterPro: IPR007646 RNA polymerases catalyse the DNA dependent polymerisation of RNA | Back alignment and domain information |
|---|
| >PF04561 RNA_pol_Rpb2_2: RNA polymerase Rpb2, domain 2; InterPro: IPR007642 RNA polymerases catalyse the DNA-dependent polymerisation of RNA | Back alignment and domain information |
|---|
| >PRK07225 DNA-directed RNA polymerase subunit B'; Validated | Back alignment and domain information |
|---|
| >TIGR03670 rpoB_arch DNA-directed RNA polymerase subunit B | Back alignment and domain information |
|---|
| >PF06883 RNA_pol_Rpa2_4: RNA polymerase I, Rpa2 specific domain ; InterPro: IPR009674 This domain is found between domain 3 and domain 5, but shows no homology to domain 4 of Rpb2 | Back alignment and domain information |
|---|
| >KOG0216|consensus | Back alignment and domain information |
|---|
| >PRK08565 DNA-directed RNA polymerase subunit B; Provisional | Back alignment and domain information |
|---|
| >cd00653 RNA_pol_B_RPB2 RNA polymerase beta subunit | Back alignment and domain information |
|---|
| >PRK00405 rpoB DNA-directed RNA polymerase subunit beta; Reviewed | Back alignment and domain information |
|---|
| >TIGR02013 rpoB DNA-directed RNA polymerase, beta subunit | Back alignment and domain information |
|---|
| >KOG0214|consensus | Back alignment and domain information |
|---|
| >CHL00207 rpoB RNA polymerase beta subunit; Provisional | Back alignment and domain information |
|---|
| >PF00562 RNA_pol_Rpb2_6: RNA polymerase Rpb2, domain 6; InterPro: IPR007120 DNA-directed RNA polymerases 2 | Back alignment and domain information |
|---|
| >COG0085 RpoB DNA-directed RNA polymerase, beta subunit/140 kD subunit [Transcription] | Back alignment and domain information |
|---|
| >CHL00001 rpoB RNA polymerase beta subunit | Back alignment and domain information |
|---|
| >PF04567 RNA_pol_Rpb2_5: RNA polymerase Rpb2, domain 5; InterPro: IPR007647 RNA polymerases catalyse the DNA dependent polymerisation of RNA | Back alignment and domain information |
|---|
| >PRK09603 bifunctional DNA-directed RNA polymerase subunit beta/beta'; Reviewed | Back alignment and domain information |
|---|
| >PRK14844 bifunctional DNA-directed RNA polymerase subunit beta/beta'; Provisional | Back alignment and domain information |
|---|
| >PHA03394 lef-8 DNA-directed RNA polymerase subunit beta-like protein; Provisional | Back alignment and domain information |
|---|
Homologous Structure Templates
Structure Templates Detected by BLAST
Original result of BLAST against Protein Data Bank
| ID | Alignment Graph | Length |
Definition |
E-value | |
| Query | 951 | ||||
| 2waq_B | 1131 | The Complete Structure Of The Archaeal 13-Subunit D | 2e-65 | ||
| 2waq_B | 1131 | The Complete Structure Of The Archaeal 13-Subunit D | 2e-05 | ||
| 2pmz_B | 1124 | Archaeal Rna Polymerase From Sulfolobus Solfataricu | 4e-64 | ||
| 2pmz_B | 1124 | Archaeal Rna Polymerase From Sulfolobus Solfataricu | 2e-05 | ||
| 1i3q_B | 1224 | Rna Polymerase Ii Crystal Form I At 3.1 A Resolutio | 5e-38 | ||
| 3h0g_B | 1210 | Rna Polymerase Ii From Schizosaccharomyces Pombe Le | 1e-36 | ||
| 1iw7_C | 1119 | Crystal Structure Of The Rna Polymerase Holoenzyme | 3e-10 | ||
| 1i6v_C | 1118 | Thermus Aquaticus Core Rna Polymerase-Rifampicin Co | 5e-09 | ||
| 1hqm_C | 1119 | Crystal Structure Of Thermus Aquaticus Core Rna Pol | 5e-09 | ||
| 1ynj_C | 1119 | Taq Rna Polymerase-Sorangicin Complex Length = 1119 | 5e-09 | ||
| 1l9u_C | 1118 | Thermus Aquaticus Rna Polymerase Holoenzyme At 4 A | 5e-09 | ||
| 3lu0_C | 1342 | Molecular Model Of Escherichia Coli Core Rna Polyme | 9e-09 | ||
| 3iyd_C | 1342 | Three-Dimensional Em Structure Of An Intact Activat | 1e-08 |
| >pdb|2WAQ|B Chain B, The Complete Structure Of The Archaeal 13-Subunit Dna- Directed Rna Polymerase Length = 1131 | Back alignment and structure |
|
| >pdb|2WAQ|B Chain B, The Complete Structure Of The Archaeal 13-Subunit Dna- Directed Rna Polymerase Length = 1131 | Back alignment and structure |
| >pdb|2PMZ|B Chain B, Archaeal Rna Polymerase From Sulfolobus Solfataricus Length = 1124 | Back alignment and structure |
| >pdb|2PMZ|B Chain B, Archaeal Rna Polymerase From Sulfolobus Solfataricus Length = 1124 | Back alignment and structure |
| >pdb|1I3Q|B Chain B, Rna Polymerase Ii Crystal Form I At 3.1 A Resolution Length = 1224 | Back alignment and structure |
| >pdb|3H0G|B Chain B, Rna Polymerase Ii From Schizosaccharomyces Pombe Length = 1210 | Back alignment and structure |
| >pdb|1IW7|C Chain C, Crystal Structure Of The Rna Polymerase Holoenzyme From Thermus Thermophilus At 2.6a Resolution Length = 1119 | Back alignment and structure |
| >pdb|1I6V|C Chain C, Thermus Aquaticus Core Rna Polymerase-Rifampicin Complex Length = 1118 | Back alignment and structure |
| >pdb|1HQM|C Chain C, Crystal Structure Of Thermus Aquaticus Core Rna Polymerase- Includes Complete Structure With Side-Chains (Except For Disordered Regions)-Further Refined From Original Deposition-Contains Additional Sequence Information Length = 1119 | Back alignment and structure |
| >pdb|1YNJ|C Chain C, Taq Rna Polymerase-Sorangicin Complex Length = 1119 | Back alignment and structure |
| >pdb|1L9U|C Chain C, Thermus Aquaticus Rna Polymerase Holoenzyme At 4 A Resolution Length = 1118 | Back alignment and structure |
| >pdb|3LU0|C Chain C, Molecular Model Of Escherichia Coli Core Rna Polymerase Length = 1342 | Back alignment and structure |
| >pdb|3IYD|C Chain C, Three-Dimensional Em Structure Of An Intact Activator-Dependent Transcription Initiation Complex Length = 1342 | Back alignment and structure |
Structure Templates Detected by RPS-BLAST
Original result of RPS-BLAST against PDB70 database
| >4ayb_B DNA-directed RNA polymerase; transferase, multi-subunit, transcription; 3.20A {Sulfolobus shibatae} PDB: 2wb1_B 2y0s_B 2waq_B 4b1o_B 4b1p_R 2pmz_B 3hkz_B Length = 1131 | Back alignment and structure |
|---|
Score = 649 bits (1676), Expect = 0.0
Identities = 226/977 (23%), Positives = 369/977 (37%), Gaps = 168/977 (17%)
Query: 68 LGAPHIASFDFMLDEGLDLAVEDIAPIEFEIYGKTLKLNIVKAAISEPKVPAGPVGIHFN 127
L H+ S++ + L +++ I EI LK+ + K I +P+V G
Sbjct: 26 LVRQHLDSYNDFVRNKLQEIIDEQGEIPTEI--PGLKVRLGKIRIGKPRVRESDRGER-- 81
Query: 128 KYYPTEARQTRSVYSGPFNVTVAWSWDGKAGGTFTKEVGRVPIMLKSKRCHLRNLTPAQL 187
+ P EAR Y+ P +T+ + +G +PIMLKS + T +L
Sbjct: 82 EISPMEARLRNLTYAAPLWLTMIPVENNIEAEPEEVYIGDLPIMLKSAIDPISQYTLDKL 141
Query: 188 IERGEHPDEWGGYFIVGGHEKLVRLLINNRRNHPIAIKRNAWKNRGLLFSDLGVYIRSVK 247
IE GE P + GGYFIV G E+++ + N + G + I S
Sbjct: 142 IEIGEDPKDPGGYFIVNGSERVIVTQEDLAPNRVLVDT----GKTGSNITHTAKIISSTA 197
Query: 248 RDESATNNVLHFVTNGSARFMFSHRKSMCLLGMM-------------------------- 281
+ + +G+ F ++
Sbjct: 198 GYRVPVT--IERLKDGTFHVSFPAVPGKIPFVILMRALGILTDRDIVYAVSLDPEIQNEL 255
Query: 282 -QSLHE-EGIHTQHDSKVFFGQIFKEKLQYDLRHLNEVEICDYMLTNCILPHL----DDY 335
SL + I D+ F G + + R +E ++ LPHL DD
Sbjct: 256 FPSLEQASSIANVDDALDFIGSRVAIGQKRENR----IEKAQQIIDKYFLPHLGTSADDR 311
Query: 336 WDKFLCLSHMTCKLFHVVQGMVQLDSEDSIMLQEIMTGGSLYLQLLKK------------ 383
K L++ K+ + G + D +D + + G L+ L +
Sbjct: 312 RKKAYYLAYAISKVIELYLGRREPDDKDHYANKRLRLAGDLFASLFRVAFKAFVKDLTYQ 371
Query: 384 -EKSGTSAVLKESDIYAAFRASSIESAMTNFLATGNVSAGKNSTLQLMQASGFVIMAENI 442
EKS ++ + A R + + + LATGN +G + +
Sbjct: 372 LEKSKVRG--RKLALKALVRPDIVTERIRHALATGNWV---------GGRTGVSQLLDRT 420
Query: 443 NRMRYMSHFRAVHRGSYFQEMRSSEPRQLRTDAWGFICPVHTPDGTPCGLLNHLTTNCQI 502
N + +SH R V + + E R L WG +CP TP+G GL+ +L QI
Sbjct: 421 NWLSMLSHLRRVISS-LARGQPNFEARDLHGTQWGRMCPFETPEGPNSGLVKNLALMAQI 479
Query: 503 SEYIPSKVLAQIPSVLVSLGMLPL---------TPVIQSIPEQALMVMLDGRIVGYILDQ 553
+ I K + L +G++P+ Q+ + V+L+GR+VGY D
Sbjct: 480 AVGINEK---IVEKTLYEMGVVPVEEVIRRVTEGGEDQNEYLKWSKVILNGRLVGYYRD- 535
Query: 554 IATSLVPKLRMLKIVGEKIPKSLEIVYLKRPEKGMGLYPGLYLFTGPGRMLRPVMNLAAG 613
L K+R + G +I + + ++ +++ GR+ RP++ ++ G
Sbjct: 536 -GEELAKKIRERRRKG-EISDEVNVGHIVTDFIN-----EVHVNCDSGRVRRPLIIVSNG 588
Query: 614 N--------------------------IEWIGTFEQVFMDICITMKEAYPGITTHRELSK 647
N IE++ E+ + + + P TH E+
Sbjct: 589 NPLVTREDIEKLDSGSITFDDLVRQGKIEYLDAEEEENAYVALEPSDLTP-EHTHLEIWS 647
Query: 648 TDFLSNLANLIPMPDCNQSPRNMYQCQMGKQTMGTPCLNWRYQGVGKLYRLQTPASPFFR 707
L A++IP P+ NQSPRN YQ M KQ +G N++ + + + L P P +
Sbjct: 648 PAILGITASIIPYPEHNQSPRNTYQSAMAKQALGLYAANYQLRTDTRAHLLHYPQRPLVQ 707
Query: 708 PVHYDTLDMDNFPMGTNAIVAVISYTGYDMEDAMILNKSSYERGFAHGCIFKSMFIELES 767
D + N P G NAI+AVIS+TGY+MED++I+N+SS ERG F+ E
Sbjct: 708 TRALDIIGYTNRPAGNNAILAVISFTGYNMEDSIIMNRSSVERGMYRSTFFRLYSTEE-- 765
Query: 768 GYNYYGTETMYSGVDGSMMQAQIFFGVVHYQRLRHMVSDKWQTKDYFGRDPANKALEDKL 827
+ DK + R K L
Sbjct: 766 ------------------------------VKYPGGQEDKIVMPEPGVRGYKGKEYYRLL 795
Query: 828 GPDGLVYVGAKLNERDPMYSYW-------------KESENRYVTCRYSGKEEMCVEVVRM 874
+G+V ++ D + E R + E V++V +
Sbjct: 796 EDNGVVSPEVEVKGGDVLIGKVSPPRFLQEFKELSPEQAKRDTSIVTRHGEMGIVDLVLI 855
Query: 875 SSGFTEGGSVTPNCAYIGYRIQRNPTVGDKFASRAGQKGICSVKWPAEDLPFTDSGLVPD 934
+ + R R P++GDKFASR GQKG+ + P D+P+T G+VPD
Sbjct: 856 TETAEGN-----KLVKVRVRDLRIPSIGDKFASRHGQKGVIGMLIPQVDMPYTVKGVVPD 910
Query: 935 IVFNPHGFPSRMTIGFL 951
++ NPH PSRMT+G +
Sbjct: 911 VILNPHALPSRMTLGQI 927
|
| >4ayb_B DNA-directed RNA polymerase; transferase, multi-subunit, transcription; 3.20A {Sulfolobus shibatae} PDB: 2wb1_B 2y0s_B 2waq_B 4b1o_B 4b1p_R 2pmz_B 3hkz_B Length = 1131 | Back alignment and structure |
|---|
| >1twf_B DNA-directed RNA polymerase II 140 kDa polypeptid; transcription, mRNA, multiprotein complex; HET: UTP; 2.30A {Saccharomyces cerevisiae} SCOP: e.29.1.1 PDB: 1i3q_B 1i6h_B 1k83_B* 1nik_B 1nt9_B 1pqv_B 1r5u_B 1r9s_B* 1r9t_B* 1sfo_B* 1twa_B* 1twc_B* 1i50_B* 1twg_B* 1twh_B* 1wcm_B 1y1v_B 1y1w_B 1y1y_B 1y77_B* ... Length = 1224 | Back alignment and structure |
|---|
| >1twf_B DNA-directed RNA polymerase II 140 kDa polypeptid; transcription, mRNA, multiprotein complex; HET: UTP; 2.30A {Saccharomyces cerevisiae} SCOP: e.29.1.1 PDB: 1i3q_B 1i6h_B 1k83_B* 1nik_B 1nt9_B 1pqv_B 1r5u_B 1r9s_B* 1r9t_B* 1sfo_B* 1twa_B* 1twc_B* 1i50_B* 1twg_B* 1twh_B* 1wcm_B 1y1v_B 1y1w_B 1y1y_B 1y77_B* ... Length = 1224 | Back alignment and structure |
|---|
| >3h0g_B DNA-directed RNA polymerase II subunit RPB2; transcription, multi-protein complex, DNA- binding, magnesium; 3.65A {Schizosaccharomyces pombe} Length = 1210 | Back alignment and structure |
|---|
| >3h0g_B DNA-directed RNA polymerase II subunit RPB2; transcription, multi-protein complex, DNA- binding, magnesium; 3.65A {Schizosaccharomyces pombe} Length = 1210 | Back alignment and structure |
|---|
| >2a6h_C DNA-directed RNA polymerase beta chain; RNA polymerase holoenzyme, streptolydigin, antibiotic, transcription regulation; HET: STD; 2.40A {Thermus thermophilus} SCOP: e.29.1.1 PDB: 1smy_C* 1zyr_C* 1iw7_C* 2a69_C* 2a6e_C 2a68_C* 2be5_C* 2cw0_C 2o5i_C 2o5j_C* 2ppb_C* 3aoh_C* 3aoi_C* 3dxj_C* 3eql_C* 1ynj_C* 1ynn_C* 2gho_C 1hqm_C 1l9u_C ... Length = 1119 | Back alignment and structure |
|---|
| >3lu0_C DNA-directed RNA polymerase subunit beta; E. coli RNA polymerase, nucleotidyltransferase, transcription, transferase; 11.20A {Escherichia coli} PDB: 3iyd_C* Length = 1342 | Back alignment and structure |
|---|
| >1vt4_I APAF-1 related killer DARK; drosophila apoptosome, apoptosis, programmed cell death; HET: DTP; 6.90A {Drosophila melanogaster} PDB: 3iz8_A* Length = 1221 | Back alignment and structure |
|---|
| >1vt4_I APAF-1 related killer DARK; drosophila apoptosome, apoptosis, programmed cell death; HET: DTP; 6.90A {Drosophila melanogaster} PDB: 3iz8_A* Length = 1221 | Back alignment and structure |
|---|
Structure Templates Detected by HHsearch
Original result of HHsearch against PDB70 database
| ID | Alignment Graph | Length |
Definition |
Probability |
| Query | 951 | |||
| 3h0g_B | 1210 | DNA-directed RNA polymerase II subunit RPB2; trans | 100.0 | |
| 1twf_B | 1224 | DNA-directed RNA polymerase II 140 kDa polypeptid; | 100.0 | |
| 4ayb_B | 1131 | DNA-directed RNA polymerase; transferase, multi-su | 100.0 | |
| 2a6h_C | 1119 | DNA-directed RNA polymerase beta chain; RNA polyme | 100.0 | |
| 3lu0_C | 1342 | DNA-directed RNA polymerase subunit beta; E. coli | 100.0 | |
| 3mlq_A | 188 | DNA-directed RNA polymerase subunit beta; tudor, t | 99.95 | |
| 1twf_B | 1224 | DNA-directed RNA polymerase II 140 kDa polypeptid; | 98.95 | |
| 4ayb_B | 1131 | DNA-directed RNA polymerase; transferase, multi-su | 98.67 | |
| 3h0g_B | 1210 | DNA-directed RNA polymerase II subunit RPB2; trans | 98.67 | |
| 2a6h_C | 1119 | DNA-directed RNA polymerase beta chain; RNA polyme | 98.64 | |
| 3lu0_C | 1342 | DNA-directed RNA polymerase subunit beta; E. coli | 98.21 | |
| 3tbi_B | 228 | DNA-directed RNA polymerase subunit beta; transcri | 98.19 | |
| 3lti_A | 296 | DNA-directed RNA polymerase subunit beta; BBM2, nu | 85.08 |
| >3h0g_B DNA-directed RNA polymerase II subunit RPB2; transcription, multi-protein complex, DNA- binding, magnesium; 3.65A {Schizosaccharomyces pombe} | Back alignment and structure |
|---|
Probab=100.00 E-value=4.4e-217 Score=2000.01 Aligned_cols=825 Identities=27% Similarity=0.395 Sum_probs=706.6
Q ss_pred hhhhhhhHHHHHhHHHHHHHHHHHHHhccCCeEEeecc----------cEEEEEEeeEEEcCCcccCCCCCcccccCChH
Q psy8410 63 EFLLTLGAPHIASFDFMLDEGLDLAVEDIAPIEFEIYG----------KTLKLNIVKAAISEPKVPAGPVGIHFNKYYPT 132 (951)
Q Consensus 63 ~~l~~Lv~~hIdSFN~Fi~~gL~~iv~~~~~i~~~~~~----------~~~~l~~~~i~i~~P~~~~~~~~~~~~~l~P~ 132 (951)
...++||+|||||||+|+++||++|++++++|+++.++ .+++|+|++++|++|++.++++ ..++|||+
T Consensus 25 f~~~gLV~qHIdSFN~FI~~~Lq~IV~~~~~I~~~~~~~~~~~~~~~~~~~~l~f~~i~v~kP~~~e~d~--~~~~l~P~ 102 (1210)
T 3h0g_B 25 FEETSLARQQLFSFDEFVQNTMQEIVDDDSTLTLDQYAQHTGAQGDVTRRYEINFGQIYLSRPTMTEADG--STTTMFPQ 102 (1210)
T ss_dssp HHHTCTTCSSSSSSSSSTTTTHHHHSSTTCCCC-------------------CEEEEEECCCCCCBCTTS--CBCCCCTT
T ss_pred hcccchHHHHHHHHHHHHHHhHHHHHhccCcEEecCccCcccccccCCceEEEEEEEEEEcCCceecCCC--cccccCHH
Confidence 46789999999999999999999999999999887532 3699999999999999998876 57899999
Q ss_pred HHHhcCCccceeEEEEEEEEeCCCc-----------------ceEEEEeecccceEecCCcccCCCCCHHHHHHcCCCCC
Q psy8410 133 EARQTRSVYSGPFNVTVAWSWDGKA-----------------GGTFTKEVGRVPIMLKSKRCHLRNLTPAQLIERGEHPD 195 (951)
Q Consensus 133 EcRlr~lTYsa~l~v~i~~~~~~~~-----------------~~~~~v~iG~IPIMvkS~~C~L~~~s~~eli~~gE~~~ 195 (951)
|||+|++||+|||+|+|+|++++.+ ....++.||+|||||||++|||++++++||+++||||+
T Consensus 103 EcRlR~lTYsapl~Vdi~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~v~IG~iPIMlrS~~C~L~g~s~~eL~~~gEcp~ 182 (1210)
T 3h0g_B 103 EARLRNLTYSSPLYVDMRKKVMVAADSNVPIGEEEWLVEEEDEEPSKVFIGKIPIMLRSTFCILNGVSDSELYDLNECPY 182 (1210)
T ss_dssp TTTTTCCCCEEEEEEEEEC---------------------CCSSCCCEEEEEEECCSSSTTSSSSSCCHHHHHHTTCCTT
T ss_pred HHHhcCCccceeEEEEEEEEEcCccccccccccccccccccccccceEEEecCCEEeCCCcccCCCCCHHHHHhcCCCCC
Confidence 9999999999999999999886532 12346899999999999999999999999999999999
Q ss_pred CCCCeEEEcCceeEEEEEEeccCCeeEEEEeccccccCcccceeEEEEEEecCCCcc--eeEEEEEee------cCcEEE
Q psy8410 196 EWGGYFIVGGHEKLVRLLINNRRNHPIAIKRNAWKNRGLLFSDLGVYIRSVKRDESA--TNNVLHFVT------NGSARF 267 (951)
Q Consensus 196 D~GGYFIInG~EKVIr~li~~r~N~~ia~~R~~~~~rg~~~t~~~v~ir~v~~d~~s--~~~~l~yl~------~g~~~~ 267 (951)
||||||||||+||||++|+..+.|+|++ |++++..++.+++.|||++++++. .+..++|+. ++.+.+
T Consensus 183 D~GGYFIING~EKVII~qerla~N~~iv-----~~~~~~~~~~~~a~irS~~~~~~~~~s~~~v~~~~~~~~~~~~~i~~ 257 (1210)
T 3h0g_B 183 DQGGYFIINGSEKVIIAQERSAANIVQV-----FKKAAPSPIAYVAEIRSALERGSRLISSMQIKLMARNTENSGQTIRA 257 (1210)
T ss_dssp CCCCCBCGGGSCBCCCBCBCCCCSCCCC-----CCCCCSSSCCCCCCCCCCCCSSSCCCCCCCCCCCCCCTTSCSCCCCC
T ss_pred CCCCEEEEeCEEEEEEechhhccceEEE-----EeecCCCCceEEEEEEEEecCCccceeEEEEEEEeccccCCCceEEE
Confidence 9999999999999997777777899987 456677788899999999987642 234455554 445555
Q ss_pred Eeeh----------hhHH-------------------HHHHhHHHHHHhC--CCCHHHHHHHHHhhhcccccccccCCcH
Q psy8410 268 MFSH----------RKSM-------------------CLLGMMQSLHEEG--IHTQHDSKVFFGQIFKEKLQYDLRHLNE 316 (951)
Q Consensus 268 ~~~~----------~k~l-------------------~v~~~L~~~~~~~--i~t~e~aL~yIG~~fr~~~~~~~~~~~~ 316 (951)
.|.+ .|++ .++++|+.+.++. ++||++||+|||++|+... . ++.++
T Consensus 258 ~~~~~~~~IPi~ivlkALg~~sD~EI~~~I~~~~~d~~~~~~l~~slee~~~i~tq~~aL~yIG~r~~~~~--~-~~~~~ 334 (1210)
T 3h0g_B 258 TLPYIRSDIPIVIVFRALGVVPDRDILEHICYDPNDFQMLEMMKPCIEEAFVIQDKDIALDYIGKRGSTTG--V-TREKR 334 (1210)
T ss_dssp CCTTSCSCCCSHHHHTTTTCCSTTHHHHHHCCSSCCHHHHHTHHHHHHTTSSCCSSHHHHHTTCCCSSSCC--C-CHHHH
T ss_pred EEeccccCCcHHHHHHHcCCCCHHHHHHHHhCCCCcHHHHHHHHHHHHHhhhcCCHHHHHHHHHHhccccC--C-CchhH
Confidence 5443 2333 2456666666654 6899999999999998532 2 45668
Q ss_pred HHHHHHHhhccccCCCCCch----hhHhHHHHHHHHHHHHhcCCccCCCcccccchhhhhhHHHHHHHHHHHhhcccc--
Q psy8410 317 VEICDYMLTNCILPHLDDYW----DKFLCLSHMTCKLFHVVQGMVQLDSEDSIMLQEIMTGGSLYLQLLKKEKSGTSA-- 390 (951)
Q Consensus 317 ~~~~~~iL~~~llpHl~~~~----~K~~~L~~Mi~kLl~~~~g~~~~Dd~D~~~nkrv~l~G~Ll~~lfke~~~~~~~-- 390 (951)
+++|+++|+++|||||++.. +||+||++|+||||+++.|++.+||+|||+||||+|||+||+.+||+.|++...
T Consensus 335 ~~~a~~iL~~~lLpHl~~~~~~~~~Ka~fL~~MvrkLl~~~~G~~~~Dd~D~~~nkrl~l~G~Ll~~lfr~~~~~~~~~i 414 (1210)
T 3h0g_B 335 LRYAHDILQKELLPHITTMEGFETRKAFFLGYMIHRMLLCALERREPDDRDHFGKKRLDLAGPLLASLFRMLFRKMTRDV 414 (1210)
T ss_dssp HHHHHHHHTTTSSCSSCCSSSCCSSHHHHHHHHHHHHHHHHTTSSCCCCTTCSSSCCBCCHHHHHHHHHHHHHHHHHHHH
T ss_pred HHHHHHHHHhhEEeCcCCCccchhHHHHHHHHHHHHHHHHhCCCCCCCCCccccCeEEecHHHHHHHHHHHHHHHHHHHH
Confidence 89999999999999998754 899999999999999999999999999999999999999999999998776211
Q ss_pred ---------cCChhhHHhhhccchHHHHHHHHHhcCCcCCCccchhhhhhccceeEEecccchhhhcccccccccCcccc
Q psy8410 391 ---------VLKESDIYAAFRASSIESAMTNFLATGNVSAGKNSTLQLMQASGFVIMAENINRMRYMSHFRAVHRGSYFQ 461 (951)
Q Consensus 391 ---------~~~~~~~~~~i~~~~It~~i~~~laTGNw~~~k~~~~~~~q~sGvsqvl~rlN~l~~lSh~Rrv~rg~~f~ 461 (951)
..+..++..+++++.||++|+||||||||+++|+ +++|++||||+|+|+||+|+|||||||+ +++++
T Consensus 415 ~~~l~k~~~~~~~~~~~~~i~~~~It~~l~~~laTGNW~~~kk---~~~~~sGvsqvl~R~n~~s~lShlRrv~-~p~~~ 490 (1210)
T 3h0g_B 415 YKYMQKCVETNREFNLTLAVKSNIITNGLRYSLATGNWGDQKR---SMVNRVGVSQVLNRYTFASTLSHLRRTN-TPIGR 490 (1210)
T ss_dssp HHHHHHHHTTCCSCCCTTSSCSTTTSHHHHHHHSSSCSSTTSS---CCSCCCCSCCBCCCSSHHHHHHHTTBBC-CSCCS
T ss_pred HHHHHHHhhcCCccCHHHhcchhhhHHHHHHHhhcCCcccccc---cccCcCCEEEEcccCCHHHHHHHHHhcc-Cchhh
Confidence 1123445667788999999999999999998554 5699999999999999999999999997 67999
Q ss_pred ccccCCCccccCCCCceeecccCCCCccccccccccceeEEeeccCccccccHHHHHHHCCCeeccccccCCCCcceEEE
Q psy8410 462 EMRSSEPRQLRTDAWGFICPVHTPDGTPCGLLNHLTTNCQISEYIPSKVLAQIPSVLVSLGMLPLTPVIQSIPEQALMVM 541 (951)
Q Consensus 462 ~~k~t~~R~Lhps~wGfiCPv~TPeG~~cGLvk~La~~~~Vt~~~~~~~~~~i~~~L~~lG~~~~~~~~~~~~~~~~~V~ 541 (951)
++|+++||+||||||||+||+|||||++||||||||++|+||++.+. ++|.++|.++||+++++..+...+..++||
T Consensus 491 ~~K~~~~R~Lhpt~WG~iCP~eTPEG~~cGLvknLal~~~Isvg~~~---~pI~~~l~~~gme~le~~~~~~~~~~tkVf 567 (1210)
T 3h0g_B 491 DGKLAKPRQLHNTHWGMVCPAETPEGQACGLVKNLSLMSYVSVGSPS---APIIEFLEEWGLETLEDYNPSASPNATKVF 567 (1210)
T ss_dssp SCCSSSSSSCCGGGTTTCCCSCCCSSSSTTTSCBCCSSCCBCCCCCS---SHHHHHHHSSSCCCCSCCCSSSSSSSCCCC
T ss_pred ccccccccccChhhheeeccccCCCCCcccccccccceeeeECCCCc---HHHHHHHHHhCCcchhhcCcccCCCceEEE
Confidence 99999999999999999999999999999999999999999999775 899999999999998765445556689999
Q ss_pred ECCEEEEEEeCccHHHHHHHHHHhhhcCCCCCCceEEEEEcCCCCCCCCCCeEEEEecCcccccceeeecc---------
Q psy8410 542 LDGRIVGYILDQIATSLVPKLRMLKIVGEKIPKSLEIVYLKRPEKGMGLYPGLYLFTGPGRMLRPVMNLAA--------- 612 (951)
Q Consensus 542 lnG~~iG~~~~~~~~~~~~~lR~~k~~g~~i~~~~ei~~~~~~~~~~~~~~~i~i~td~gR~~RPv~~l~~--------- 612 (951)
|||+|||+|. ++..+++.||.+||+|. ||.++||+++... ++++||||+||+||||+++++
T Consensus 568 vNG~wVGvh~--dp~~Lv~~lR~lRR~g~-Is~eVSIvrdir~-------rE~~IfTDaGRv~RPLfvVen~~~~~~~g~ 637 (1210)
T 3h0g_B 568 VNGVWLGVHR--DPAHLTETLRSLRRRLD-ISAEVSIVRDIRE-------KELRLFTDAGRICRPLFIVDNNPNSERRGE 637 (1210)
T ss_dssp STTCCCCCCS--CHHHHHHHHHHHHTTTS-SCTTCCCCCCTTT-------CCCCCCCSSCCBCCEEEECCCSSCSSSSCC
T ss_pred ECCEEEEEeC--CHHHHHHHHHHHhhcCC-CCCceEEEecCCC-------CeEEEecCCCcccceEEEEccCCccccccc
Confidence 9999999987 46999999999999998 9999999876543 469999999999999998653
Q ss_pred ----------------------------------ccccccCCccceeeeeeecccccCc---------------------
Q psy8410 613 ----------------------------------GNIEWIGTFEQVFMDICITMKEAYP--------------------- 637 (951)
Q Consensus 613 ----------------------------------g~iE~I~~~Eq~~~~Ia~~~~~~~~--------------------- 637 (951)
|.|||||++||++++||++++|+..
T Consensus 638 L~l~k~hi~~L~~~~~~~~~~~~~~~~w~~Lv~~GvIEylDaeEEet~mIamtpeDL~~~r~~~~g~~~~~~~d~~~r~k 717 (1210)
T 3h0g_B 638 LCIRKEHIQQLIEDKDRYDIDPEQRFGWTALVSSGLIEYLDAEEEETVMIAMSPEDLEASRQMQAGYEVKEELDPAQRVK 717 (1210)
T ss_dssp CSSCHHHHHHHHHHHTCCCSCTTCCCSSTTTTTTTSEEECCTTTGGGCCEESCHHHHHHHHHHTTCCCCCCSSCCSSCCC
T ss_pred ccccHHHHHHHhcccccccccccccCCHHHHHhCCCEEEecHhhhhceeEEecHHHhhhhhhhhccccccccccchhhcc
Confidence 5789999999999999999999842
Q ss_pred -------ceeeeecccCCccccceeeeecCCCCCCCccchhhccccccccccccccccccCCcceEEecCCCceeeeccc
Q psy8410 638 -------GITTHRELSKTDFLSNLANLIPMPDCNQSPRNMYQCQMGKQTMGTPCLNWRYQGVGKLYRLQTPASPFFRPVH 710 (951)
Q Consensus 638 -------~~~th~Ei~p~~iLsv~AslIPf~~hNqSpRn~yqc~M~KQamG~~~~n~~~R~D~~~y~L~ypQ~Plv~t~~ 710 (951)
..||||||||++|||||||+||||||||||||||||||||||||+|++||+.|+||++|+|+|||+|||+|++
T Consensus 718 ~~~~~~~~~~THcEIhPsmILGIcASiIPFpdHNQSPRNtYQ~aMgKQamG~~~~n~~~R~Dt~~~~L~yPQkPlv~T~~ 797 (1210)
T 3h0g_B 718 PAPNPHVHAWTHCEIHPAMILGILASIIPFPDHNQSPRNTYQSAMGKQAMGVYLTNYQVRMDTMANILYYPQKPLATTRS 797 (1210)
T ss_dssp CCSCCSCCSCSEECSCGGGSSCSSSTTSSSSTTSCSHHHHHHHHHHTTCCSCCCTTTTTSCCSSEEEESSCBCCSSBCTT
T ss_pred ccCCCcccccccccccchhhhhheeecccCccccccchhhhhhhhhcccccccccccccccCccccEeecCcCccccchh
Confidence 3589999999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred ccccccccCCCCceEEEEEEeccCCCCCCcEEEeccccccCceeeeEEEeEEEEEeccccCcceeeeeeCCCCccceeEE
Q psy8410 711 YDTLDMDNFPMGTNAIVAVISYTGYDMEDAMILNKSSYERGFAHGCIFKSMFIELESGYNYYGTETMYSGVDGSMMQAQI 790 (951)
Q Consensus 711 ~~~~~~~~~p~G~NaiVAv~sytGYn~EDAiIiNkss~dRG~~~~~~yks~~~~~~~~~~~~g~E~~y~g~~G~~~~~~i 790 (951)
++.++++++|+||||+||||||+||||||||||||+|+|||||++.+|+++..++++ +|.+
T Consensus 798 ~e~~~~~elp~G~NaiVAvmsy~GYn~EDAiIink~sv~rg~~~s~~~~~y~~~~~~----~~~~--------------- 858 (1210)
T 3h0g_B 798 MEYLKFRELPAGQNAIVAILCYSGYNQEDSIIMNQASIDRGLFRSIFYRTYTDQEKK----IGMT--------------- 858 (1210)
T ss_dssp STTTTCTTSCSCCEECBEECCCSSSSCSSCEEEEHHHHTTTTTCEEEEEEEEECCCC----CSSS---------------
T ss_pred HHHhCCCcccCccceEEEEeccCCCChhhheeeehhheecCceEEEEEEEEEEEeee----cCCC---------------
Confidence 999999999999999999999999999999999999999999999999999876543 1110
Q ss_pred EeceeeeeeeeecccccccccccccCCCCChhhhhcCCCCCceeecceecCCCCEEEEecCCC--------------CeE
Q psy8410 791 FFGVVHYQRLRHMVSDKWQTKDYFGRDPANKALEDKLGPDGLVYVGAKLNERDPMYSYWKESE--------------NRY 856 (951)
Q Consensus 791 ~~g~~~yq~l~h~v~dk~~~~~~~~~~p~~~~~~~~Ld~DGl~~~G~~v~~gd~l~~~~~~~~--------------~~~ 856 (951)
..+++.....-.....+...|++||+||||++|+.|++||+|+||++|.. .++
T Consensus 859 -------------~~~~~~~p~~~~~~~~~~~~~~~LD~dGi~~~G~~v~~gDiligK~~p~~~~~~~~~~~~~~~~~rd 925 (1210)
T 3h0g_B 859 -------------VMEEFERPVRSTTLRMKHGTYDKLEDDGLIAPGTRVSGEDIIIGKTAPIPLDHEELGQRTQLHAKRD 925 (1210)
T ss_dssp -------------CCCCCCCCCTTSCCSCCSCCGGGCCTTSSCCTTCCCCTTCCCCCCCCCC-----------CCCCCCC
T ss_pred -------------ceeEEcCCCcchhcccchhhHhhcCCCCCcCCCCEecCCCEEEEEecCCCCCchhhcccccccccce
Confidence 00000000000000001124889999999999999999999999987631 135
Q ss_pred EEEEeCCCccEEEEEEEEecCCCCCCCCCCeEEEEEEeeecCCCcccceeccCCCccEEeeeecCCCCCCCCCCCCCcEE
Q psy8410 857 VTCRYSGKEEMCVEVVRMSSGFTEGGSVTPNCAYIGYRIQRNPTVGDKFASRAGQKGICSVKWPAEDLPFTDSGLVPDIV 936 (951)
Q Consensus 857 ~~~~~~~~e~g~vd~v~~~~~~~~~~~~~~~~~~i~~r~~R~p~iGDKfssRHGQKGv~~~i~~~edmPft~~G~~PDiI 936 (951)
.+++|+++|+|+||+|.++++++ + .+.|||++|+.|+|++|||||||||||||||+|||+||||||++|++||||
T Consensus 926 ~s~~~~~~e~g~Vd~V~~~~~~~-g----~~~vkv~~~~~R~~~~GDK~a~RhGqKGvi~~i~~~edmPf~~~G~~pDii 1000 (1210)
T 3h0g_B 926 VSTPLRSTESGIVDQVMVTTNQE-G----LKFVKVRMRSTRIPQIGDKFASRHGQKGTIGMTYRHEDMPFSAQGIVPDII 1000 (1210)
T ss_dssp CCCCCCTTCCCCCCEEEEEECSS-S----SEEEEEEECCCBCCCTTCEEECTTCCCEEEEEEECTTTSCCBTTTBCCSEE
T ss_pred eeEEecCCCCeEEEEEEEEEecC-C----CeEEEEEEEEecCCCchhhhhcccCCCceeeEEeccccCCcCCCCCCCeEE
Confidence 67899999999999999998753 2 689999999999999999999999999999999999999999999999999
Q ss_pred eCCCCCCcccCCCCC
Q psy8410 937 FNPHGFPSRMTIGFL 951 (951)
Q Consensus 937 ~NPhg~PSRMTiG~l 951 (951)
|||||||||||||||
T Consensus 1001 ~NP~~~PSRMtigq~ 1015 (1210)
T 3h0g_B 1001 INPHAIPSRMTVAHL 1015 (1210)
T ss_dssp CCGGGSTTSCCHHHH
T ss_pred ECCCcCCCCccchhh
Confidence 999999999999985
|
| >1twf_B DNA-directed RNA polymerase II 140 kDa polypeptid; transcription, mRNA, multiprotein complex; HET: UTP; 2.30A {Saccharomyces cerevisiae} SCOP: e.29.1.1 PDB: 1i3q_B 1i6h_B 1k83_B* 1nik_B 1nt9_B 1pqv_B 1r5u_B 1r9s_B* 1r9t_B* 1sfo_B* 1twa_B* 1twc_B* 1i50_B* 1twg_B* 1twh_B* 1wcm_B 1y1v_B 1y1w_B 1y1y_B 1y77_B* ... | Back alignment and structure |
|---|
| >4ayb_B DNA-directed RNA polymerase; transferase, multi-subunit, transcription; 3.20A {Sulfolobus shibatae} PDB: 2wb1_B 2y0s_B 2waq_B 4b1o_B 4b1p_R 2pmz_B 3hkz_B | Back alignment and structure |
|---|
| >2a6h_C DNA-directed RNA polymerase beta chain; RNA polymerase holoenzyme, streptolydigin, antibiotic, transcription regulation; HET: STD; 2.40A {Thermus thermophilus} SCOP: e.29.1.1 PDB: 1smy_C* 1zyr_C* 1iw7_C* 2a69_C* 2a6e_C 2a68_C* 2be5_C* 2cw0_C 2o5i_C 2o5j_C* 2ppb_C* 3aoh_C* 3aoi_C* 3dxj_C* 3eql_C* 1ynj_C* 1ynn_C* 2gho_C 1hqm_C 1l9u_C ... | Back alignment and structure |
|---|
| >3lu0_C DNA-directed RNA polymerase subunit beta; E. coli RNA polymerase, nucleotidyltransferase, transcription, transferase; 11.20A {Escherichia coli} PDB: 3iyd_C* | Back alignment and structure |
|---|
| >3mlq_A DNA-directed RNA polymerase subunit beta; tudor, transferase-transcription complex; 2.91A {Thermus aquaticus} | Back alignment and structure |
|---|
| >1twf_B DNA-directed RNA polymerase II 140 kDa polypeptid; transcription, mRNA, multiprotein complex; HET: UTP; 2.30A {Saccharomyces cerevisiae} SCOP: e.29.1.1 PDB: 1i3q_B 1i6h_B 1k83_B* 1nik_B 1nt9_B 1pqv_B 1r5u_B 1r9s_B* 1r9t_B* 1sfo_B* 1twa_B* 1twc_B* 1i50_B* 1twg_B* 1twh_B* 1wcm_B 1y1v_B 1y1w_B 1y1y_B 1y77_B* ... | Back alignment and structure |
|---|
| >4ayb_B DNA-directed RNA polymerase; transferase, multi-subunit, transcription; 3.20A {Sulfolobus shibatae} PDB: 2wb1_B 2y0s_B 2waq_B 4b1o_B 4b1p_R 2pmz_B 3hkz_B | Back alignment and structure |
|---|
| >3h0g_B DNA-directed RNA polymerase II subunit RPB2; transcription, multi-protein complex, DNA- binding, magnesium; 3.65A {Schizosaccharomyces pombe} | Back alignment and structure |
|---|
| >2a6h_C DNA-directed RNA polymerase beta chain; RNA polymerase holoenzyme, streptolydigin, antibiotic, transcription regulation; HET: STD; 2.40A {Thermus thermophilus} SCOP: e.29.1.1 PDB: 1smy_C* 1zyr_C* 1iw7_C* 2a69_C* 2a6e_C 2a68_C* 2be5_C* 2cw0_C 2o5i_C 2o5j_C* 2ppb_C* 3aoh_C* 3aoi_C* 3dxj_C* 3eql_C* 1ynj_C* 1ynn_C* 2gho_C 1hqm_C 1l9u_C ... | Back alignment and structure |
|---|
| >3lu0_C DNA-directed RNA polymerase subunit beta; E. coli RNA polymerase, nucleotidyltransferase, transcription, transferase; 11.20A {Escherichia coli} PDB: 3iyd_C* | Back alignment and structure |
|---|
| >3tbi_B DNA-directed RNA polymerase subunit beta; transcription accessory protein, transcription; 3.00A {Escherichia coli} | Back alignment and structure |
|---|
| >3lti_A DNA-directed RNA polymerase subunit beta; BBM2, nucleotidyltransferase, transcription, transferase; HET: MLY MSE; 1.60A {Escherichia coli} PDB: 3e7h_A | Back alignment and structure |
|---|
Homologous Structure Domains
Structure Domains Detected by RPS-BLAST
Original result of RPS-BLAST against SCOP70(version1.75) database
| ID | Alignment Graph | Length |
Definition |
E-value |
| 951 | ||||
| d1twfb_ | 1207 | e.29.1.1 (B:) RBP2 {Baker's yeast (Saccharomyces c | 1e-104 | |
| d1twfb_ | 1207 | e.29.1.1 (B:) RBP2 {Baker's yeast (Saccharomyces c | 7e-14 | |
| d1smyc_ | 1119 | e.29.1.1 (C:) RNA-polymerase beta {Thermus thermop | 6e-70 | |
| d1smyc_ | 1119 | e.29.1.1 (C:) RNA-polymerase beta {Thermus thermop | 1e-10 |
| >d1twfb_ e.29.1.1 (B:) RBP2 {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]} Length = 1207 | Back information, alignment and structure |
|---|
class: Multi-domain proteins (alpha and beta) fold: beta and beta-prime subunits of DNA dependent RNA-polymerase superfamily: beta and beta-prime subunits of DNA dependent RNA-polymerase family: RNA-polymerase beta domain: RBP2 species: Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]
Score = 349 bits (897), Expect = e-104
Identities = 214/1021 (20%), Positives = 344/1021 (33%), Gaps = 182/1021 (17%)
Query: 72 HIASFDFMLDEGLDLAVEDIAPIEFEI----------YGKTLKLNIVKAAISEPKVPAGP 121
+ SF+ +D L + + + + E + +++ K +++P V
Sbjct: 30 QLDSFNQFVDYTLQDIICEDSTLILEQLAQHTTESDNISRKYEISFGKIYVTKPMVNESD 89
Query: 122 VGIHFNKYYPTEARQTRSVYSGPFNVTVAWSWDGKAGGTFTKE----------------- 164
H YP EAR YS V V +
Sbjct: 90 GVTH--ALYPQEARLRNLTYSSGLFVDVKKRTYEAIDVPGRELKYELIAEESEDDSESGK 147
Query: 165 --VGRVPIMLKSKRCHLRNLTPAQLIERGEHPDEWGGYFIVGGHEKLVRLLINNRRNHPI 222
+GR+PIML+SK C+L T + L + E P + GGYFI+ G EK++ + N
Sbjct: 148 VFIGRLPIMLRSKNCYLSEATESDLYKLKECPFDMGGYFIINGSEKVLIAQERSAGNIVQ 207
Query: 223 AIKRNAWKNRGLLFSDLGVYIRSVKRDESATNNVLHFVTNGS---------ARFMFSHRK 273
+K IRS S + L G A + +
Sbjct: 208 -----VFKKAAPSPISHVAEIRSALEKGSRFISTLQVKLYGREGSSARTIKATLPYIKQD 262
Query: 274 SMCL-----LGMMQSLHEEGIHTQHDSKVFFGQIFKEKLQYDLRHLNEVEICDYM----- 323
+ LG++ + ++ K ++ + D++
Sbjct: 263 IPIVIIFRALGIIPDGEILEHICYDVNDWQMLEMLKPCVEDGFVIQDRETALDFIGRRGT 322
Query: 324 ----------------LTNCILPHL----DDYWDKFLCLSHMTCKLFHVVQGMVQLDSED 363
L LPH+ K L +M +L D D
Sbjct: 323 ALGIKKEKRIQYAKDILQKEFLPHITQLEGFESRKAFFLGYMINRLLLCALDRKDQDDRD 382
Query: 364 SIMLQEIMTGGSLYLQLLK-----------KEKSGTSAVLKESDIYAAFRASSIESAMTN 412
+ + G L QL K + T + ++ A A +I S +
Sbjct: 383 HFGKKRLDLAGPLLAQLFKTLFKKLTKDIFRYMQRTVEEAHDFNMKLAINAKTITSGLKY 442
Query: 413 FLATGNVSAGKNSTLQLMQASGFVIMAENINRMRYMSHFRAVHRGSYFQEMRSSEPRQLR 472
LATGN K + +G + +SH R + ++ + ++PRQL
Sbjct: 443 ALATGNWGEQKK---AMSSRAGVSQVLNRYTYSSTLSHLRRTNT-PIGRDGKLAKPRQLH 498
Query: 473 TDAWGFICPVHTPDGTPCGLLNHLTTNCQISEYIPSKVLAQIPSVLVSLGMLPLTPVIQS 532
WG +CP TP+G CGL+ +L+ IS I + L GM PL +
Sbjct: 499 NTHWGLVCPAETPEGQACGLVKNLSLMSCISVGTDP---MPIITFLSEWGMEPLEDYVPH 555
Query: 533 IPEQALMVMLDGRIVGYILD--------------------------------QIATSLVP 560
A V ++G G + +I T
Sbjct: 556 QSPDATRVFVNGVWHGVHRNPARLMETLRTLRRKGDINPEVSMIRDIREKELKIFTDAGR 615
Query: 561 KLRMLKIVGEKIPKSLEIVYLKR---PEKGMGLYPGLYLFTGPGRMLRPVMNLAAGNIEW 617
R L IV + + + +++ + Y + L G +E+
Sbjct: 616 VYRPLFIVEDDESLGHKELKVRKGHIAKLMATEYQDIEGGFEDVEEYTWSSLLNEGLVEY 675
Query: 618 IGTFEQVFMDICITMKEAYPG-----------------------ITTHRELSKTDFLSNL 654
I E+ + I + ++ P TH E+ + L
Sbjct: 676 IDAEEEESILIAMQPEDLEPAEANEENDLDVDPAKRIRVSHHATTFTHCEIHPSMILGVA 735
Query: 655 ANLIPMPDCNQSPRNMYQCQMGKQTMGTPCLNWRYQGVGKLYRLQTPASPFFRPVHYDTL 714
A++IP PD NQSPRN YQ MGKQ MG N+ + L P P + L
Sbjct: 736 ASIIPFPDHNQSPRNTYQSAMGKQAMGVFLTNYNVRMDTMANILYYPQKPLGTTRAMEYL 795
Query: 715 DMDNFPMGTNAIVAVISYTGYDMEDAMILNKSSYERGFAHGCIFKSMFIELESGYNYYGT 774
P G NAIVA+ Y+GY+ ED+MI+N+SS +RG F+S +
Sbjct: 796 KFRELPAGQNAIVAIACYSGYNQEDSMIMNQSSIDRGLFRSLFFRSYMDQ---------- 845
Query: 775 ETMYSGVDGSMMQAQIFFGVVHYQRLRHMVSDKWQTKDYFGRDPANKALEDKLGP----D 830
E Y + + + + D R + K P +
Sbjct: 846 EKKYGMSITETFEKPQRTNTLRMKHGTYDKLDDDGLIAPGVRVSGEDVIIGKTTPISPDE 905
Query: 831 GLVYVGAKLNERDPMYSYWKESENRYVTCRYSGKEEMCVEVVRMSSGFTEGGSVTPNCAY 890
+ + + + + +EN V + ++ V+
Sbjct: 906 EELGQRTAYHSKRDASTPLRSTENGIVDQVLVTTNQDGLKFVK----------------- 948
Query: 891 IGYRIQRNPTVGDKFASRAGQKGICSVKWPAEDLPFTDSGLVPDIVFNPHGFPSRMTIGF 950
+ R + P +GDKFASR GQKG + + ED+PFT G+VPD++ NPH PSRMT+
Sbjct: 949 VRVRTTKIPQIGDKFASRHGQKGTIGITYRREDMPFTAEGIVPDLIINPHAIPSRMTVAH 1008
Query: 951 L 951
L
Sbjct: 1009 L 1009
|
| >d1twfb_ e.29.1.1 (B:) RBP2 {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]} Length = 1207 | Back information, alignment and structure |
|---|
| >d1smyc_ e.29.1.1 (C:) RNA-polymerase beta {Thermus thermophilus [TaxId: 274]} Length = 1119 | Back information, alignment and structure |
|---|
| >d1smyc_ e.29.1.1 (C:) RNA-polymerase beta {Thermus thermophilus [TaxId: 274]} Length = 1119 | Back information, alignment and structure |
|---|
Homologous Domains Detected by HHsearch
Original result of HHsearch against SCOP70(version1.75) database
| ID | Alignment Graph | Length |
Definition |
Probability |
| Query | 951 | |||
| d1twfb_ | 1207 | RBP2 {Baker's yeast (Saccharomyces cerevisiae) [Ta | 100.0 | |
| d1smyc_ | 1119 | RNA-polymerase beta {Thermus thermophilus [TaxId: | 100.0 | |
| d1smyc_ | 1119 | RNA-polymerase beta {Thermus thermophilus [TaxId: | 99.09 | |
| d1twfb_ | 1207 | RBP2 {Baker's yeast (Saccharomyces cerevisiae) [Ta | 98.92 |
| >d1twfb_ e.29.1.1 (B:) RBP2 {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]} | Back information, alignment and structure |
|---|
class: Multi-domain proteins (alpha and beta) fold: beta and beta-prime subunits of DNA dependent RNA-polymerase superfamily: beta and beta-prime subunits of DNA dependent RNA-polymerase family: RNA-polymerase beta domain: RBP2 species: Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]
Probab=100.00 E-value=3.9e-184 Score=1751.21 Aligned_cols=824 Identities=27% Similarity=0.389 Sum_probs=678.1
Q ss_pred hhhhhhHHHHHhHHHHHHHHHHHHHhccCCeEEeec----------ccEEEEEEeeEEEcCCcccCCCCCcccccCChHH
Q psy8410 64 FLLTLGAPHIASFDFMLDEGLDLAVEDIAPIEFEIY----------GKTLKLNIVKAAISEPKVPAGPVGIHFNKYYPTE 133 (951)
Q Consensus 64 ~l~~Lv~~hIdSFN~Fi~~gL~~iv~~~~~i~~~~~----------~~~~~l~~~~i~i~~P~~~~~~~~~~~~~l~P~E 133 (951)
.-++||+|||||||+||++||++|+++.+||++... ..++.|+|++++|++|++.+.++ ..++|||+|
T Consensus 22 ~~~~Lv~~qidSFn~Fi~~gi~~Ii~~~~pi~~~~~~~~~~~~~~~~~~~~l~f~~i~i~kP~~~e~~g--~~~~l~P~E 99 (1207)
T d1twfb_ 22 REKGLVSQQLDSFNQFVDYTLQDIICEDSTLILEQLAQHTTESDNISRKYEISFGKIYVTKPMVNESDG--VTHALYPQE 99 (1207)
T ss_dssp HHHTTCHHHHHHHHHHHHTHHHHHHHTTCBCC------------------CCEECCCEEEEEEECCSSS--CCEECCHHH
T ss_pred CCCCccHHHHHHHHHHHHHCHHHHHHhcCCeEeeccccccccccCCCceEEEEEEEEEEcCCeEEcCCC--cccccCHHH
Confidence 347899999999999999999999999999976431 14689999999999999988776 568999999
Q ss_pred HHhcCCccceeEEEEEEEEeCC-------------------CcceEEEEeecccceEecCCcccCCCCCHHHHHHcCCCC
Q psy8410 134 ARQTRSVYSGPFNVTVAWSWDG-------------------KAGGTFTKEVGRVPIMLKSKRCHLRNLTPAQLIERGEHP 194 (951)
Q Consensus 134 cRlr~lTYsa~l~v~i~~~~~~-------------------~~~~~~~v~iG~IPIMvkS~~C~L~~~s~~eli~~gE~~ 194 (951)
||+|++||+|||+|+|.+.... ......++.||+|||||+|++|||+++++++|+++||||
T Consensus 100 cR~r~lTYs~~l~v~i~~~~~~~~~~~~~~~k~~~~~~~~~~~~~~~~v~iG~IPIMv~S~~C~L~~~~~~~l~~~gEc~ 179 (1207)
T d1twfb_ 100 ARLRNLTYSSGLFVDVKKRTYEAIDVPGRELKYELIAEESEDDSESGKVFIGRLPIMLRSKNCYLSEATESDLYKLKECP 179 (1207)
T ss_dssp HHHTTCCCEEEEECCEECCCCC-------------------------CCEEEEEECCTTSTTSGGGTCCHHHHHHTTCCT
T ss_pred HHhcCCccceEEEEEEEEEEEecccccccccceeecccccccceeeeeEEEEECCEEeCCCcccCCCcCHHHHHHcCCCC
Confidence 9999999999999999875421 122345789999999999999999999999999999999
Q ss_pred CCCCCeEEEcCceeEEEEEEeccCCeeEEEEeccccccCcccceeEEEEEEecCCCcceeEEEE---EeecCc----EEE
Q psy8410 195 DEWGGYFIVGGHEKLVRLLINNRRNHPIAIKRNAWKNRGLLFSDLGVYIRSVKRDESATNNVLH---FVTNGS----ARF 267 (951)
Q Consensus 195 ~D~GGYFIInG~EKVIr~li~~r~N~~ia~~R~~~~~rg~~~t~~~v~ir~v~~d~~s~~~~l~---yl~~g~----~~~ 267 (951)
+||||||||||+||||++|+....|++.+.. +++..++.+++.+||+.++......+++ +..++. +.+
T Consensus 180 ~D~GGYFIING~EKVIi~Q~r~~~n~~~v~~-----~~~~~~~~~~~~irS~~~~~~~~~~~~~~~~~~~~~~~~~~i~~ 254 (1207)
T d1twfb_ 180 FDMGGYFIINGSEKVLIAQERSAGNIVQVFK-----KAAPSPISHVAEIRSALEKGSRFISTLQVKLYGREGSSARTIKA 254 (1207)
T ss_dssp TCCCCSEEETTEEEEECEEEEECSSCCEEEE-----CCTTSSEEEEEEEECCCSSSCCCCCEEEEEEESCSSCSSCCEEE
T ss_pred CCCCcEEEECCEEEEEEEEEecCCCeEEEEE-----cCCCCceEEEEEEEEEeCCCCceeEEEEEEEEEcCCccceEEEE
Confidence 9999999999999999999998999988653 4556777889999999877643222222 333332 222
Q ss_pred Eee----------hhhHH-------------------HHHHhHHHHHH--hCCCCHHHHHHHHHhhhcccccccccCCcH
Q psy8410 268 MFS----------HRKSM-------------------CLLGMMQSLHE--EGIHTQHDSKVFFGQIFKEKLQYDLRHLNE 316 (951)
Q Consensus 268 ~~~----------~~k~l-------------------~v~~~L~~~~~--~~i~t~e~aL~yIG~~fr~~~~~~~~~~~~ 316 (951)
.+. +.|++ ...++|+...+ ..+.|+++||.|||++++... ++....
T Consensus 255 ~~~~~~~~IPl~illrALG~~sD~eI~~~i~~~~~~~~~~~~l~~~~~~~~~~~t~e~al~yig~~~~~~~---~~~~~~ 331 (1207)
T d1twfb_ 255 TLPYIKQDIPIVIIFRALGIIPDGEILEHICYDVNDWQMLEMLKPCVEDGFVIQDRETALDFIGRRGTALG---IKKEKR 331 (1207)
T ss_dssp ECTTCSSCEEHHHHHHHTTCCSHHHHHHHHCCCTTCHHHHHHHHHHHHHTTTCCSHHHHHHHHHHTTSCTT---SCHHHH
T ss_pred EeehhcccchHHHHHHHhCCcchhhhhhhcccCchhhHHHHHHHHHHhhccchhhHHHHHHHHHhhccccC---CCccch
Confidence 222 23443 23344444433 357899999999999977532 233456
Q ss_pred HHHHHHHhhccccCCCCC----chhhHhHHHHHHHHHHHHhcCCccCCCcccccchhhhhhHHHHHHHHHHHhhcccc--
Q psy8410 317 VEICDYMLTNCILPHLDD----YWDKFLCLSHMTCKLFHVVQGMVQLDSEDSIMLQEIMTGGSLYLQLLKKEKSGTSA-- 390 (951)
Q Consensus 317 ~~~~~~iL~~~llpHl~~----~~~K~~~L~~Mi~kLl~~~~g~~~~Dd~D~~~nkrv~l~G~Ll~~lfke~~~~~~~-- 390 (951)
.+.++++|++.+|||++. +..|+++|++|++||+.++.|.+.+||+|||+||||+++|+||+.+||+.|++...
T Consensus 332 ~~~~~~iL~~~llpHl~~~~~~~~~K~~~L~~mi~kll~~~~g~~~~dd~D~~~nkrv~~~G~Ll~~~fr~~~~~~~~~i 411 (1207)
T d1twfb_ 332 IQYAKDILQKEFLPHITQLEGFESRKAFFLGYMINRLLLCALDRKDQDDRDHFGKKRLDLAGPLLAQLFKTLFKKLTKDI 411 (1207)
T ss_dssp HHHHHHHHHHTSSTTTCCSSSCHHHHHHHHHHHHHHHHHHHTTSSCCCCTTCGGGEEEECHHHHHHHHHHHHHHHHHHHH
T ss_pred HHHHHHHHHhhhccccccccchhhhHHHHHHHHHHHHHHhhhcccCCcchhhhccchhhhHHHHHHHHHHHHHHHHHHHH
Confidence 889999999999999973 45799999999999999999999999999999999999999999999997766311
Q ss_pred ---------cCChhhHHhhhccchHHHHHHHHHhcCCcCCCccchhhhhhccceeEEecccchhhhcccccccccCcccc
Q psy8410 391 ---------VLKESDIYAAFRASSIESAMTNFLATGNVSAGKNSTLQLMQASGFVIMAENINRMRYMSHFRAVHRGSYFQ 461 (951)
Q Consensus 391 ---------~~~~~~~~~~i~~~~It~~i~~~laTGNw~~~k~~~~~~~q~sGvsqvl~rlN~l~~lSh~Rrv~rg~~f~ 461 (951)
..+..++...+++..||++|++|||||||.. ..+ +++|++|+||+++|+|++++|||+||||+| ++.
T Consensus 412 ~~~~~~~~~~~~~~~~~~~~~~~~it~~i~~~~~TGn~~~--~~~-~~~~~~G~sq~l~r~n~l~~lSh~Rrv~~~-~~~ 487 (1207)
T d1twfb_ 412 FRYMQRTVEEAHDFNMKLAINAKTITSGLKYALATGNWGE--QKK-AMSSRAGVSQVLNRYTYSSTLSHLRRTNTP-IGR 487 (1207)
T ss_dssp HHHHHSCCC--------CCCCTHHHHHHHHHHHHHCCCC------------CCCEEECCCSSHHHHHHHHTEEECC-C--
T ss_pred HhhhccccccccccChhhhhccCcHHHHHHHHHhcCcccc--ccc-ccccccchhhhhhhcCHHHHHHhhhcccCC-ccc
Confidence 1122334445578899999999999999998 333 678999999999999999999999999985 788
Q ss_pred ccccCCCccccCCCCceeecccCCCCccccccccccceeEEeeccCccccccHHHHHHHCCCeeccccccCCCCcceEEE
Q psy8410 462 EMRSSEPRQLRTDAWGFICPVHTPDGTPCGLLNHLTTNCQISEYIPSKVLAQIPSVLVSLGMLPLTPVIQSIPEQALMVM 541 (951)
Q Consensus 462 ~~k~t~~R~Lhps~wGfiCPv~TPeG~~cGLvk~La~~~~Vt~~~~~~~~~~i~~~L~~lG~~~~~~~~~~~~~~~~~V~ 541 (951)
++|+++||+||||||||+||+|||||++|||+||||++|.|+...++ ..+.++|..+|+.++............+||
T Consensus 488 ~~k~~~~R~Lhps~~G~iCPveTPEG~~~GLv~~La~~a~i~~~~~~---~~~~~~l~~~g~~~~~~~~~~~~~~~~~V~ 564 (1207)
T d1twfb_ 488 DGKLAKPRQLHNTHWGLVCPAETPEGQACGLVKNLSLMSCISVGTDP---MPIITFLSEWGMEPLEDYVPHQSPDATRVF 564 (1207)
T ss_dssp ----CCTTSCCGGGTTTBCSSCCCSGGGBTTEEEBCTTCEECCCCCC---HHHHHHHHHTTCEEGGGCCGGGCTTCEEEE
T ss_pred ccccchhhhcchhhccceeeeeCCCCCcccceeccceeeeecccccc---ceeeEEeeccCcccceeeeeccccccceee
Confidence 99999999999999999999999999999999999999999998775 789999999999987654344445688999
Q ss_pred ECCEEEEEEeCccHHHHHHHHHHhhhcCCCCCCceEEEEEcCCCCCCCCCCeEEEEecCcccccceeeec----------
Q psy8410 542 LDGRIVGYILDQIATSLVPKLRMLKIVGEKIPKSLEIVYLKRPEKGMGLYPGLYLFTGPGRMLRPVMNLA---------- 611 (951)
Q Consensus 542 lnG~~iG~~~~~~~~~~~~~lR~~k~~g~~i~~~~ei~~~~~~~~~~~~~~~i~i~td~gR~~RPv~~l~---------- 611 (951)
+||.|+|++++ +..+++.+|.+|+.|. ++.++++.++... .+++|+||+||++|||+.+.
T Consensus 565 ~nG~~~G~~~~--~~~l~~~lr~~R~~g~-i~~~~s~~~~~~~-------~~i~i~td~Gr~~rPlfi~~nd~~~~~~~~ 634 (1207)
T d1twfb_ 565 VNGVWHGVHRN--PARLMETLRTLRRKGD-INPEVSMIRDIRE-------KELKIFTDAGRVYRPLFIVEDDESLGHKEL 634 (1207)
T ss_dssp ETTEEEEEESC--HHHHHHHHHHHHHHTS-SCTTCEEEEETTT-------TEEEEECCSCCEEEEEEEEECCCTTSSCEE
T ss_pred eeeeEEEEEcc--hheeehheeeeeeccC-ccceeeeeeeccc-------cceEEEecCccccCCceeecchhhhcccce
Confidence 99999999974 5889999999999998 9999999887653 35999999999999987643
Q ss_pred -----------------------------------cccccccCCccceeeeeeecccccCc-------------------
Q psy8410 612 -----------------------------------AGNIEWIGTFEQVFMDICITMKEAYP------------------- 637 (951)
Q Consensus 612 -----------------------------------~g~iE~I~~~Eq~~~~Ia~~~~~~~~------------------- 637 (951)
.|.|||||++||+++.||++++|+..
T Consensus 635 ~mqrq~v~~l~~~e~~~v~~~~e~~~~~~~~~~~~~g~ieyid~~E~~~~~Ia~~~~~i~~~~~~~~~~~~~~~~~~~~~ 714 (1207)
T d1twfb_ 635 KVRKGHIAKLMATEYQDIEGGFEDVEEYTWSSLLNEGLVEYIDAEEEESILIAMQPEDLEPAEANEENDLDVDPAKRIRV 714 (1207)
T ss_dssp SCCHHHHHHHHHHHHCC---------CCCHHHHHHTTSEEEEEHHHHTTCCEESSGGGGCC---------CCCTTSCCCC
T ss_pred eeeHhhHhhhhccccccccccccchhhccccccccCCceeeecchhcceEEEEecccccccccccccccccccchhheee
Confidence 25689999999999999999999853
Q ss_pred ----ceeeeecccCCccccceeeeecCCCCCCCccchhhccccccccccccccccccCCcceEEecCCCceeeecccccc
Q psy8410 638 ----GITTHRELSKTDFLSNLANLIPMPDCNQSPRNMYQCQMGKQTMGTPCLNWRYQGVGKLYRLQTPASPFFRPVHYDT 713 (951)
Q Consensus 638 ----~~~th~Ei~p~~iLsv~AslIPf~~hNqSpRn~yqc~M~KQamG~~~~n~~~R~D~~~y~L~ypQ~Plv~t~~~~~ 713 (951)
..+||+||+|+.|||++|++|||+||||||||||||||+|||||+|++|++.|+|++.|+|+|||+|||+|+.++.
T Consensus 715 ~~~~~~~th~Ei~p~~ilg~~as~iPf~~hNqSpRn~yq~qm~KQa~G~~~~~~~~r~D~~~~~l~~pQ~Plv~t~~~~~ 794 (1207)
T d1twfb_ 715 SHHATTFTHCEIHPSMILGVAASIIPFPDHNQSPRNTYQSAMGKQAMGVFLTNYNVRMDTMANILYYPQKPLGTTRAMEY 794 (1207)
T ss_dssp CCCCSCCCEECSCGGGGSCTTGGGSSSGGGSCHHHHHHHHHHGGGBCBCSCTTTTTCCCSEEEEESSCBCCSEECTTHHH
T ss_pred ecccccccccccccceEEeeecceEEecccccccceeecccCCcccCCccccccceeccccceeEecCCCceeeccchhh
Confidence 2479999999999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred cccccCCCCceEEEEEEeccCCCCCCcEEEeccccccCceeeeEEEeEEEEEeccccCcceeeeeeCCCCccceeEEEec
Q psy8410 714 LDMDNFPMGTNAIVAVISYTGYDMEDAMILNKSSYERGFAHGCIFKSMFIELESGYNYYGTETMYSGVDGSMMQAQIFFG 793 (951)
Q Consensus 714 ~~~~~~p~G~NaiVAv~sytGYn~EDAiIiNkss~dRG~~~~~~yks~~~~~~~~~~~~g~E~~y~g~~G~~~~~~i~~g 793 (951)
++++++|+|+||+||||||+||||||||||||+|+|||+|++++|+++.+++++.. .|.|..+.
T Consensus 795 ~~~~e~p~G~N~iVAvmsy~GYN~EDAiIiNk~si~rG~f~s~~~k~~~~~~~~~~--~~~~~~~~-------------- 858 (1207)
T d1twfb_ 795 LKFRELPAGQNAIVAIACYSGYNQEDSMIMNQSSIDRGLFRSLFFRSYMDQEKKYG--MSITETFE-------------- 858 (1207)
T ss_dssp HTTTTSCCCEEEEEEECBSSSTTTTTEEEEEHHHHHTTTTCEEEEEEEEECCCCSC--TTCCCEES--------------
T ss_pred hhhhcccchhceEEEEEeccCcccccccccchhhhhhcccceeeeEEEEEEecccc--cccccccc--------------
Confidence 99999999999999999999999999999999999999999999999887764411 11110000
Q ss_pred eeeeeeeeecccccccccccccCCCCChhhhhcCCCCCceeecceecCCCCEEEEecCCCC--------------eEEEE
Q psy8410 794 VVHYQRLRHMVSDKWQTKDYFGRDPANKALEDKLGPDGLVYVGAKLNERDPMYSYWKESEN--------------RYVTC 859 (951)
Q Consensus 794 ~~~yq~l~h~v~dk~~~~~~~~~~p~~~~~~~~Ld~DGl~~~G~~v~~gd~l~~~~~~~~~--------------~~~~~ 859 (951)
.. ......+ .+...+++||+||+|++|++|.+||+|+||+.+... ++.++
T Consensus 859 -----------~~--~~~~~~~---~~~~~~~~Ld~dGi~~~G~~v~~gdilvgk~~p~~~~~~~~~~~~~~~~~~~~s~ 922 (1207)
T d1twfb_ 859 -----------KP--QRTNTLR---MKHGTYDKLDDDGLIAPGVRVSGEDVIIGKTTPISPDEEELGQRTAYHSKRDAST 922 (1207)
T ss_dssp -----------CC--CCSSSCB---CCSSCGGGCCTTSBCCTTCEECTTCEEECEECCCC-------------CCBBCCE
T ss_pred -----------cc--ccccccc---cchhhhhcccccccccccccccCCceeeeeeeccCCchhhhhhccccccccceeE
Confidence 00 0000111 122357899999999999999999999999875321 24567
Q ss_pred EeCCCccEEEEEEEEecCCCCCCCCCCeEEEEEEeeecCCCcccceeccCCCccEEeeeecCCCCCCCCCCCCCcEEeCC
Q psy8410 860 RYSGKEEMCVEVVRMSSGFTEGGSVTPNCAYIGYRIQRNPTVGDKFASRAGQKGICSVKWPAEDLPFTDSGLVPDIVFNP 939 (951)
Q Consensus 860 ~~~~~e~g~vd~v~~~~~~~~~~~~~~~~~~i~~r~~R~p~iGDKfssRHGQKGv~~~i~~~edmPft~~G~~PDiI~NP 939 (951)
+++.+|.|+||+|..+.+.+ +.+.++|++|+.|+|+||||||||||||||||++||+||||||+||++|||||||
T Consensus 923 ~~~~~~~g~V~~v~~~~~~~-----~~~~~kv~i~~~R~p~iGDKfasRhGqKGv~s~i~p~eDMPf~~dG~~pDiI~NP 997 (1207)
T d1twfb_ 923 PLRSTENGIVDQVLVTTNQD-----GLKFVKVRVRTTKIPQIGDKFASRHGQKGTIGITYRREDMPFTAEGIVPDLIINP 997 (1207)
T ss_dssp ECCTTCCEEEEEEEEEECSS-----SCEEEEEEEEEEECCCTTCEEECTTSCEEEEEEEECTTTSCEETTSCCCSEEECG
T ss_pred EccCCCCeEEEEEEEeeccc-----ccceeeEEEEEEeccchhhhhhhccCCcceeeeeechhhCCcCCCCCCccEEECC
Confidence 88999999999999987753 2689999999999999999999999999999999999999999999999999999
Q ss_pred CCCCcccCCCCC
Q psy8410 940 HGFPSRMTIGFL 951 (951)
Q Consensus 940 hg~PSRMTiG~l 951 (951)
||||||||||||
T Consensus 998 ~g~PSRMtiGql 1009 (1207)
T d1twfb_ 998 HAIPSRMTVAHL 1009 (1207)
T ss_dssp GGSTTTTCHHHH
T ss_pred CcCcccCcHHHH
Confidence 999999999996
|
| >d1smyc_ e.29.1.1 (C:) RNA-polymerase beta {Thermus thermophilus [TaxId: 274]} | Back information, alignment and structure |
|---|
| >d1smyc_ e.29.1.1 (C:) RNA-polymerase beta {Thermus thermophilus [TaxId: 274]} | Back information, alignment and structure |
|---|
| >d1twfb_ e.29.1.1 (B:) RBP2 {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]} | Back information, alignment and structure |
|---|