Citrus Sinensis ID: 001021
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 | 1186 | 2.2.26 [Sep-21-2011] | |||||||
| Q42877 | 1191 | DNA-directed RNA polymera | N/A | no | 0.994 | 0.990 | 0.949 | 0.0 | |
| P38420 | 1188 | DNA-directed RNA polymera | yes | no | 0.983 | 0.981 | 0.943 | 0.0 | |
| Q54J75 | 1170 | DNA-directed RNA polymera | yes | no | 0.970 | 0.983 | 0.685 | 0.0 | |
| P30876 | 1174 | DNA-directed RNA polymera | yes | no | 0.974 | 0.984 | 0.673 | 0.0 | |
| Q8CFI7 | 1174 | DNA-directed RNA polymera | yes | no | 0.974 | 0.984 | 0.672 | 0.0 | |
| P08266 | 1176 | DNA-directed RNA polymera | yes | no | 0.962 | 0.970 | 0.664 | 0.0 | |
| Q02061 | 1210 | DNA-directed RNA polymera | yes | no | 0.973 | 0.954 | 0.625 | 0.0 | |
| Q10578 | 1193 | DNA-directed RNA polymera | yes | no | 0.974 | 0.968 | 0.633 | 0.0 | |
| A5DHT2 | 1236 | DNA-directed RNA polymera | N/A | no | 0.972 | 0.932 | 0.609 | 0.0 | |
| Q6FLD5 | 1223 | DNA-directed RNA polymera | yes | no | 0.983 | 0.954 | 0.606 | 0.0 |
| >sp|Q42877|RPB2_SOLLC DNA-directed RNA polymerase II subunit RPB2 OS=Solanum lycopersicum GN=RPB2 PE=2 SV=1 | Back alignment and function desciption |
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Score = 2338 bits (6059), Expect = 0.0, Method: Compositional matrix adjust.
Identities = 1134/1194 (94%), Positives = 1162/1194 (97%), Gaps = 14/1194 (1%)
Query: 2 MEDDYDYEEQHQQEEEDEEEEITQEDAWAVISAYFEEKGLVRQQLDSFDEFIQNTMQEIV 61
MED+Y + Q +D+EEEITQEDAWAVISAYFEEKGLVRQQLDSFDEFIQNTMQEIV
Sbjct: 3 MEDEY----EPQYNVDDDEEEITQEDAWAVISAYFEEKGLVRQQLDSFDEFIQNTMQEIV 58
Query: 62 DESADIEIRPESQHNPGQQSDFAE---------IYLSKPMMTESDGETATLFPKAARLRN 112
DESADIEIRPESQHNPG QSDFAE IYLSKPMMTESDGETATLFPKAARLRN
Sbjct: 59 DESADIEIRPESQHNPGHQSDFAETIYKINFGQIYLSKPMMTESDGETATLFPKAARLRN 118
Query: 113 LTYSAPLYVDVTKRVIKKGHDGEEVTETQDFTKVFIGKVPIMLRSSYCTLYQNSEKDLTE 172
LTYSAPLYVDVTKRVIKKGHDGEEVTETQDFTKVFIGKVPIMLRSSYCTLYQNSEKDLTE
Sbjct: 119 LTYSAPLYVDVTKRVIKKGHDGEEVTETQDFTKVFIGKVPIMLRSSYCTLYQNSEKDLTE 178
Query: 173 LGECPYDQGGYFIINGSEKVLIAQEKMSTNHVYVFKKRQPNKYAYVAEVRSMAESQNRPP 232
LGECP DQGGYFIINGSEKVLIAQEKMSTNHVYVFKKRQPNKYA+VAEVRSMA++QNRPP
Sbjct: 179 LGECPLDQGGYFIINGSEKVLIAQEKMSTNHVYVFKKRQPNKYAFVAEVRSMADTQNRPP 238
Query: 233 STMFVRMLSRTSAKGGSSGQYIRATLPYIRTEIPIIIVFRALGFVADKDILEHICYDFQD 292
STMFVRMLSRTSAKGGSSGQYIRATLPYIRTEIPIIIVFRALGFVADKDILEHICYDF D
Sbjct: 239 STMFVRMLSRTSAKGGSSGQYIRATLPYIRTEIPIIIVFRALGFVADKDILEHICYDFND 298
Query: 293 TQMMELLRPSLEEAFVIQNQQVALDYIGKRGATVGVTRDKRIKYAKEILQKEMLPHVGTG 352
TQMMELLRPSLEEAFVIQNQQVALDYIGKRGATVGVTR+KRIKYAKEILQKEMLPHVG G
Sbjct: 299 TQMMELLRPSLEEAFVIQNQQVALDYIGKRGATVGVTREKRIKYAKEILQKEMLPHVGVG 358
Query: 353 DFCETKKAYYFGYIIHRLLLCALGRRAEDDRDHYGNKRLDLAGPLLGGLFRMLFRKLTRD 412
++CETKKAYYFGYIIHRLLLCALGRRAEDDRDHYGNKRLDLAGPLLGGLFRMLFRKLTRD
Sbjct: 359 EYCETKKAYYFGYIIHRLLLCALGRRAEDDRDHYGNKRLDLAGPLLGGLFRMLFRKLTRD 418
Query: 413 VRAYVQKCVDNGKDVNLQFAIKAKTITSGLKYSLATGNWGQANAAGTRAGVSQVLNRLTY 472
VR YVQKCVDNGKDVNLQFAIKAKTITSGLKYSLATGNWGQANAAGTRAGVSQVLNRLTY
Sbjct: 419 VRGYVQKCVDNGKDVNLQFAIKAKTITSGLKYSLATGNWGQANAAGTRAGVSQVLNRLTY 478
Query: 473 ASTLSHLRRLNSPIGREGKLAKPRQLHNSQWGMMCPAETPEGQACGLVKNLALMVYITVG 532
ASTLSHLRRLNSPIGREGKLAKPRQLHNSQWGMMCPAETPEGQACGLVKNLALMVYITVG
Sbjct: 479 ASTLSHLRRLNSPIGREGKLAKPRQLHNSQWGMMCPAETPEGQACGLVKNLALMVYITVG 538
Query: 533 SAAYPILEFLEEWGTENFEEISPAVIPQATKIFVNGCWVGIHRDPEMLVKTLRRLRRRVD 592
SAAYPILEFLEEWGTENFEEISPAVIPQATKIFVNG WVGIHRDP+MLV+TLRRLRRRVD
Sbjct: 539 SAAYPILEFLEEWGTENFEEISPAVIPQATKIFVNGTWVGIHRDPDMLVRTLRRLRRRVD 598
Query: 593 VNTEVGVVRDIRLKELRIYTDYGRCSRPLFIVEKQRLLIKKRDIIALQQRESPEDGGWHD 652
VNTEVGVVRDIRLKELRIYTDYGRCSRPLFIVEKQRL+IKK+DI LQQRESP++GGWHD
Sbjct: 599 VNTEVGVVRDIRLKELRIYTDYGRCSRPLFIVEKQRLMIKKKDIQTLQQRESPDEGGWHD 658
Query: 653 LVAKGFIEYIDTEEEETTMISMTINDLVQARLHPEEAYADTYTHCEIHPSLILGVCASII 712
LVAKG+IEYIDTEEEETTMISMTINDLVQARL+P +AY+DTYTHCEIHPSLILGVCASII
Sbjct: 659 LVAKGYIEYIDTEEEETTMISMTINDLVQARLNPGDAYSDTYTHCEIHPSLILGVCASII 718
Query: 713 PFPDHNQSPRNTYQSAMGKQAMGIYVTNYQFRMDTLAYVLYYPQKPLVTTRAMEHLHFRQ 772
PFPDHNQSPRNTYQSAMGKQAMGIYVTNYQFRMDTLAYVLYYPQKPLVTTRAMEHLHFRQ
Sbjct: 719 PFPDHNQSPRNTYQSAMGKQAMGIYVTNYQFRMDTLAYVLYYPQKPLVTTRAMEHLHFRQ 778
Query: 773 LPAGINAIVAIACYSGYNQEDSVIMNQSSIDRGFFRSLFFRSYRDEEKKMGTLVKEDFGR 832
LPAGINAIVAI+CYSGYNQEDSVIMNQSSIDRGFFRSLFFRSYRDEEKKMGTLVKEDFGR
Sbjct: 779 LPAGINAIVAISCYSGYNQEDSVIMNQSSIDRGFFRSLFFRSYRDEEKKMGTLVKEDFGR 838
Query: 833 PDRSNTMGMRHGSYDKLDDDGLAPPGTRVSGEDVIIGKTTPISQDEAQGQASRYTRRDHS 892
PDR++TMGMRHGSYDKLDDDGLAPPGTRVSGEDVIIGKTTPISQD+AQGQASRYTR+DHS
Sbjct: 839 PDRASTMGMRHGSYDKLDDDGLAPPGTRVSGEDVIIGKTTPISQDDAQGQASRYTRKDHS 898
Query: 893 ISLRHSETGMVDQVLLTTNADGLRFVKVRVRSVRIPQIGDKFSSRHGQKGTVGMTYTQED 952
SLRHSETGMVDQVLLTTNADGLRFVKVRVRSVRIPQIGDKFSSRHGQKGTVGMTYTQED
Sbjct: 899 TSLRHSETGMVDQVLLTTNADGLRFVKVRVRSVRIPQIGDKFSSRHGQKGTVGMTYTQED 958
Query: 953 MPWTVEGITPDIIVNPHAIPSRMTIGQLIECIMGKVAAHMGKEGDATPFTDVTVDNISKA 1012
MPWTVEGITPDIIVNPHAIPSRMTIGQLIECIMGKVAAHMGKEGDATPFTDVTVDNISKA
Sbjct: 959 MPWTVEGITPDIIVNPHAIPSRMTIGQLIECIMGKVAAHMGKEGDATPFTDVTVDNISKA 1018
Query: 1013 LHKCGYQMRGFETMYNGHTGRRLTAMIFLGPTYYQRLKHMVDDKIHSRGRGPVQILTRQP 1072
LHKCGYQMRGFETMYNGHTGRRL+AMIFLGPTYYQRLKHMVDDKIHSRGRGPVQILTRQP
Sbjct: 1019 LHKCGYQMRGFETMYNGHTGRRLSAMIFLGPTYYQRLKHMVDDKIHSRGRGPVQILTRQP 1078
Query: 1073 AEGRSRDGGLRFGEMERDCMIAHGASHFLKERLFDQSDAYRVHVCEHCGLIAIANLKKNS 1132
AEGRSRDGGLRFGEMERDCMIAHGA+HFLKERLFDQSDAYRVHVCE CGLIAIANLKKNS
Sbjct: 1079 AEGRSRDGGLRFGEMERDCMIAHGAAHFLKERLFDQSDAYRVHVCERCGLIAIANLKKNS 1138
Query: 1133 FECRGCKNKTDIVQVHIPYACKLLFQELMAMAIAPRMLTKEDTKQSKDHKKKGA 1186
FECRGCKNKTDIVQVHIPYACKLLFQELMAMAIAPRMLTK D K +KD KKKGA
Sbjct: 1139 FECRGCKNKTDIVQVHIPYACKLLFQELMAMAIAPRMLTK-DVKLAKDQKKKGA 1191
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DNA-dependent RNA polymerase catalyzes the transcription of DNA into RNA using the four ribonucleoside triphosphates as substrates. Second largest component of RNA polymerase II which synthesizes mRNA precursors and many functional non-coding RNAs. Proposed to contribute to the polymerase catalytic activity and forms the polymerase active center together with the largest subunit. Pol II is the central component of the basal RNA polymerase II transcription machinery. It is composed of mobile elements that move relative to each other. RPB2 is part of the core element with the central large cleft, the clamp element that moves to open and close the cleft and the jaws that are thought to grab the incoming DNA template. Solanum lycopersicum (taxid: 4081) EC: 2EC: .EC: 7EC: .EC: 7EC: .EC: 6 |
| >sp|P38420|RPB2_ARATH DNA-directed RNA polymerase II subunit RPB2 OS=Arabidopsis thaliana GN=RPB135 PE=2 SV=2 | Back alignment and function description |
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| >sp|Q54J75|RPB2_DICDI DNA-directed RNA polymerase II subunit rpb2 OS=Dictyostelium discoideum GN=polr2b PE=3 SV=1 | Back alignment and function description |
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| >sp|P30876|RPB2_HUMAN DNA-directed RNA polymerase II subunit RPB2 OS=Homo sapiens GN=POLR2B PE=1 SV=1 | Back alignment and function description |
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| >sp|Q8CFI7|RPB2_MOUSE DNA-directed RNA polymerase II subunit RPB2 OS=Mus musculus GN=Polr2b PE=2 SV=2 | Back alignment and function description |
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| >sp|P08266|RPB2_DROME DNA-directed RNA polymerase II subunit RPB2 OS=Drosophila melanogaster GN=RpII140 PE=2 SV=2 | Back alignment and function description |
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| >sp|Q02061|RPB2_SCHPO DNA-directed RNA polymerase II subunit RPB2 OS=Schizosaccharomyces pombe (strain 972 / ATCC 24843) GN=rpb2 PE=1 SV=2 | Back alignment and function description |
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| >sp|Q10578|RPB2_CAEEL DNA-directed RNA polymerase II subunit RPB2 OS=Caenorhabditis elegans GN=rpb-2 PE=2 SV=2 | Back alignment and function description |
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| >sp|A5DHT2|RPB2_PICGU DNA-directed RNA polymerase II subunit RPB2 OS=Meyerozyma guilliermondii (strain ATCC 6260 / CBS 566 / DSM 6381 / JCM 1539 / NBRC 10279 / NRRL Y-324) GN=RPB2 PE=3 SV=3 | Back alignment and function description |
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| >sp|Q6FLD5|RPB2_CANGA DNA-directed RNA polymerase II subunit RPB2 OS=Candida glabrata (strain ATCC 2001 / CBS 138 / JCM 3761 / NBRC 0622 / NRRL Y-65) GN=RPB2 PE=3 SV=1 | 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 | 1186 | ||||||
| 449433841 | 1199 | PREDICTED: DNA-directed RNA polymerase I | 0.984 | 0.974 | 0.958 | 0.0 | |
| 255556051 | 1194 | DNA-directed RNA polymerase II subunit, | 0.998 | 0.991 | 0.955 | 0.0 | |
| 356558375 | 1193 | PREDICTED: DNA-directed RNA polymerase I | 0.975 | 0.969 | 0.956 | 0.0 | |
| 356530409 | 1192 | PREDICTED: DNA-directed RNA polymerase I | 0.974 | 0.969 | 0.955 | 0.0 | |
| 350534526 | 1191 | DNA-directed RNA polymerase II subunit R | 0.994 | 0.990 | 0.949 | 0.0 | |
| 225446351 | 1193 | PREDICTED: DNA-directed RNA polymerase I | 0.980 | 0.974 | 0.950 | 0.0 | |
| 357438193 | 1213 | DNA-directed RNA polymerase [Medicago tr | 0.976 | 0.954 | 0.941 | 0.0 | |
| 70794966 | 1191 | RNA polymerase II second largest subunit | 0.983 | 0.979 | 0.958 | 0.0 | |
| 68300814 | 1200 | RNA polymerase II second largest subunit | 0.981 | 0.97 | 0.946 | 0.0 | |
| 68300812 | 1195 | RNA polymerase II second largest subunit | 0.980 | 0.973 | 0.955 | 0.0 |
| >gi|449433841|ref|XP_004134705.1| PREDICTED: DNA-directed RNA polymerase II subunit RPB2-like [Cucumis sativus] gi|449479313|ref|XP_004155566.1| PREDICTED: DNA-directed RNA polymerase II subunit RPB2-like [Cucumis sativus] | Back alignment and taxonomy information |
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Score = 2348 bits (6085), Expect = 0.0, Method: Compositional matrix adjust.
Identities = 1129/1178 (95%), Positives = 1153/1178 (97%), Gaps = 10/1178 (0%)
Query: 18 DEEEEITQEDAWAVISAYFEEKGLVRQQLDSFDEFIQNTMQEIVDESADIEIRPESQHNP 77
D+EEEITQEDAWAVISAYFEEKGLVRQQLDSFDEFIQNTMQEIVDESADIEIRPESQHNP
Sbjct: 23 DDEEEITQEDAWAVISAYFEEKGLVRQQLDSFDEFIQNTMQEIVDESADIEIRPESQHNP 82
Query: 78 GQQSD---------FAEIYLSKPMMTESDGETATLFPKAARLRNLTYSAPLYVDVTKRVI 128
G QSD F +IYLSKPMMTESDGETATLFPKAARLRNLTYSAPLYVDV+KRVI
Sbjct: 83 GHQSDVAETIYKISFGQIYLSKPMMTESDGETATLFPKAARLRNLTYSAPLYVDVSKRVI 142
Query: 129 KKGHDGEEVTETQDFTKVFIGKVPIMLRSSYCTLYQNSEKDLTELGECPYDQGGYFIING 188
KKGHDGEEVTETQDFTKVFIGKVPIMLRSSYCTLYQNSEKDLTELGECPYDQGGYFIING
Sbjct: 143 KKGHDGEEVTETQDFTKVFIGKVPIMLRSSYCTLYQNSEKDLTELGECPYDQGGYFIING 202
Query: 189 SEKVLIAQEKMSTNHVYVFKKRQPNKYAYVAEVRSMAESQNRPPSTMFVRMLSRTSAKGG 248
SEKVLIAQEKMSTNHVYVFKKRQPNKYA+VAEVRSMAESQNRPPSTMFVRMLSRTSAKGG
Sbjct: 203 SEKVLIAQEKMSTNHVYVFKKRQPNKYAFVAEVRSMAESQNRPPSTMFVRMLSRTSAKGG 262
Query: 249 SSGQYIRATLPYIRTEIPIIIVFRALGFVADKDILEHICYDFQDTQMMELLRPSLEEAFV 308
SSGQYIRATLPYIR EIPIIIVFRALGFVADKDILEHICYDF DTQMMELLRPSLEEAFV
Sbjct: 263 SSGQYIRATLPYIRNEIPIIIVFRALGFVADKDILEHICYDFSDTQMMELLRPSLEEAFV 322
Query: 309 IQNQQVALDYIGKRGATVGVTRDKRIKYAKEILQKEMLPHVGTGDFCETKKAYYFGYIIH 368
IQNQQVALDYIGKRG+TVGVT++KRIKYAKEILQKEMLPHVG G+FCETKKAYYFGYIIH
Sbjct: 323 IQNQQVALDYIGKRGSTVGVTKEKRIKYAKEILQKEMLPHVGVGEFCETKKAYYFGYIIH 382
Query: 369 RLLLCALGRRAEDDRDHYGNKRLDLAGPLLGGLFRMLFRKLTRDVRAYVQKCVDNGKDVN 428
RLLLCALGRRAEDDRDHYGNKRLDLAGPLLGGLFRMLFRKLTRDVR YVQKCVDNGKDVN
Sbjct: 383 RLLLCALGRRAEDDRDHYGNKRLDLAGPLLGGLFRMLFRKLTRDVRGYVQKCVDNGKDVN 442
Query: 429 LQFAIKAKTITSGLKYSLATGNWGQANAAGTRAGVSQVLNRLTYASTLSHLRRLNSPIGR 488
LQFAIKAKTITSGLKYSLATGNWGQANAAGTRAGVSQVLNRLTYASTLSHLRRLNSPIGR
Sbjct: 443 LQFAIKAKTITSGLKYSLATGNWGQANAAGTRAGVSQVLNRLTYASTLSHLRRLNSPIGR 502
Query: 489 EGKLAKPRQLHNSQWGMMCPAETPEGQACGLVKNLALMVYITVGSAAYPILEFLEEWGTE 548
EGKLAKPRQLHNSQWGMMCPAETPEGQACGLVKNLALMVYITVGSAAYPILEFLEEWGTE
Sbjct: 503 EGKLAKPRQLHNSQWGMMCPAETPEGQACGLVKNLALMVYITVGSAAYPILEFLEEWGTE 562
Query: 549 NFEEISPAVIPQATKIFVNGCWVGIHRDPEMLVKTLRRLRRRVDVNTEVGVVRDIRLKEL 608
NFEEISPAVIPQATKIFVNGCWVGIHRDPEMLVKTLRRLRRRVDVNTEVGVVRDIRLKEL
Sbjct: 563 NFEEISPAVIPQATKIFVNGCWVGIHRDPEMLVKTLRRLRRRVDVNTEVGVVRDIRLKEL 622
Query: 609 RIYTDYGRCSRPLFIVEKQRLLIKKRDIIALQQRESPEDGGWHDLVAKGFIEYIDTEEEE 668
RIYTDYGRCSRPLFIVEKQRLLIKK+DI ALQQRESPEDGGWHDLVAKGFIEYIDTEEEE
Sbjct: 623 RIYTDYGRCSRPLFIVEKQRLLIKKKDIHALQQRESPEDGGWHDLVAKGFIEYIDTEEEE 682
Query: 669 TTMISMTINDLVQARLHPEEAYADTYTHCEIHPSLILGVCASIIPFPDHNQSPRNTYQSA 728
TTMISMTI+DL+QAR++P EAY+DTYTHCEIHPSLILGVCASIIPFPDHNQSPRNTYQSA
Sbjct: 683 TTMISMTISDLIQARINPVEAYSDTYTHCEIHPSLILGVCASIIPFPDHNQSPRNTYQSA 742
Query: 729 MGKQAMGIYVTNYQFRMDTLAYVLYYPQKPLVTTRAMEHLHFRQLPAGINAIVAIACYSG 788
MGKQAMGIYVTNYQFRMDTLAYVLYYPQKPLVTTRAMEHLHFRQLPAGINAIVAIACYSG
Sbjct: 743 MGKQAMGIYVTNYQFRMDTLAYVLYYPQKPLVTTRAMEHLHFRQLPAGINAIVAIACYSG 802
Query: 789 YNQEDSVIMNQSSIDRGFFRSLFFRSYRDEEKKMGTLVKEDFGRPDRSNTMGMRHGSYDK 848
YNQEDSVIMNQSSIDRGFFRSLFFRSYRDEEKKMGTLVKEDFGRPDRSNTMGMRHGSYDK
Sbjct: 803 YNQEDSVIMNQSSIDRGFFRSLFFRSYRDEEKKMGTLVKEDFGRPDRSNTMGMRHGSYDK 862
Query: 849 LDDDGLAPPGTRVSGEDVIIGKTTPISQDEAQGQASRYTRRDHSISLRHSETGMVDQVLL 908
LDDDGLAPPGTRVSGEDVIIGKTTPISQ+EAQGQA+RY+RRDHSISLRHSE G+VDQVLL
Sbjct: 863 LDDDGLAPPGTRVSGEDVIIGKTTPISQEEAQGQAARYSRRDHSISLRHSENGIVDQVLL 922
Query: 909 TTNADGLRFVKVRVRSVRIPQIGDKFSSRHGQKGTVGMTYTQEDMPWTVEGITPDIIVNP 968
TTNADGLRFVKVRVRSVRIPQIGDKFSSRHGQKGTVGMTYTQEDMPWTVEGITPDIIVNP
Sbjct: 923 TTNADGLRFVKVRVRSVRIPQIGDKFSSRHGQKGTVGMTYTQEDMPWTVEGITPDIIVNP 982
Query: 969 HAIPSRMTIGQLIECIMGKVAAHMGKEGDATPFTDVTVDNISKALHKCGYQMRGFETMYN 1028
HAIPSRMTIGQLIECIMGKVAAHMGKEGDATPFTDVTVDNISKALHKCGYQMRGFETMYN
Sbjct: 983 HAIPSRMTIGQLIECIMGKVAAHMGKEGDATPFTDVTVDNISKALHKCGYQMRGFETMYN 1042
Query: 1029 GHTGRRLTAMIFLGPTYYQRLKHMVDDKIHSRGRGPVQILTRQPAEGRSRDGGLRFGEME 1088
GHTGRRL+AMIFLGPTYYQRLKHMVDDKIHSRGRGPVQILTRQPAEGRSRDGGLRFGEME
Sbjct: 1043 GHTGRRLSAMIFLGPTYYQRLKHMVDDKIHSRGRGPVQILTRQPAEGRSRDGGLRFGEME 1102
Query: 1089 RDCMIAHGASHFLKERLFDQSDAYRVHVCEHCGLIAIANLKKNSFECRGCKNKTDIVQVH 1148
RDCMIAHGA+HFLKERLFDQSDAYR+HVCE CGLIAIANLKK+SFECRGCKNKTDIVQV+
Sbjct: 1103 RDCMIAHGAAHFLKERLFDQSDAYRIHVCECCGLIAIANLKKSSFECRGCKNKTDIVQVY 1162
Query: 1149 IPYACKLLFQELMAMAIAPRMLTKEDTKQSKDHKKKGA 1186
IPYACKLLFQELMAMAIAPRM TKE K KD KKKG+
Sbjct: 1163 IPYACKLLFQELMAMAIAPRMFTKE-IKPLKDQKKKGS 1199
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Source: Cucumis sativus Species: Cucumis sativus Genus: Cucumis Family: Cucurbitaceae Order: Cucurbitales Class: Phylum: Streptophyta Superkingdom: Eukaryota |
| >gi|255556051|ref|XP_002519060.1| DNA-directed RNA polymerase II subunit, putative [Ricinus communis] gi|223541723|gb|EEF43271.1| DNA-directed RNA polymerase II subunit, putative [Ricinus communis] | Back alignment and taxonomy information |
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| >gi|356558375|ref|XP_003547482.1| PREDICTED: DNA-directed RNA polymerase II subunit RPB2-like [Glycine max] | Back alignment and taxonomy information |
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| >gi|356530409|ref|XP_003533774.1| PREDICTED: DNA-directed RNA polymerase II subunit RPB2-like [Glycine max] | Back alignment and taxonomy information |
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| >gi|350534526|ref|NP_001233889.1| DNA-directed RNA polymerase II subunit RPB2 [Solanum lycopersicum] gi|11134656|sp|Q42877.1|RPB2_SOLLC RecName: Full=DNA-directed RNA polymerase II subunit RPB2; Short=RNA polymerase II subunit 2; Short=RNA polymerase II subunit B2; AltName: Full=DNA-directed RNA polymerase II 135 kDa polypeptide gi|1049068|gb|AAC49273.1| RNA polymerase II subunit 2 [Solanum lycopersicum] | Back alignment and taxonomy information |
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| >gi|225446351|ref|XP_002274051.1| PREDICTED: DNA-directed RNA polymerase II subunit RPB2 [Vitis vinifera] gi|147841183|emb|CAN72948.1| hypothetical protein VITISV_033708 [Vitis vinifera] gi|302143287|emb|CBI21848.3| unnamed protein product [Vitis vinifera] | Back alignment and taxonomy information |
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| >gi|357438193|ref|XP_003589372.1| DNA-directed RNA polymerase [Medicago truncatula] gi|355478420|gb|AES59623.1| DNA-directed RNA polymerase [Medicago truncatula] | Back alignment and taxonomy information |
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| >gi|70794966|gb|AAZ08457.1| RNA polymerase II second largest subunit [Rhododendron macrophyllum] | Back alignment and taxonomy information |
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| >gi|68300814|gb|AAY89348.1| RNA polymerase II second largest subunit [Antirrhinum majus] | Back alignment and taxonomy information |
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| >gi|68300812|gb|AAY89347.1| RNA polymerase II second largest subunit [Petunia x hybrida] | Back alignment and taxonomy information |
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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 | 1186 | ||||||
| TAIR|locus:2119013 | 1188 | NRPB2 [Arabidopsis thaliana (t | 0.970 | 0.968 | 0.925 | 0.0 | |
| DICTYBASE|DDB_G0288257 | 1170 | rpb2 "RNA polymerase II core s | 0.954 | 0.967 | 0.681 | 0.0 | |
| UNIPROTKB|A5PJW8 | 1174 | POLR2B "DNA-directed RNA polym | 0.955 | 0.965 | 0.666 | 0.0 | |
| UNIPROTKB|E2RNN5 | 1174 | POLR2B "DNA-directed RNA polym | 0.955 | 0.965 | 0.666 | 0.0 | |
| UNIPROTKB|I3LGP4 | 1167 | POLR2B "DNA-directed RNA polym | 0.955 | 0.970 | 0.666 | 0.0 | |
| UNIPROTKB|C9J2Y9 | 1167 | POLR2B "DNA-directed RNA polym | 0.955 | 0.970 | 0.665 | 0.0 | |
| UNIPROTKB|P30876 | 1174 | POLR2B "DNA-directed RNA polym | 0.955 | 0.965 | 0.665 | 0.0 | |
| RGD|1309477 | 1174 | Polr2b "polymerase (RNA) II (D | 0.955 | 0.965 | 0.665 | 0.0 | |
| MGI|MGI:2388280 | 1174 | Polr2b "polymerase (RNA) II (D | 0.955 | 0.965 | 0.664 | 0.0 | |
| UNIPROTKB|F1NCB0 | 1174 | POLR2B "DNA-directed RNA polym | 0.955 | 0.965 | 0.662 | 0.0 |
| TAIR|locus:2119013 NRPB2 [Arabidopsis thaliana (taxid:3702)] | Back alignment and assigned GO terms |
|---|
Score = 5605 (1978.1 bits), Expect = 0., P = 0.
Identities = 1074/1161 (92%), Positives = 1101/1161 (94%)
Query: 28 AWAVISAYFEEKGLVRQQLDSFDEFIQNTMQEIVDESADIEIRPESQHNPGQQSDFAE-- 85
AWAVISAYFEEKGLVRQQLDSFDEFIQNTMQEIVDESADIEIRPESQHNPG QSDFAE
Sbjct: 26 AWAVISAYFEEKGLVRQQLDSFDEFIQNTMQEIVDESADIEIRPESQHNPGHQSDFAETI 85
Query: 86 -------IYLSKPMMTESDGETATLFPKAARLRNLTYSAPLYVDVTKRVIKKGHDGEEVT 138
IYLSKPMMTESDGETATLFPKAARLRNLTYSAPLYVDVTKRVIKKGHDGEEVT
Sbjct: 86 YKISFGQIYLSKPMMTESDGETATLFPKAARLRNLTYSAPLYVDVTKRVIKKGHDGEEVT 145
Query: 139 ETQDFTKVFIGKVPIMLRSSYCTLYQNSEKDLTELGECPYDQGGYFIINGSEKVLIAQEK 198
ETQDFTKVFIGKVPIMLRSSYCTL+QNSEKDLTELGECPYDQGGYFIINGSEKVLIAQEK
Sbjct: 146 ETQDFTKVFIGKVPIMLRSSYCTLFQNSEKDLTELGECPYDQGGYFIINGSEKVLIAQEK 205
Query: 199 MSTNHVYVFKKRQPNKYAYVAEVRSMAESQNRPPSTMFVRMLSRTSAKGGSSGQYIRATL 258
MSTNHVYVFKKRQPNKYAYV EVRSMAE+QNRPPSTMFVRML+R SAKGGSSGQYIR TL
Sbjct: 206 MSTNHVYVFKKRQPNKYAYVGEVRSMAENQNRPPSTMFVRMLARASAKGGSSGQYIRCTL 265
Query: 259 PYIRTEIPIIIVFRALGFVADKDILEHICYDFQDTQMMELLRPSLEEAFVIQNQQVALDY 318
PYIRTEIPIIIVFRALGFVADKDILEHICYDF DTQMMELLRPSLEEAFVIQNQ VALDY
Sbjct: 266 PYIRTEIPIIIVFRALGFVADKDILEHICYDFADTQMMELLRPSLEEAFVIQNQLVALDY 325
Query: 319 IGKRGATVGVTRDKRIKYAKEILQKEMLPHVGTGDFCETKKAYYFGYIIHRLLLCALGRR 378
IGKRGATVGVT++KRIKYA++ILQKEMLPHVG G+ CETKKAYYFGYIIHRLLLCALGRR
Sbjct: 326 IGKRGATVGVTKEKRIKYARDILQKEMLPHVGIGEHCETKKAYYFGYIIHRLLLCALGRR 385
Query: 379 AEDDRDHYGNKRLDLAGPLLGGLFRMLFRKLTRDVRAYVQKCVDNGKDVNLQFAIKAKTI 438
EDDRDHYGNKRLDLAGPLLGGLFRMLFRKLTRDVR+YVQKCVDNGK+VNLQFAIKAKTI
Sbjct: 386 PEDDRDHYGNKRLDLAGPLLGGLFRMLFRKLTRDVRSYVQKCVDNGKEVNLQFAIKAKTI 445
Query: 439 TSGLKYSLATGNWGQANAAGTRAGVSQVLNRLTYASTLSHLRRLNSPIGREGKLAKPRQL 498
TSGLKYSLATGNWGQANAAGTRAGVSQVLNRLTYASTLSHLRRLNSPIGREGKLAKPRQL
Sbjct: 446 TSGLKYSLATGNWGQANAAGTRAGVSQVLNRLTYASTLSHLRRLNSPIGREGKLAKPRQL 505
Query: 499 HNSQWGMMCPAETPEGQACGLVKNLALMVYITVGSAAYPILEFLEEWGTENFEEISPAVI 558
HNSQWGMMCPAETPEGQACGLVKNLALMVYITVGSAAYPILEFLEEWGTENFEEISP+VI
Sbjct: 506 HNSQWGMMCPAETPEGQACGLVKNLALMVYITVGSAAYPILEFLEEWGTENFEEISPSVI 565
Query: 559 PQATKIFVNGCWVGIHRDPEMLVKTXXXXXXXVDVNTEVGVVRDIRLKELRIYTDYGRCS 618
PQATKIFVNG WVG+HRDP+MLVKT VDVNTEVGVVRDIRLKELRIYTDYGRCS
Sbjct: 566 PQATKIFVNGMWVGVHRDPDMLVKTLRRLRRRVDVNTEVGVVRDIRLKELRIYTDYGRCS 625
Query: 619 RPLFIVEKQRLLIKKRDIIALQQRESPEDGGWHDLVAKGFXXXXXXXXXXXXXXXXXXND 678
RPLFIV+ Q+LLIKKRDI ALQQRES E+ GWH LVAKGF +D
Sbjct: 626 RPLFIVDNQKLLIKKRDIYALQQRESAEEDGWHHLVAKGFIEYIDTEEEETTMISMTISD 685
Query: 679 LVQARLHPEEAYADTYTHCEIHPSLILGVCASIIPFPDHNQSPRNTYQSAMGKQAMGIYV 738
LVQARL PEEAY + YTHCEIHPSLILGVCASIIPFPDHNQSPRNTYQSAMGKQAMGIYV
Sbjct: 686 LVQARLRPEEAYTENYTHCEIHPSLILGVCASIIPFPDHNQSPRNTYQSAMGKQAMGIYV 745
Query: 739 TNYQFRMDTLAYVLYYPQKPLVTTRAMEHLHFRQLPAGINAIVAIACYSGYNQEDSVIMN 798
TNYQFRMDTLAYVLYYPQKPLVTTRAMEHLHFRQLPAGINAIVAI+CYSGYNQEDSVIMN
Sbjct: 746 TNYQFRMDTLAYVLYYPQKPLVTTRAMEHLHFRQLPAGINAIVAISCYSGYNQEDSVIMN 805
Query: 799 QSSIDRGFFRSLFFRSYRDEEKKMGTLVKEDFGRPDRSNTMGMRHGSYDKLDDDGLAPPG 858
QSSIDRGFFRSLFFRSYRDEEKKMGTLVKEDFGRPDR +TMGMRHGSYDKLDDDGLAPPG
Sbjct: 806 QSSIDRGFFRSLFFRSYRDEEKKMGTLVKEDFGRPDRGSTMGMRHGSYDKLDDDGLAPPG 865
Query: 859 TRVSGEDVIIGKTTPISQDEAQGQASRYTRRDHSISLRHSETGMVDQVLLTTNADGLRFV 918
TRVSGEDVIIGKTTPISQDEAQGQ+SRYTRRDHSISLRHSETGMVDQVLLTTNADGLRFV
Sbjct: 866 TRVSGEDVIIGKTTPISQDEAQGQSSRYTRRDHSISLRHSETGMVDQVLLTTNADGLRFV 925
Query: 919 KVRVRSVRIPQIGDKFSSRHGQKGTVGMTYTQEDMPWTVEGITPDIIVNPHAIPSRMTIG 978
KVRVRSVRIPQIGDKFSSRHGQKGTVGMTYTQEDMPWT+EG+TPDIIVNPHAIPSRMTIG
Sbjct: 926 KVRVRSVRIPQIGDKFSSRHGQKGTVGMTYTQEDMPWTIEGVTPDIIVNPHAIPSRMTIG 985
Query: 979 QLIECIMGKVAAHMGKEGDATPFTDVTVDNISKALHKCGYQMRGFETMYNGHTGRRLTAM 1038
QLIECIMGKVAAHMGKEGDATPFTDVTVDNISKALHKCGYQMRGFE MYNGHTGR LTAM
Sbjct: 986 QLIECIMGKVAAHMGKEGDATPFTDVTVDNISKALHKCGYQMRGFERMYNGHTGRPLTAM 1045
Query: 1039 IFLGPTYYQRLKHMVDDKIHSRGRGPVQILTRQPAEGRSRDGGLRFGEMERDCMIAHGAS 1098
IFLGPTYYQRLKHMVDDKIHSRGRGPVQILTRQPAEGRSRDGGLRFGEMERDCMIAHGA+
Sbjct: 1046 IFLGPTYYQRLKHMVDDKIHSRGRGPVQILTRQPAEGRSRDGGLRFGEMERDCMIAHGAA 1105
Query: 1099 HFLKERLFDQSDAYRVHVCEHCGLIAIANLKKNSFECRGCKNKTDIVQVHIPYACKLLFQ 1158
HFLKERLFDQSDAYRVHVCE CGLIAIANLKKNSFECRGCKNKTDIVQV+IPYACKLLFQ
Sbjct: 1106 HFLKERLFDQSDAYRVHVCEVCGLIAIANLKKNSFECRGCKNKTDIVQVYIPYACKLLFQ 1165
Query: 1159 ELMAMAIAPRMLTKEDTKQSK 1179
ELM+MAIAPRMLTK K +K
Sbjct: 1166 ELMSMAIAPRMLTKH-LKSAK 1185
|
|
| DICTYBASE|DDB_G0288257 rpb2 "RNA polymerase II core subunit" [Dictyostelium discoideum (taxid:44689)] | Back alignment and assigned GO terms |
|---|
| UNIPROTKB|A5PJW8 POLR2B "DNA-directed RNA polymerase" [Bos taurus (taxid:9913)] | Back alignment and assigned GO terms |
|---|
| UNIPROTKB|E2RNN5 POLR2B "DNA-directed RNA polymerase" [Canis lupus familiaris (taxid:9615)] | Back alignment and assigned GO terms |
|---|
| UNIPROTKB|I3LGP4 POLR2B "DNA-directed RNA polymerase" [Sus scrofa (taxid:9823)] | Back alignment and assigned GO terms |
|---|
| UNIPROTKB|C9J2Y9 POLR2B "DNA-directed RNA polymerase" [Homo sapiens (taxid:9606)] | Back alignment and assigned GO terms |
|---|
| UNIPROTKB|P30876 POLR2B "DNA-directed RNA polymerase II subunit RPB2" [Homo sapiens (taxid:9606)] | Back alignment and assigned GO terms |
|---|
| RGD|1309477 Polr2b "polymerase (RNA) II (DNA directed) polypeptide B" [Rattus norvegicus (taxid:10116)] | Back alignment and assigned GO terms |
|---|
| MGI|MGI:2388280 Polr2b "polymerase (RNA) II (DNA directed) polypeptide B" [Mus musculus (taxid:10090)] | Back alignment and assigned GO terms |
|---|
| UNIPROTKB|F1NCB0 POLR2B "DNA-directed RNA polymerase" [Gallus gallus (taxid:9031)] | 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) |
| Q42877 | RPB2_SOLLC | 2, ., 7, ., 7, ., 6 | 0.9497 | 0.9949 | 0.9907 | N/A | no |
| Q8SR75 | RPB2_ENCCU | 2, ., 7, ., 7, ., 6 | 0.5898 | 0.9536 | 0.9912 | yes | no |
| Q8CFI7 | RPB2_MOUSE | 2, ., 7, ., 7, ., 6 | 0.6725 | 0.9747 | 0.9846 | yes | no |
| P08518 | RPB2_YEAST | 2, ., 7, ., 7, ., 6 | 0.6121 | 0.9704 | 0.9403 | yes | no |
| Q10578 | RPB2_CAEEL | 2, ., 7, ., 7, ., 6 | 0.6335 | 0.9747 | 0.9689 | yes | no |
| P08266 | RPB2_DROME | 2, ., 7, ., 7, ., 6 | 0.6640 | 0.9620 | 0.9702 | yes | no |
| P30876 | RPB2_HUMAN | 2, ., 7, ., 7, ., 6 | 0.6734 | 0.9747 | 0.9846 | yes | no |
| A5DHT2 | RPB2_PICGU | 2, ., 7, ., 7, ., 6 | 0.6098 | 0.9721 | 0.9328 | N/A | no |
| P38420 | RPB2_ARATH | 2, ., 7, ., 7, ., 6 | 0.9438 | 0.9831 | 0.9814 | yes | no |
| Q02061 | RPB2_SCHPO | 2, ., 7, ., 7, ., 6 | 0.6255 | 0.9738 | 0.9545 | yes | no |
| Q54J75 | RPB2_DICDI | 2, ., 7, ., 7, ., 6 | 0.6854 | 0.9704 | 0.9837 | yes | no |
| Q6FLD5 | RPB2_CANGA | 2, ., 7, ., 7, ., 6 | 0.6060 | 0.9839 | 0.9542 | yes | no |
| Q03587 | RPOB_THEAC | 2, ., 7, ., 7, ., 6 | 0.3730 | 0.9224 | 0.9154 | yes | no |
| Q753Q4 | RPB2_ASHGO | 2, ., 7, ., 7, ., 6 | 0.605 | 0.9654 | 0.9369 | yes | no |
| P11513 | RPOB_SULAC | 2, ., 7, ., 7, ., 6 | 0.4256 | 0.9249 | 0.9742 | yes | no |
EC Number Prediction by Ezypred Server
Original result from Ezypred Server
Fail to connect to Ezypred Server
EC Number Prediction by EFICAz Software
| Prediction Level | EC number | Confidence of Prediction |
| 3rd Layer | 2.7.7 | 0.998 |
| 4th Layer | 2.7.7.6 | 0.993 |
Prediction of Functionally Associated Proteins
Functionally Associated Proteins Detected by STRING
Original result from the STRING server
 |
 |
 |
 |
 |
 |
 |
 |
 |
|||
 | GSVIVG00018575001 | RecName- Full=DNA-directed RNA polymerase; EC=2.7.7.6; (1220 aa) | |||||||||
(Vitis vinifera) | |||||||||||
 | GSVIVG00016705001 | • | • | • | • | • | 0.957 | ||||
 | GSVIVG00024436001 | • | • | • | • | • | • | 0.916 | |||
 | GSVIVG00002744001 | • | • | • | • | 0.915 | |||||
 | GSVIVG00028076001 | • | • | • | 0.913 | ||||||
 | GSVIVG00002140001 | • | • | • | 0.912 | ||||||
 | GSVIVG00038611001 | • | 0.899 | ||||||||
 | GSVIVG00036953001 | • | 0.899 | ||||||||
 | GSVIVG00034786001 | • | 0.899 | ||||||||
 | GSVIVG00034055001 | • | 0.899 | ||||||||
 | 26N20_30 | • | 0.899 |
Conserved Domains and Related Protein Families
Conserved Domains Detected by RPS-BLAST
Original result of RPS-BLAST against CDD database part I
| ID | Alignment Graph | Length |
Definition |
E-value |
| Query | 1186 | |||
| PRK08565 | 1103 | PRK08565, PRK08565, DNA-directed RNA polymerase su | 0.0 | |
| COG0085 | 1060 | COG0085, RpoB, DNA-directed RNA polymerase, beta s | 0.0 | |
| cd00653 | 866 | cd00653, RNA_pol_B_RPB2, RNA polymerase beta subun | 0.0 | |
| TIGR03670 | 599 | TIGR03670, rpoB_arch, DNA-directed RNA polymerase | 0.0 | |
| PRK07225 | 605 | PRK07225, PRK07225, DNA-directed RNA polymerase su | 0.0 | |
| pfam00562 | 373 | pfam00562, RNA_pol_Rpb2_6, RNA polymerase Rpb2, do | 0.0 | |
| pfam04563 | 394 | pfam04563, RNA_pol_Rpb2_1, RNA polymerase beta sub | 1e-158 | |
| cd00653 | 866 | cd00653, RNA_pol_B_RPB2, RNA polymerase beta subun | 1e-139 | |
| PRK09606 | 494 | PRK09606, PRK09606, DNA-directed RNA polymerase su | 1e-139 | |
| pfam04561 | 185 | pfam04561, RNA_pol_Rpb2_2, RNA polymerase Rpb2, do | 8e-58 | |
| TIGR02013 | 1065 | TIGR02013, rpoB, DNA-directed RNA polymerase, beta | 5e-53 | |
| CHL00207 | 1077 | CHL00207, rpoB, RNA polymerase beta subunit; Provi | 1e-47 | |
| PRK00405 | 1112 | PRK00405, rpoB, DNA-directed RNA polymerase subuni | 5e-42 | |
| pfam04560 | 78 | pfam04560, RNA_pol_Rpb2_7, RNA polymerase Rpb2, do | 1e-36 | |
| CHL00001 | 1070 | CHL00001, rpoB, RNA polymerase beta subunit | 2e-32 | |
| pfam04566 | 63 | pfam04566, RNA_pol_Rpb2_4, RNA polymerase Rpb2, do | 3e-29 | |
| pfam04565 | 68 | pfam04565, RNA_pol_Rpb2_3, RNA polymerase Rpb2, do | 6e-27 | |
| pfam04567 | 46 | pfam04567, RNA_pol_Rpb2_5, RNA polymerase Rpb2, do | 6e-18 | |
| PRK09603 | 2890 | PRK09603, PRK09603, bifunctional DNA-directed RNA | 9e-17 | |
| PRK14844 | 2836 | PRK14844, PRK14844, bifunctional DNA-directed RNA | 1e-15 | |
| CHL00207 | 1077 | CHL00207, rpoB, RNA polymerase beta subunit; Provi | 1e-13 | |
| PRK09603 | 2890 | PRK09603, PRK09603, bifunctional DNA-directed RNA | 4e-13 | |
| TIGR02013 | 1065 | TIGR02013, rpoB, DNA-directed RNA polymerase, beta | 2e-10 | |
| PRK14844 | 2836 | PRK14844, PRK14844, bifunctional DNA-directed RNA | 2e-10 | |
| PRK09603 | 2890 | PRK09603, PRK09603, bifunctional DNA-directed RNA | 7e-10 | |
| PRK14844 | 2836 | PRK14844, PRK14844, bifunctional DNA-directed RNA | 1e-09 | |
| PRK00405 | 1112 | PRK00405, rpoB, DNA-directed RNA polymerase subuni | 9e-09 | |
| TIGR02013 | 1065 | TIGR02013, rpoB, DNA-directed RNA polymerase, beta | 1e-06 | |
| CHL00001 | 1070 | CHL00001, rpoB, RNA polymerase beta subunit | 1e-06 | |
| PRK00405 | 1112 | PRK00405, rpoB, DNA-directed RNA polymerase subuni | 1e-05 | |
| CHL00001 | 1070 | CHL00001, rpoB, RNA polymerase beta subunit | 1e-04 | |
| PRK14844 | 2836 | PRK14844, PRK14844, bifunctional DNA-directed RNA | 7e-04 |
| >gnl|CDD|236291 PRK08565, PRK08565, DNA-directed RNA polymerase subunit B; Provisional | Back alignment and domain information |
|---|
Score = 1271 bits (3290), Expect = 0.0
Identities = 524/1151 (45%), Positives = 717/1151 (62%), Gaps = 57/1151 (4%)
Query: 29 WAVISAYFEEKGLVRQQLDSFDEFIQNTMQEIVDESADIEIRPESQHNPGQQSDFAEIYL 88
W V+ AYF+EKGLVRQ LDS+++FI+ +QEIVDE +I+ PG + +I +
Sbjct: 2 WTVVEAYFKEKGLVRQHLDSYNDFIERGLQEIVDEFGEIKT-----EIPGLKIVLGKIRV 56
Query: 89 SKPMMTESDGETATLFPKAARLRNLTYSAPLYVDVTKRVIKKGHDGEEVTETQDFTKVFI 148
+P + E+DG + P ARLRNLTY+APLY+ + +G E + V I
Sbjct: 57 GEPEIKEADGSERPITPMEARLRNLTYAAPLYLTMIPVE-----NGIEYEPEE----VKI 107
Query: 149 GKVPIMLRSSYCTLYQNSEKDLTELGECPYDQGGYFIINGSEKVLIAQEKMSTNHVYVFK 208
G +PIM++S C L S +L E+GE P D GGYFIINGSE+V+++QE ++ N V V K
Sbjct: 108 GDLPIMVKSKICPLSGLSPDELIEIGEDPKDPGGYFIINGSERVIVSQEDLAPNRVLVDK 167
Query: 209 KRQPNKYAYVAEVRSMAESQNRPPSTMFVRMLSRTSAKGGSSGQYIRATLPYIRTEIPII 268
+ + A+V S R K G+ I + P + +IP +
Sbjct: 168 GEAGSSITHTAKVISSRAGYRAQ--VTVERR------KDGT----IYVSFPAVPGKIPFV 215
Query: 269 IVFRALGFVADKDILEHICYDFQDTQMMELLRPSLEEAFVIQN-QQVALDYIGKRGATVG 327
I+ RALG D+DI+ + D ++ + L PSLE+A I + ALDYIGKR A +G
Sbjct: 216 ILMRALGLETDRDIVYAV---SLDPEIQQELLPSLEQASSIAATVEDALDYIGKRVA-IG 271
Query: 328 VTRDKRIKYAKEILQKEMLPHVGTGDFCETKKAYYFGYIIHRLLLCALGRRAEDDRDHYG 387
R+ RI+ A++IL K +LPH+GT KKAY+ G + +LL LGRR DD+DHY
Sbjct: 272 QPREYRIERAEQILDKYLLPHLGTSPEDRIKKAYFLGQMASKLLELYLGRREPDDKDHYA 331
Query: 388 NKRLDLAGPLLGGLFRMLFRKLTRDVRAYVQKCVDNGKDVNLQFAIKAKTITSGLKYSLA 447
NKRL LAG LL LFR+ F++L +D++ ++K G+ ++L+ ++ IT ++++LA
Sbjct: 332 NKRLRLAGDLLAELFRVAFKQLVKDLKYQLEKSYARGRKLDLRAIVRPDIITERIRHALA 391
Query: 448 TGNWGQANAAGTRAGVSQVLNRLTYASTLSHLRRLNSPIGREGKLAKPRQLHNSQWGMMC 507
TGNW G R GVSQ+L+R Y STLSHLRR+ SP+ R + R LH +QWG +C
Sbjct: 392 TGNWV-----GGRTGVSQLLDRTNYLSTLSHLRRVVSPLSRGQPHFEARDLHGTQWGRIC 446
Query: 508 PAETPEGQACGLVKNLALMVYITVGSAAYPILEFLEEWGTENFEEISPAVIPQATKIFVN 567
P ETPEG CGLVKNLALM I+VG + E L E G EE +++++N
Sbjct: 447 PFETPEGPNCGLVKNLALMAQISVGVDEEEVEEILYELGVVPVEEAREEEYISWSRVYLN 506
Query: 568 GCWVGIHRDPEMLVKTLRRLRRRVDVNTEVGV--VRDIRLKELRIYTDYGRCSRPLFIVE 625
G +G H D E L + +R LRR ++ EV V + + E+ + D GR RPL +VE
Sbjct: 507 GRLIGYHPDGEELAEKIRELRRSGKISDEVNVAYIETGEINEVYVNCDSGRVRRPLIVVE 566
Query: 626 KQRLLIKKRDIIALQQRESPEDGGWHDLVAKGFIEYIDTEEEETTMISMTINDLVQARLH 685
+ + + + L++ E + DLV G IEY+D EEEE +++ DL
Sbjct: 567 NGKPKLTREHVEKLKKGELT----FDDLVKMGVIEYLDAEEEENAYVALDPEDLT----- 617
Query: 686 PEEAYADTYTHCEIHPSLILGVCASIIPFPDHNQSPRNTYQSAMGKQAMGIYVTNYQFRM 745
PE +TH EI P ILG+ ASIIP+P+HNQSPRNTYQ+AM KQ++G+Y N++ R
Sbjct: 618 PE------HTHLEIWPPAILGITASIIPYPEHNQSPRNTYQAAMAKQSLGLYAANFRIRT 671
Query: 746 DTLAYVLYYPQKPLVTTRAMEHLHFRQLPAGINAIVAIACYSGYNQEDSVIMNQSSIDRG 805
DT ++L+YPQ+PLV TRA+E + + PAG NA+VA+ Y+GYN ED++IMN++SI+RG
Sbjct: 672 DTRGHLLHYPQRPLVQTRALEIIGYNDRPAGQNAVVAVLSYTGYNIEDAIIMNKASIERG 731
Query: 806 FFRSLFFRSYRDEEKKMGTLVKEDFGRPDRSNTMGMR-HGSYDKLDDDGLAPPGTRVSGE 864
RS FFR+Y EE+K ++ P+ N G R Y KLD+DG+ P V G
Sbjct: 732 LARSTFFRTYETEERKYPGGQEDKIEIPE-PNVRGYRGEEYYRKLDEDGIVSPEVEVKGG 790
Query: 865 DVIIGKTTPISQDEAQGQASRYT--RRDHSISLRHSETGMVDQVLLTTNADGLRFVKVRV 922
DV+IGKT+P E + S RRD S+++RH E G+VD VL+T + +G + VKVRV
Sbjct: 791 DVLIGKTSPPRFLEELEELSLGLQERRDTSVTVRHGEKGIVDTVLITESPEGNKLVKVRV 850
Query: 923 RSVRIPQIGDKFSSRHGQKGTVGMTYTQEDMPWTVEGITPDIIVNPHAIPSRMTIGQLIE 982
R +RIP++GDKF+SRHGQKG +GM QEDMP+T +GI PD+I+NPHAIPSRMT+GQL+E
Sbjct: 851 RDLRIPELGDKFASRHGQKGVIGMLVPQEDMPFTEDGIVPDLIINPHAIPSRMTVGQLLE 910
Query: 983 CIMGKVAAHMGKEGDATPFTDVTVDNISKALHKCGYQMRGFETMYNGHTGRRLTAMIFLG 1042
I GKVAA G+ DATPF + + K L K GY+ G E MY+G TG ++ A IF+G
Sbjct: 911 SIAGKVAALEGRFVDATPFYGEPEEELRKELLKLGYKPDGTEVMYDGRTGEKIKAPIFIG 970
Query: 1043 PTYYQRLKHMVDDKIHSRGRGPVQILTRQPAEGRSRDGGLRFGEMERDCMIAHGASHFLK 1102
YYQ+L HMV DKIH+R RGPVQILTRQP EGR+R+GGLRFGEMERDC+I HGA+ LK
Sbjct: 971 VVYYQKLHHMVADKIHARARGPVQILTRQPTEGRAREGGLRFGEMERDCLIGHGAAMLLK 1030
Query: 1103 ERLFDQSDAYRVHVCEHCGLIAIANLKKNSFECRGCKNKTDIVQVHIPYACKLLFQELMA 1162
ERL D SD ++VCE CG IA + +KN + C +K +I V + YA KLL QELM+
Sbjct: 1031 ERLLDSSDKTTIYVCELCGHIAWYDRRKNKYVCPIHGDKGNISPVEVSYAFKLLLQELMS 1090
Query: 1163 MAIAPRMLTKE 1173
M I+PR+ +
Sbjct: 1091 MGISPRLKLGD 1101
|
Length = 1103 |
| >gnl|CDD|223163 COG0085, RpoB, DNA-directed RNA polymerase, beta subunit/140 kD subunit [Transcription] | Back alignment and domain information |
|---|
| >gnl|CDD|238353 cd00653, RNA_pol_B_RPB2, RNA polymerase beta subunit | 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|215994 pfam00562, RNA_pol_Rpb2_6, RNA polymerase Rpb2, domain 6 | Back alignment and domain information |
|---|
| >gnl|CDD|191028 pfam04563, RNA_pol_Rpb2_1, 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|236587 PRK09606, PRK09606, DNA-directed RNA polymerase subunit B''; Validated | Back alignment and domain information |
|---|
| >gnl|CDD|218151 pfam04561, RNA_pol_Rpb2_2, RNA polymerase Rpb2, domain 2 | 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|234749 PRK00405, rpoB, DNA-directed RNA polymerase subunit beta; Reviewed | Back alignment and domain information |
|---|
| >gnl|CDD|146952 pfam04560, RNA_pol_Rpb2_7, RNA polymerase Rpb2, domain 7 | Back alignment and domain information |
|---|
| >gnl|CDD|214330 CHL00001, rpoB, RNA polymerase beta subunit | Back alignment and domain information |
|---|
| >gnl|CDD|113341 pfam04566, RNA_pol_Rpb2_4, RNA polymerase Rpb2, domain 4 | 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|191029 pfam04567, RNA_pol_Rpb2_5, RNA polymerase Rpb2, domain 5 | 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|173305 PRK14844, PRK14844, bifunctional DNA-directed RNA polymerase subunit beta/beta'; Provisional | 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 |
|---|
| >gnl|CDD|233685 TIGR02013, rpoB, DNA-directed 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|181983 PRK09603, PRK09603, bifunctional DNA-directed RNA polymerase subunit beta/beta'; Reviewed | 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|234749 PRK00405, rpoB, DNA-directed RNA polymerase subunit beta; Reviewed | Back alignment and domain information |
|---|
| >gnl|CDD|233685 TIGR02013, rpoB, DNA-directed RNA polymerase, beta subunit | Back alignment and domain information |
|---|
| >gnl|CDD|214330 CHL00001, rpoB, RNA polymerase beta subunit | Back alignment and domain information |
|---|
| >gnl|CDD|234749 PRK00405, rpoB, DNA-directed RNA polymerase subunit 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 |
|---|
Conserved Domains Detected by HHsearch
Original result of HHsearch against CDD database
| ID | Alignment Graph | Length |
Definition |
Probability |
| Query | 1186 | |||
| KOG0214 | 1141 | consensus RNA polymerase II, second largest subuni | 100.0 | |
| PRK08565 | 1103 | DNA-directed RNA polymerase subunit B; Provisional | 100.0 | |
| KOG0215 | 1153 | consensus RNA polymerase III, second largest subun | 100.0 | |
| KOG0216 | 1111 | consensus RNA polymerase I, second largest subunit | 100.0 | |
| COG0085 | 1060 | RpoB DNA-directed RNA polymerase, beta subunit/140 | 100.0 | |
| cd00653 | 866 | RNA_pol_B_RPB2 RNA polymerase beta subunit. RNA po | 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 | |
| PRK09603 | 2890 | bifunctional DNA-directed RNA polymerase subunit b | 100.0 | |
| PRK14844 | 2836 | bifunctional DNA-directed RNA polymerase subunit b | 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 | |
| PF00562 | 386 | RNA_pol_Rpb2_6: RNA polymerase Rpb2, domain 6; Int | 100.0 | |
| PRK09606 | 494 | DNA-directed RNA polymerase subunit B''; Validated | 100.0 | |
| PF04563 | 203 | RNA_pol_Rpb2_1: RNA polymerase beta subunit; Inter | 100.0 | |
| PF04560 | 81 | RNA_pol_Rpb2_7: RNA polymerase Rpb2, domain 7; Int | 99.96 | |
| PF04565 | 68 | RNA_pol_Rpb2_3: RNA polymerase Rpb2, domain 3; Int | 99.92 | |
| PF04561 | 190 | RNA_pol_Rpb2_2: RNA polymerase Rpb2, domain 2; Int | 99.82 | |
| PF04566 | 63 | RNA_pol_Rpb2_4: RNA polymerase Rpb2, domain 4; Int | 99.75 | |
| KOG0214 | 1141 | consensus RNA polymerase II, second largest subuni | 99.24 | |
| PF04567 | 48 | RNA_pol_Rpb2_5: RNA polymerase Rpb2, domain 5; Int | 98.99 | |
| KOG0215 | 1153 | consensus RNA polymerase III, second largest subun | 98.93 | |
| PF06883 | 58 | RNA_pol_Rpa2_4: RNA polymerase I, Rpa2 specific do | 97.6 | |
| COG0085 | 1060 | RpoB DNA-directed RNA polymerase, beta subunit/140 | 97.6 | |
| PHA03394 | 865 | lef-8 DNA-directed RNA polymerase subunit beta-lik | 94.9 |
| >KOG0214 consensus RNA polymerase II, second largest subunit [Transcription] | Back alignment and domain information |
|---|
Probab=100.00 E-value=1.8e-282 Score=2427.18 Aligned_cols=1132 Identities=72% Similarity=1.141 Sum_probs=1075.2
Q ss_pred hhhhhhhhhcccCccchHHHHHHHHHHHHHhhHHHHHhhcCCeeeCCCCCCC----CCeEEEEeeEEEeCCcccCCCCcc
Q 001021 25 QEDAWAVISAYFEEKGLVRQQLDSFDEFIQNTMQEIVDESADIEIRPESQHN----PGQQSDFAEIYLSKPMMTESDGET 100 (1186)
Q Consensus 25 ~~~~~~~i~~~f~~~~Lv~~hi~SFN~Fl~~gL~~ii~~~~pI~~~~~~~~~----~~~~l~f~~i~i~~P~~~~~~~~~ 100 (1186)
.+++|.+|++||+.+||+++|++|||.|++.++++|+.+.++|+......+. .++.|.|+.+++.+|+..|.||..
T Consensus 2 qe~~w~vis~~f~ekglvrqQldsFdeFiq~~~qeiv~~~p~i~l~~~~qh~~~~~~r~~l~f~qiylskP~~~e~dg~~ 81 (1141)
T KOG0214|consen 2 QEDCWDVISAYFEEKGLVRQQLDSFDEFIQQTLQEIVADSPKIELQDEAQHTQENPARYQLFFEQIYLSKPTHTESDGST 81 (1141)
T ss_pred hhHHHHHHHhhhcccchHHHHHHHHHHHHHHHHHHHHhcCCCceehhhhhhhccCccceEEEeeeEEEecccccccCCCc
Confidence 5789999999999999999999999999999999999999999976544322 257899999999999999999999
Q ss_pred CCCChHHHHhcCCCcceeEEEEEEEEEeccCCCCcccccceeeEEEEecccceeeccCCccCCCCChhhhhhcCCCCCCC
Q 001021 101 ATLFPKAARLRNLTYSAPLYVDVTKRVIKKGHDGEEVTETQDFTKVFIGKVPIMLRSSYCTLYQNSEKDLTELGECPYDQ 180 (1186)
Q Consensus 101 ~~l~P~EcR~r~lTYsa~l~v~v~~~~~~~~~~~~~~~~~~~~~~v~lG~IPIMvkS~~C~L~~~s~~eli~~gE~~~D~ 180 (1186)
..++|+|||+|++||||||+|+++..+.....+ +...+.+.|+||+||||+||..|.|+++++.+|.+.||||+|+
T Consensus 82 ~~m~p~eARlrnLTYSspLyVd~~k~~~~~~~~----~~~~~~qkvfIGkIPiMlrS~~C~l~~~~d~dl~~l~eCp~Dq 157 (1141)
T KOG0214|consen 82 STMFPNEARLRNLTYSSPLYVDATKIVKTSRDE----VEDMQEQKVFIGKIPIMLRSSYCLLSGLTDKDLTELGECPYDQ 157 (1141)
T ss_pred cccCchhhHhhhcccccceEEEeEEEEeecccc----ccccccceeeEeccceeeehhhhhhcccchhhhhhccCCCcCC
Confidence 999999999999999999999999987643321 2234578899999999999999999999999999999999999
Q ss_pred CceEEEcCeeeEEEeeeeeccCeEEEEEecCCCcceEEEEEEEeecCCCCCCceEEEEEEecCCCCCCCCCcEEEEEecc
Q 001021 181 GGYFIINGSEKVLIAQEKMSTNHVYVFKKRQPNKYAYVAEVRSMAESQNRPPSTMFVRMLSRTSAKGGSSGQYIRATLPY 260 (1186)
Q Consensus 181 GGYFIING~ERVIi~Qe~~s~N~~~~~~~~~~~~~~~~~~irs~~~~g~~~~~~~~v~~~~~~~~~~~~~~~~i~v~i~~ 260 (1186)
||||||||+|||+|+||++|+|++|+|++..++.+.|.++|||..+++++..+++.+++..++. +.-.|.+.+++
T Consensus 158 gGyfIINGseKVlIAQe~matn~vyvf~k~~p~~~ay~~EirS~le~~sR~~stl~v~~~ar~~-----~gq~i~~tlpy 232 (1141)
T KOG0214|consen 158 GGYFIINGSEKVLIAQEKMATNIVYVFKKAHPGTYAYTGEIRSCLERSSRFISTLSVNMDARAG-----KGQEIIATLPY 232 (1141)
T ss_pred CceEEEcCceeeeeehhhccCceEEEEecCCCCceeEeeeeehhhhccCCCcceeeeeeccccC-----CCceEEEEeee
Confidence 9999999999999999999999999999888889999999999999999989999999876542 14588999999
Q ss_pred ccccchHHHHHHHhcCCCHHHHHHHhccccCchhhHhhhHhhHhhhhccccHHHHHHHHhhcCcccCCCchhhHHHHHHH
Q 001021 261 IRTEIPIIIVFRALGFVADKDILEHICYDFQDTQMMELLRPSLEEAFVIQNQQVALDYIGKRGATVGVTRDKRIKYAKEI 340 (1186)
Q Consensus 261 ~~~~IPl~ilLkALG~~sD~eI~~~i~~~~~~~~~~~~l~~~l~e~~~i~t~~~al~yIg~r~~~~~~~~~~~~e~~~~i 340 (1186)
++++||+++|+||||+.+|+||++.|+++.+|.++++++.++++++..+..+..||+|||+|...++.+++.++++|+++
T Consensus 233 ikqeIPI~ilfrALG~v~dreILehIcYd~~D~em~e~lkpsieeafviq~qn~ALdfig~rga~~Gvtkekri~yakdi 312 (1141)
T KOG0214|consen 233 IKQEIPILILFRALGFVSDREILEHICYDFDDAEMFESLKPSIEEAFVIQEQNVALDFIGQRGACIGVTKEKRIKYAKEI 312 (1141)
T ss_pred ecccCcEEEEehhhcCCccHHHHHhhcCCCCcHHHHHHhhhhhhhhhhhhhhHHHHHHHHhcCCCCCCCcchhhHHHHHH
Confidence 99999999999999999999999999999999999999999999999999999999999999766788889999999999
Q ss_pred HhhcccCCCCCCCccchhHHHHHHHHHHHHHHhccCCcCCCCCcccccceeccCchhhHHHHHHHHHHHHHHHHHHHhhh
Q 001021 341 LQKEMLPHVGTGDFCETKKAYYFGYIIHRLLLCALGRRAEDDRDHYGNKRLDLAGPLLGGLFRMLFRKLTRDVRAYVQKC 420 (1186)
Q Consensus 341 L~~~ll~Hl~~~~~~~~~K~~~L~~Mv~kLl~l~~g~~~~DD~D~l~NkRv~l~G~Ll~~lfr~~l~~~~k~ik~~l~k~ 420 (1186)
|.+++|||++..+...+.|++||+|||++|+.++.|++.+||+|||+|||++++|+||..+||..|+++.+++...++|.
T Consensus 313 LqKe~lPhi~~~e~~etkKA~fLGYmi~rlll~aLgRr~~ddRDHfG~KRLDlaGpLLa~lfR~lf~~l~rd~~~~mQk~ 392 (1141)
T KOG0214|consen 313 LQKELLPHVGLGEICETKKAYFLGYMVHRLLLAALGRRELDDRDHFGNKRLDLAGPLLAKLFRSLFAKLLRDVTRYMQKC 392 (1141)
T ss_pred HHHHhccccccchhhhhhHHHHHHhhHHHHHHHHcCCCCccchhhccccchhhchhHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 99999999999888888999999999999999999999999999999999999999999999999999999999999999
Q ss_pred hcCCCccchhhhccccchhhhhhhhcccCcccccc-ccccccceeeeccccChhhhhccccccCCCCCcCCCcCcccccC
Q 001021 421 VDNGKDVNLQFAIKAKTITSGLKYSLATGNWGQAN-AAGTRAGVSQVLNRLTYASTLSHLRRLNSPIGREGKLAKPRQLH 499 (1186)
Q Consensus 421 ~~~~~~~~~~~~i~~~~It~~i~~~~sTGNw~~~~-~~~~~sGvsq~l~r~N~l~~lSh~Rrv~~~~~~~~K~t~vR~Lh 499 (1186)
+++..++++.-+++++.||++++|+||||||+-++ ..+.++||||+|+|+||+++|||+||+++|++++.|...||+||
T Consensus 393 le~~~dfni~~aika~iIt~gl~yslaTgnwgdq~ka~~~ragVsQVLnR~t~~sTLsHlRR~n~Pigr~GKlAkpRqlH 472 (1141)
T KOG0214|consen 393 LENGVDFNIELAIKAKIITNGLNYALATGNWGDQKKAMQGRAGVSQVLNRLNPLSTLSHLRRTNSPIGRTGKLAKPRQLH 472 (1141)
T ss_pred HhcCccceEEEEEEeeeecccceeeeccCCccchhHHhhccccHHHHhccccHHHHHHHHhhcCCccccccccCCccccC
Confidence 99999999999999999999999999999999555 67789999999999999999999999999999999999999999
Q ss_pred CCCccccccCCCCCCcccccccccceeEEEccCCCchhHHHHHHHhCCccccccCCCCCCCceEEEECCEEEEEEcChHH
Q 001021 500 NSQWGMMCPAETPEGQACGLVKNLALMVYITVGSAAYPILEFLEEWGTENFEEISPAVIPQATKIFVNGCWVGIHRDPEM 579 (1186)
Q Consensus 500 ps~wG~iCPveTPEG~~cGLvk~LA~~a~Is~~~~~~~i~~~l~~~g~~~~~~~~~~~~~~~~~V~lnG~~iG~~~~~~~ 579 (1186)
|||||++||+|||||++||||||||+||.|++|+++.||+++|+++||+.++++++..+++.++||+||+|+|+|.+|+.
T Consensus 473 nthwGmvCPaeTPEGqacGLVKNLSLmayIsvGS~~sPi~EfLeewgmE~le~~~ps~~~datkvfvNG~wvGlhrdp~~ 552 (1141)
T KOG0214|consen 473 NSHWGMVCPAETPEGQACGLVKNLSLMAYISVGSLESPIVEFLEEWGMENLEEISPSPSPDATKVFVNGVWVGLHRDPEE 552 (1141)
T ss_pred cccceeeccccCCCcceeeccccceEEEEEecCCCccHHHHHHHHhchhhHhhcCCCcCCCceEEEEcccEEEecCCHHH
Confidence 99999999999999999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred HHHHHHhhhhcCCCCCceEEEEeccCCeEEEEeCCCceeeeEEEEecccchhhHHHHHHHhcCCCCCCCCccccccCCcE
Q 001021 580 LVKTLRRLRRRVDVNTEVGVVRDIRLKELRIYTDYGRCSRPLFIVEKQRLLIKKRDIIALQQRESPEDGGWHDLVAKGFI 659 (1186)
Q Consensus 580 l~~~lr~~rr~~~i~~~vsi~~~~~~~~i~I~td~gRl~RPl~~v~~~~~~~~~~~~~~l~~~~~~~~~~~~~l~~~g~i 659 (1186)
++.+||.+||+..|+.+++++++.+.+|++||||+||+|||||+|+|+++.++|+|+..|++.+.. ..+|..|+..|++
T Consensus 553 l~~tlr~lRR~~di~~Evs~vRDIr~kE~ri~tDaGR~~rPLliven~~l~~~k~hi~~L~~~~~~-~~~w~~lv~~G~i 631 (1141)
T KOG0214|consen 553 LVATLKRLRRQFDIIAEVSMVRDIRDKEIRIFTDAGRSLRPLLIVENAKLLIKKRHIRALKQSKPN-EYRWAHLLSSGEV 631 (1141)
T ss_pred HHHHHHHHHHhhccchhhhhhccccccceeeeeccCccccceEEEechhhhhhhHHHHHHhhCchh-hcchhhhccccce
Confidence 999999999999999999999999999999999999999999999999999999999999876321 3489999999999
Q ss_pred EEeccccccceeeeecccccccccCCCCccccccceeeecCCCccccccccccCCCCCCCCccchhhhhccccccccccc
Q 001021 660 EYIDTEEEETTMISMTINDLVQARLHPEEAYADTYTHCEIHPSLILGVCASIIPFPDHNQSPRNTYQSAMGKQAMGIYVT 739 (1186)
Q Consensus 660 E~i~~~Ee~~~~Ia~~~~~~~~~~~~~k~~~~~~~th~Ei~p~~ilsv~AslIPF~~HNqSpRn~yqc~M~KQaig~~~~ 739 (1186)
||||++|||.++|||.++++.+.. +...||||||||++||||+||.|||||||||||||||++|+|||||++.+
T Consensus 632 e~idteeEEtvmiam~~~dL~~~~------~~~~~THCEiHpsmILgv~asiIpFpdh~qspr~tYQsa~~kqamg~y~t 705 (1141)
T KOG0214|consen 632 EYIDTEEEETVMIAMGPKDLAESA------YPKTYTHCEIHPSMILGVCASIIPFPDHNQSPRNTYQSAMGKQAMGVYHT 705 (1141)
T ss_pred eeeccchhhhHHHhcCHHHHhhcc------CCcccccccccHHHhhhhceeeeecCCCCCchHHHHHHHHhhhcceeeee
Confidence 999999999999999999997632 25689999999999999999999999999999999999999999999999
Q ss_pred ceEEeecccceeeccCCcceeecccccccccccCCCCceeEEEEEecCCCCCCCcEEeeccccccCceEEEEEEEEEeee
Q 001021 740 NYQFRMDTLAYVLYYPQKPLVTTRAMEHLHFRQLPAGINAIVAIACYSGYNQEDSVIMNQSSIDRGFFRSLFFRSYRDEE 819 (1186)
Q Consensus 740 n~~~r~D~~~~~L~ypQ~PlV~t~~~~~~~~~~~p~G~N~~VAv~sy~GYn~EDaiiink~sv~rG~~~s~~~~~~~~~~ 819 (1186)
|+..|+|+..|+|+|||+|+|+|++++++.+.++|+|+|++||++||+|||+|||+|+|+++++||+|||++||+|+.++
T Consensus 706 n~~vR~dtl~~~l~ypqkpl~tt~~~e~l~~~eL~aG~NaiVAi~~~~GYNqEDsvimn~s~v~rg~FrS~~~RsYk~q~ 785 (1141)
T KOG0214|consen 706 NPQVRMDTLAKVLYYPQKPLVTTRAMEYLRFRELPAGQNAIVAIACYSGYNQEDSVIMNQSSVDRGLFRSFFIRSYKDQE 785 (1141)
T ss_pred cchhhhhhhhhcccccccchhhHHHHhhhhhhhcccccceEEEEecccCccHHHHHHHHhhhhhcchhhhhhhhHHHhhh
Confidence 99999999999999999999999999999999999999999999999999999999999999999999999999999998
Q ss_pred cccCCcceeeecCCCCCCCCCCCCCCcCCCCCCCccCCCcEEcCCCEEEEEeCCCCc--cccccccCccccceeeEEeec
Q 001021 820 KKMGTLVKEDFGRPDRSNTMGMRHGSYDKLDDDGLAPPGTRVSGEDVIIGKTTPISQ--DEAQGQASRYTRRDHSISLRH 897 (1186)
Q Consensus 820 ~~~~~~~~e~~~~p~~~~~~~~~~~~~~~ld~dGi~~~g~~v~~gd~l~~k~~p~~~--~~~~~~~~~~~~~~~s~~~~~ 897 (1186)
.+...+..+.|+.|....+.++++..|++||+||++.||++|+.|||+|||.+|... ++.+...+....+|+|+.+++
T Consensus 786 ~~~~~~~ee~~~~~~~~~~~~mr~~~~dkLdddG~i~~G~~vs~~Dv~iGk~t~~~~~~~~~~~~~~~~t~~d~s~~Lr~ 865 (1141)
T KOG0214|consen 786 HKKDQGPEEIFEEPPRGEGRGMRNGKYDKLDDDGIIMPGSRVSGGDVLIGKTTPQPAKEDESGPEDRLYTKRDHSTKLRH 865 (1141)
T ss_pred hhcccccccccccccccccccccccccccccccCCccccceeecCCEEeccccCCcccchhccccccccccccceeeccc
Confidence 877777788899999888999999999999999999999999999999999998653 333434445568999999999
Q ss_pred CCCcEEEEEEEEecCCCceEEEEEEEeecCCCCcccccccCCCccEEEeeecCCCCCCCCCCCCCcEEeCCCCCCCCCch
Q 001021 898 SETGMVDQVLLTTNADGLRFVKVRVRSVRIPQIGDKFSSRHGQKGTVGMTYTQEDMPWTVEGITPDIIVNPHAIPSRMTI 977 (1186)
Q Consensus 898 ~~~g~v~~v~~~~~~~~~~~vkv~~r~~R~p~iGDKfssRhGqKGvvs~i~~~~dmPf~~~G~~pDiI~NPh~~PSRMti 977 (1186)
+|.|+||+|++++|.+|.+.+||++|+.|.|++|||||||||||||||.++++||||||.+|++||||||||||||||||
T Consensus 866 ~e~Givd~V~vt~n~~G~kF~kv~vr~~ripqiGDKfasrHgqKG~ig~~~~qedmpft~eGi~pDiiiNPhaiPSRmti 945 (1141)
T KOG0214|consen 866 TERGIVDQVWVTKNSEGPKFVKVRVRQVRIPQIGDKFASRHGQKGTIGITYRQEDMPFTIEGIVPDIIINPHAIPSRMTI 945 (1141)
T ss_pred CCcceEEEEEEecCCCCCceeEEEEeecccccccchhccccccCccccceeecCCCCccccCCCcceEECcccCccccch
Confidence 99999999999999999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred hhHHhhhhhHhhhhcCCccccCCCCCccHHHHHHHHHHcCCCCCCeEEEeeCCCCceEEeeEeEeeeehhccccccCCce
Q 001021 978 GQLIECIMGKVAAHMGKEGDATPFTDVTVDNISKALHKCGYQMRGFETMYNGHTGRRLTAMIFLGPTYYQRLKHMVDDKI 1057 (1186)
Q Consensus 978 Gql~E~~~gk~~~~~g~~~d~tpF~~~~~~~~~~~l~~~g~~~~G~e~ly~g~tG~~~~~~if~G~~yy~rL~Hmv~DK~ 1057 (1186)
|||+||++||.++..|...|+|||....+..++..|+++||++.|+|.||||+||++|.+.||+||.|||||+|||+||+
T Consensus 946 g~liEc~lgk~~a~~~e~~~atpFs~v~v~~is~~l~~~g~~~~G~e~~ynGrtG~~~~~~if~GptyyqrL~Hmvd~ki 1025 (1141)
T KOG0214|consen 946 GQLIECLLGKVAAYEGEEGDATPFSDVTVSKISANLHVYGYQYRGNERMYNGRTGRKLRAQIFIGPTYYQRLKHMVDDKI 1025 (1141)
T ss_pred hhhHHHhhhhhhhcccccccCCCCCccchhcccchHHHhccccCCCEEEecCCCCceeeeeeecCchHHHHHHHhhhhee
Confidence 99999999999999999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred EEeccCCccccccCCCCcccCCCcceeeehhhhHHHhhccHHHHHHhhhcCCCcceeeeccccCcceeeccccCceeecc
Q 001021 1058 HSRGRGPVQILTRQPAEGRSRDGGLRFGEMERDCMIAHGASHFLKERLFDQSDAYRVHVCEHCGLIAIANLKKNSFECRG 1137 (1186)
Q Consensus 1058 ~~R~~Gp~~~lT~QP~~Gr~~~GG~R~GEMErd~l~a~Gas~~L~erL~~~SD~~~~~vC~~cG~~~~~~~~~~~~~C~~ 1137 (1186)
|+|++||++.+||||++||||+||||||||||||+||||||++|+|||+..||.|.+++|..||..+.++.+.+.+.|+.
T Consensus 1026 h~R~~Gp~q~ltRQP~~gRsr~GGlRfGEMErdc~iahGaa~~L~ERL~~~SD~~~~~~c~~c~l~~i~~~~~n~~~ck~ 1105 (1141)
T KOG0214|consen 1026 HSRARGPVQILTRQPVEGRSRDGGLRFGEMERDCLIAHGAAAFLKERLFEKSDAYRVHICVLCGLTAIAGLIPNSFECRG 1105 (1141)
T ss_pred eecccCCceeeeccccccccccCCeeeehhHHHHHHHhhHHHHHHHHhhccCccceEEEeccchhhhhhccCCCcccccc
Confidence 99999999999999999999999999999999999999999999999999999999999999997777888888899999
Q ss_pred CCCCCCceeecccHhhHHHHHHHHhCCCceEEEec
Q 001021 1138 CKNKTDIVQVHIPYACKLLFQELMAMAIAPRMLTK 1172 (1186)
Q Consensus 1138 C~~~~~i~~v~iPy~~k~l~~EL~sm~i~~~l~~~ 1172 (1186)
|.+.+.|..+.+|||||||+|||+||||.+|+.+.
T Consensus 1106 c~n~~~v~~v~ipya~kLl~qelmsmni~pr~~~~ 1140 (1141)
T KOG0214|consen 1106 CENKTLVVRVYIPYAAKLLFQELMSMNIAPRRKTK 1140 (1141)
T ss_pred ccCccceEEEechhHHHHHHHHHHhccCccccccC
Confidence 99999999999999999999999999999998764
|
|
| >PRK08565 DNA-directed RNA polymerase subunit B; Provisional | Back alignment and domain information |
|---|
| >KOG0215 consensus RNA polymerase III, second largest subunit [Transcription] | Back alignment and domain information |
|---|
| >KOG0216 consensus RNA polymerase I, second largest subunit [Transcription] | Back alignment and domain information |
|---|
| >COG0085 RpoB DNA-directed RNA polymerase, beta subunit/140 kD subunit [Transcription] | Back alignment and domain information |
|---|
| >cd00653 RNA_pol_B_RPB2 RNA polymerase beta subunit | 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 |
|---|
| >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 |
|---|
| >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 |
|---|
| >PF00562 RNA_pol_Rpb2_6: RNA polymerase Rpb2, domain 6; InterPro: IPR007120 DNA-directed RNA polymerases 2 | Back alignment and domain information |
|---|
| >PRK09606 DNA-directed RNA polymerase subunit B''; Validated | 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 |
|---|
| >PF04560 RNA_pol_Rpb2_7: RNA polymerase Rpb2, domain 7; InterPro: IPR007641 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 |
|---|
| >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 |
|---|
| >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 |
|---|
| >KOG0214 consensus RNA polymerase II, second largest subunit [Transcription] | 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 |
|---|
| >KOG0215 consensus RNA polymerase III, second largest subunit [Transcription] | 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 |
|---|
| >COG0085 RpoB DNA-directed RNA polymerase, beta subunit/140 kD subunit [Transcription] | 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 | 1186 | ||||
| 3h0g_B | 1210 | Rna Polymerase Ii From Schizosaccharomyces Pombe Le | 0.0 | ||
| 1i3q_B | 1224 | Rna Polymerase Ii Crystal Form I At 3.1 A Resolutio | 0.0 | ||
| 2waq_B | 1131 | The Complete Structure Of The Archaeal 13-Subunit D | 0.0 | ||
| 2pmz_B | 1124 | Archaeal Rna Polymerase From Sulfolobus Solfataricu | 0.0 | ||
| 1l9u_C | 1118 | Thermus Aquaticus Rna Polymerase Holoenzyme At 4 A | 9e-40 | ||
| 1i6v_C | 1118 | Thermus Aquaticus Core Rna Polymerase-Rifampicin Co | 9e-40 | ||
| 1ynj_C | 1119 | Taq Rna Polymerase-Sorangicin Complex Length = 1119 | 9e-40 | ||
| 1hqm_C | 1119 | Crystal Structure Of Thermus Aquaticus Core Rna Pol | 9e-40 | ||
| 1iw7_C | 1119 | Crystal Structure Of The Rna Polymerase Holoenzyme | 1e-39 | ||
| 3iyd_C | 1342 | Three-Dimensional Em Structure Of An Intact Activat | 2e-25 | ||
| 3lu0_C | 1342 | Molecular Model Of Escherichia Coli Core Rna Polyme | 2e-25 | ||
| 3qqc_A | 436 | Crystal Structure Of Archaeal Spt45 BOUND TO THE RN | 2e-05 |
| >pdb|3H0G|B Chain B, Rna Polymerase Ii From Schizosaccharomyces Pombe Length = 1210 | 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|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|1L9U|C Chain C, Thermus Aquaticus Rna Polymerase Holoenzyme At 4 A Resolution Length = 1118 | Back alignment and structure |
| >pdb|1I6V|C Chain C, Thermus Aquaticus Core Rna Polymerase-Rifampicin Complex Length = 1118 | Back alignment and structure |
| >pdb|1YNJ|C Chain C, Taq Rna Polymerase-Sorangicin Complex Length = 1119 | 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|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|3IYD|C Chain C, Three-Dimensional Em Structure Of An Intact Activator-Dependent Transcription Initiation Complex Length = 1342 | Back alignment and structure |
| >pdb|3LU0|C Chain C, Molecular Model Of Escherichia Coli Core Rna Polymerase Length = 1342 | Back alignment and structure |
| >pdb|3QQC|A Chain A, Crystal Structure Of Archaeal Spt45 BOUND TO THE RNAP CLAMP DOMAIN Length = 436 | Back alignment and structure |
Structure Templates Detected by RPS-BLAST
Original result of RPS-BLAST against PDB70 database
| >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 |
|---|
Score = 1794 bits (4647), Expect = 0.0
Identities = 749/1208 (62%), Positives = 926/1208 (76%), Gaps = 52/1208 (4%)
Query: 15 EEEDEEEEITQEDAWAVISAYFEEKGLVRQQLDSFDEFIQNTMQEIVDESADIEIRPESQ 74
E+ E +TQED W VIS++FEE L RQQL SFDEF+QNTMQEIVD+ + + + +Q
Sbjct: 4 EDYQYNETLTQEDCWTVISSFFEETSLARQQLFSFDEFVQNTMQEIVDDDSTLTLDQYAQ 63
Query: 75 HNPGQQSD-------FAEIYLSKPMMTESDGETATLFPKAARLRNLTYSAPLYVDVTKRV 127
H Q F +IYLS+P MTE+DG T T+FP+ ARLRNLTYS+PLYVD+ K+V
Sbjct: 64 HTGAQGDVTRRYEINFGQIYLSRPTMTEADGSTTTMFPQEARLRNLTYSSPLYVDMRKKV 123
Query: 128 IKKGHDGEEVTETQDF--------TKVFIGKVPIMLRSSYCTLYQNSEKDLTELGECPYD 179
+ + E + +KVFIGK+PIMLRS++C L S+ +L +L ECPYD
Sbjct: 124 MVAADSNVPIGEEEWLVEEEDEEPSKVFIGKIPIMLRSTFCILNGVSDSELYDLNECPYD 183
Query: 180 QGGYFIINGSEKVLIAQEKMSTNHVYVFKKRQPNKYAYVAEVRSMAESQNRPPSTMFVRM 239
QGGYFIINGSEKV+IAQE+ + N V VFKK P+ AYVAE+RS E +R S+M +++
Sbjct: 184 QGGYFIINGSEKVIIAQERSAANIVQVFKKAAPSPIAYVAEIRSALERGSRLISSMQIKL 243
Query: 240 LSRTSAKGGSSGQYIRATLPYIRTEIPIIIVFRALGFVADKDILEHICYDFQDTQMMELL 299
++R +SGQ IRATLPYIR++IPI+IVFRALG V D+DILEHICYD D QM+E++
Sbjct: 244 MAR---NTENSGQTIRATLPYIRSDIPIVIVFRALGVVPDRDILEHICYDPNDFQMLEMM 300
Query: 300 RPSLEEAFVIQNQQVALDYIGKRGATVGVTRDKRIKYAKEILQKEMLPHVGTGDFCETKK 359
+P +EEAFVIQ++ +ALDYIGKRG+T GVTR+KR++YA +ILQKE+LPH+ T + ET+K
Sbjct: 301 KPCIEEAFVIQDKDIALDYIGKRGSTTGVTREKRLRYAHDILQKELLPHITTMEGFETRK 360
Query: 360 AYYFGYIIHRLLLCALGRRAEDDRDHYGNKRLDLAGPLLGGLFRMLFRKLTRDVRAYVQK 419
A++ GY+IHR+LLCAL RR DDRDH+G KRLDLAGPLL LFRMLFRK+TRDV Y+QK
Sbjct: 361 AFFLGYMIHRMLLCALERREPDDRDHFGKKRLDLAGPLLASLFRMLFRKMTRDVYKYMQK 420
Query: 420 CVDNGKDVNLQFAIKAKTITSGLKYSLATGNWG-QANAAGTRAGVSQVLNRLTYASTLSH 478
CV+ ++ NL A+K+ IT+GL+YSLATGNWG Q + R GVSQVLNR T+ASTLSH
Sbjct: 421 CVETNREFNLTLAVKSNIITNGLRYSLATGNWGDQKRSMVNRVGVSQVLNRYTFASTLSH 480
Query: 479 LRRLNSPIGREGKLAKPRQLHNSQWGMMCPAETPEGQACGLVKNLALMVYITVGSAAYPI 538
LRR N+PIGR+GKLAKPRQLHN+ WGM+CPAETPEGQACGLVKNL+LM Y++VGS + PI
Sbjct: 481 LRRTNTPIGRDGKLAKPRQLHNTHWGMVCPAETPEGQACGLVKNLSLMSYVSVGSPSAPI 540
Query: 539 LEFLEEWGTENFEEISPAVIPQATKIFVNGCWVGIHRDPEMLVKTLRRLRRRVDVNTEVG 598
+EFLEEWG E E+ +P+ P ATK+FVNG W+G+HRDP L +TLR LRRR+D++ EV
Sbjct: 541 IEFLEEWGLETLEDYNPSASPNATKVFVNGVWLGVHRDPAHLTETLRSLRRRLDISAEVS 600
Query: 599 VVRDIRLKELRIYTDYGRCSRPLFIVE-------KQRLLIKKRDIIALQQRESPEDG--- 648
+VRDIR KELR++TD GR RPLFIV+ + L I+K I L + + D
Sbjct: 601 IVRDIREKELRLFTDAGRICRPLFIVDNNPNSERRGELCIRKEHIQQLIEDKDRYDIDPE 660
Query: 649 ---GWHDLVAKGFIEYIDTEEEETTMISMTINDLVQARLH------------------PE 687
GW LV+ G IEY+D EEEET MI+M+ DL +R
Sbjct: 661 QRFGWTALVSSGLIEYLDAEEEETVMIAMSPEDLEASRQMQAGYEVKEELDPAQRVKPAP 720
Query: 688 EAYADTYTHCEIHPSLILGVCASIIPFPDHNQSPRNTYQSAMGKQAMGIYVTNYQFRMDT 747
+ +THCEIHP++ILG+ ASIIPFPDHNQSPRNTYQSAMGKQAMG+Y+TNYQ RMDT
Sbjct: 721 NPHVHAWTHCEIHPAMILGILASIIPFPDHNQSPRNTYQSAMGKQAMGVYLTNYQVRMDT 780
Query: 748 LAYVLYYPQKPLVTTRAMEHLHFRQLPAGINAIVAIACYSGYNQEDSVIMNQSSIDRGFF 807
+A +LYYPQKPL TTR+ME+L FR+LPAG NAIVAI CYSGYNQEDS+IMNQ+SIDRG F
Sbjct: 781 MANILYYPQKPLATTRSMEYLKFRELPAGQNAIVAILCYSGYNQEDSIIMNQASIDRGLF 840
Query: 808 RSLFFRSYRDEEKKMGTLVKEDFGRPDRSNTMGMRHGSYDKLDDDGLAPPGTRVSGEDVI 867
RS+F+R+Y D+EKK+G V E+F RP RS T+ M+HG+YDKL+DDGL PGTRVSGED+I
Sbjct: 841 RSIFYRTYTDQEKKIGMTVMEEFERPVRSTTLRMKHGTYDKLEDDGLIAPGTRVSGEDII 900
Query: 868 IGKTTPISQDEAQ--GQASRYTRRDHSISLRHSETGMVDQVLLTTNADGLRFVKVRVRSV 925
IGKT PI D + + + +RD S LR +E+G+VDQV++TTN +GL+FVKVR+RS
Sbjct: 901 IGKTAPIPLDHEELGQRTQLHAKRDVSTPLRSTESGIVDQVMVTTNQEGLKFVKVRMRST 960
Query: 926 RIPQIGDKFSSRHGQKGTVGMTYTQEDMPWTVEGITPDIIVNPHAIPSRMTIGQLIECIM 985
RIPQIGDKF+SRHGQKGT+GMTY EDMP++ +GI PDII+NPHAIPSRMT+ L+EC +
Sbjct: 961 RIPQIGDKFASRHGQKGTIGMTYRHEDMPFSAQGIVPDIIINPHAIPSRMTVAHLVECQL 1020
Query: 986 GKVAAHMGKEGDATPFTDVTVDNISKALHKCGYQMRGFETMYNGHTGRRLTAMIFLGPTY 1045
KV+A G EGDATPFTDVTV+ +SK L G+Q RGFE MY+GHTGR+L A +FLGPTY
Sbjct: 1021 SKVSALSGFEGDATPFTDVTVEAVSKLLRSHGFQSRGFEVMYHGHTGRKLVAQVFLGPTY 1080
Query: 1046 YQRLKHMVDDKIHSRGRGPVQILTRQPAEGRSRDGGLRFGEMERDCMIAHGASHFLKERL 1105
YQRLKH+VDDKIH+R RGPVQILTRQP EGRSRDGGLRFGEMERDC I+HG S L+ERL
Sbjct: 1081 YQRLKHLVDDKIHARARGPVQILTRQPVEGRSRDGGLRFGEMERDCQISHGCSSVLRERL 1140
Query: 1106 FDQSDAYRVHVCEHCGLIAIANLKKNSFECRGCKNKTDIVQVHIPYACKLLFQELMAMAI 1165
FD SDAYRV VC+ CGLIAIA+ KK+S+ECR C+N+T QV++PYA KLLFQELM+M I
Sbjct: 1141 FDCSDAYRVIVCDICGLIAIASYKKDSYECRSCQNRTRFSQVYLPYAAKLLFQELMSMNI 1200
Query: 1166 APRMLTKE 1173
APR+ TK
Sbjct: 1201 APRLFTKN 1208
|
| >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 |
|---|
| >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 |
|---|
| >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 |
|---|
| >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 |
|---|
| >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 |
|---|
| >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 |
|---|
| >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 |
|---|
| >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 |
|---|
| >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 |
|---|
| >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 |
|---|
| >3mlq_A DNA-directed RNA polymerase subunit beta; tudor, transferase-transcription complex; 2.91A {Thermus aquaticus} Length = 188 | Back alignment and structure |
|---|
Structure Templates Detected by HHsearch
Original result of HHsearch against PDB70 database
| ID | Alignment Graph | Length |
Definition |
Probability |
| Query | 1186 | |||
| 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 | 99.96 | |
| 3qqc_A | 436 | DNA-directed RNA polymerase subunit B, DNA-direct | 99.18 | |
| 3tbi_B | 228 | DNA-directed RNA polymerase subunit beta; transcri | 99.12 | |
| 3lti_A | 296 | DNA-directed RNA polymerase subunit beta; BBM2, nu | 98.77 | |
| 3mlq_A | 188 | DNA-directed RNA polymerase subunit beta; tudor, t | 96.12 |
| >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=8.2e-305 Score=2854.72 Aligned_cols=1149 Identities=65% Similarity=1.096 Sum_probs=1051.3
Q ss_pred cchhhhhhhhhcccCccchHHHHHHHHHHHHHhhHHHHHhhcCCeeeCCCCCC-------CCCeEEEEeeEEEeCCcccC
Q 001021 23 ITQEDAWAVISAYFEEKGLVRQQLDSFDEFIQNTMQEIVDESADIEIRPESQH-------NPGQQSDFAEIYLSKPMMTE 95 (1186)
Q Consensus 23 ~~~~~~~~~i~~~f~~~~Lv~~hi~SFN~Fl~~gL~~ii~~~~pI~~~~~~~~-------~~~~~l~f~~i~i~~P~~~~ 95 (1186)
++.+|+|.++++||+.++|++|||||||+|+++||++|++++++|+++.+.++ ..++.|+|++++|++|++.+
T Consensus 12 ~~~ed~w~li~aff~~~gLV~qHIdSFN~FI~~~Lq~IV~~~~~I~~~~~~~~~~~~~~~~~~~~l~f~~i~v~kP~~~e 91 (1210)
T 3h0g_B 12 LTQEDCWTVISSFFEETSLARQQLFSFDEFVQNTMQEIVDDDSTLTLDQYAQHTGAQGDVTRRYEINFGQIYLSRPTMTE 91 (1210)
T ss_dssp CCHHHHHHHHHHHHHHTCTTCSSSSSSSSSTTTTHHHHSSTTCCCC-------------------CEEEEEECCCCCCBC
T ss_pred CCHHHHHHHHHHHhcccchHHHHHHHHHHHHHHhHHHHHhccCcEEecCccCcccccccCCceEEEEEEEEEEcCCceec
Confidence 78899999999999999999999999999999999999999999988754321 13578999999999999998
Q ss_pred CCCccCCCChHHHHhcCCCcceeEEEEEEEEEeccCCC------C-c-ccccceeeEEEEecccceeeccCCccCCCCCh
Q 001021 96 SDGETATLFPKAARLRNLTYSAPLYVDVTKRVIKKGHD------G-E-EVTETQDFTKVFIGKVPIMLRSSYCTLYQNSE 167 (1186)
Q Consensus 96 ~~~~~~~l~P~EcR~r~lTYsa~l~v~v~~~~~~~~~~------~-~-~~~~~~~~~~v~lG~IPIMvkS~~C~L~~~s~ 167 (1186)
+++..++|||+|||+|++||+|||+|+|++.+++...+ . + ...+.....++.||+|||||||++|||+++|+
T Consensus 92 ~d~~~~~l~P~EcRlR~lTYsapl~Vdi~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~v~IG~iPIMlrS~~C~L~g~s~ 171 (1210)
T 3h0g_B 92 ADGSTTTMFPQEARLRNLTYSSPLYVDMRKKVMVAADSNVPIGEEEWLVEEEDEEPSKVFIGKIPIMLRSTFCILNGVSD 171 (1210)
T ss_dssp TTSCBCCCCTTTTTTTCCCCEEEEEEEEEC---------------------CCSSCCCEEEEEEECCSSSTTSSSSSCCH
T ss_pred CCCcccccCHHHHHhcCCccceeEEEEEEEEEcCccccccccccccccccccccccceEEEecCCEEeCCCcccCCCCCH
Confidence 88888999999999999999999999999988653210 0 0 00011234579999999999999999999999
Q ss_pred hhhhhcCCCCCCCCceEEEcCeeeEEEeeeeeccCeEEEEEecCCCcceEEEEEEEeecCCCCCCceEEEEEEecCCCCC
Q 001021 168 KDLTELGECPYDQGGYFIINGSEKVLIAQEKMSTNHVYVFKKRQPNKYAYVAEVRSMAESQNRPPSTMFVRMLSRTSAKG 247 (1186)
Q Consensus 168 ~eli~~gE~~~D~GGYFIING~ERVIi~Qe~~s~N~~~~~~~~~~~~~~~~~~irs~~~~g~~~~~~~~v~~~~~~~~~~ 247 (1186)
+||++.||||+||||||||||+|||||+||++|+|+++++++++++++.|.|+|||+++++++..+.+.++++.+...
T Consensus 172 ~eL~~~gEcp~D~GGYFIING~EKVII~qerla~N~~iv~~~~~~~~~~~~a~irS~~~~~~~~~s~~~v~~~~~~~~-- 249 (1210)
T 3h0g_B 172 SELYDLNECPYDQGGYFIINGSEKVIIAQERSAANIVQVFKKAAPSPIAYVAEIRSALERGSRLISSMQIKLMARNTE-- 249 (1210)
T ss_dssp HHHHHTTCCTTCCCCCBCGGGSCBCCCBCBCCCCSCCCCCCCCCSSSCCCCCCCCCCCCSSSCCCCCCCCCCCCCCTT--
T ss_pred HHHHhcCCCCCCCCCEEEEeCEEEEEEechhhccceEEEEeecCCCCceEEEEEEEEecCCccceeEEEEEEEecccc--
Confidence 999999999999999999999999999999999999999888877888999999999998877666666666543210
Q ss_pred CCCCcEEEEEeccccccchHHHHHHHhcCCCHHHHHHHhccccCchhhHhhhHhhHhhhhccccHHHHHHHHhhcCcccC
Q 001021 248 GSSGQYIRATLPYIRTEIPIIIVFRALGFVADKDILEHICYDFQDTQMMELLRPSLEEAFVIQNQQVALDYIGKRGATVG 327 (1186)
Q Consensus 248 ~~~~~~i~v~i~~~~~~IPl~ilLkALG~~sD~eI~~~i~~~~~~~~~~~~l~~~l~e~~~i~t~~~al~yIg~r~~~~~ 327 (1186)
..++.+++++++++.+||+++||||||.+||+||++.|+++..++++.++|+.+++++..++|+++||+|||+||+...
T Consensus 250 -~~~~~i~~~~~~~~~~IPi~ivlkALg~~sD~EI~~~I~~~~~d~~~~~~l~~slee~~~i~tq~~aL~yIG~r~~~~~ 328 (1210)
T 3h0g_B 250 -NSGQTIRATLPYIRSDIPIVIVFRALGVVPDRDILEHICYDPNDFQMLEMMKPCIEEAFVIQDKDIALDYIGKRGSTTG 328 (1210)
T ss_dssp -SCSCCCCCCCTTSCSCCCSHHHHTTTTCCSTTHHHHHHCCSSCCHHHHHTHHHHHHTTSSCCSSHHHHHTTCCCSSSCC
T ss_pred -CCCceEEEEEeccccCCcHHHHHHHcCCCCHHHHHHHHhCCCCcHHHHHHHHHHHHHhhhcCCHHHHHHHHHHhccccC
Confidence 0256899999999989999999999999999999999998878889999999999998888999999999999998666
Q ss_pred CCchhhHHHHHHHHhhcccCCCCCCCccchhHHHHHHHHHHHHHHhccCCcCCCCCcccccceeccCchhhHHHHHHHHH
Q 001021 328 VTRDKRIKYAKEILQKEMLPHVGTGDFCETKKAYYFGYIIHRLLLCALGRRAEDDRDHYGNKRLDLAGPLLGGLFRMLFR 407 (1186)
Q Consensus 328 ~~~~~~~e~~~~iL~~~ll~Hl~~~~~~~~~K~~~L~~Mv~kLl~l~~g~~~~DD~D~l~NkRv~l~G~Ll~~lfr~~l~ 407 (1186)
.++++++++|+++|++++|||++....++.+||.||++|+|||++++.|.+.+||+|||+||||+++|+||+.+||+.|+
T Consensus 329 ~~~~~~~~~a~~iL~~~lLpHl~~~~~~~~~Ka~fL~~MvrkLl~~~~G~~~~Dd~D~~~nkrl~l~G~Ll~~lfr~~~~ 408 (1210)
T 3h0g_B 329 VTREKRLRYAHDILQKELLPHITTMEGFETRKAFFLGYMIHRMLLCALERREPDDRDHFGKKRLDLAGPLLASLFRMLFR 408 (1210)
T ss_dssp CCHHHHHHHHHHHHTTTSSCSSCCSSSCCSSHHHHHHHHHHHHHHHHTTSSCCCCTTCSSSCCBCCHHHHHHHHHHHHHH
T ss_pred CCchhHHHHHHHHHHhhEEeCcCCCccchhHHHHHHHHHHHHHHHHhCCCCCCCCCccccCeEEecHHHHHHHHHHHHHH
Confidence 67788899999999999999999988778899999999999999999999999999999999999999999999999999
Q ss_pred HHHHHHHHHHhhhhcCCCccchhhhccccchhhhhhhhcccCcccccc-ccccccceeeeccccChhhhhccccccCCCC
Q 001021 408 KLTRDVRAYVQKCVDNGKDVNLQFAIKAKTITSGLKYSLATGNWGQAN-AAGTRAGVSQVLNRLTYASTLSHLRRLNSPI 486 (1186)
Q Consensus 408 ~~~k~ik~~l~k~~~~~~~~~~~~~i~~~~It~~i~~~~sTGNw~~~~-~~~~~sGvsq~l~r~N~l~~lSh~Rrv~~~~ 486 (1186)
++++++++++++.+++.+.+++..+++++.||++|+||||||||+..+ +.++++||||+|+|+||+|+|||||||++|+
T Consensus 409 ~~~~~i~~~l~k~~~~~~~~~~~~~i~~~~It~~l~~~laTGNW~~~kk~~~~~sGvsqvl~R~n~~s~lShlRrv~~p~ 488 (1210)
T 3h0g_B 409 KMTRDVYKYMQKCVETNREFNLTLAVKSNIITNGLRYSLATGNWGDQKRSMVNRVGVSQVLNRYTFASTLSHLRRTNTPI 488 (1210)
T ss_dssp HHHHHHHHHHHHHHTTCCSCCCTTSSCSTTTSHHHHHHHSSSCSSTTSSCCSCCCCSCCBCCCSSHHHHHHHTTBBCCSC
T ss_pred HHHHHHHHHHHHHhhcCCccCHHHhcchhhhHHHHHHHhhcCCcccccccccCcCCEEEEcccCCHHHHHHHHHhccCch
Confidence 999999999999888878889999999999999999999999999766 7789999999999999999999999999999
Q ss_pred CcCCCcCcccccCCCCccccccCCCCCCcccccccccceeEEEccCCCchhHHHHHHHhCCccccccCCCCCCCceEEEE
Q 001021 487 GREGKLAKPRQLHNSQWGMMCPAETPEGQACGLVKNLALMVYITVGSAAYPILEFLEEWGTENFEEISPAVIPQATKIFV 566 (1186)
Q Consensus 487 ~~~~K~t~vR~Lhps~wG~iCPveTPEG~~cGLvk~LA~~a~Is~~~~~~~i~~~l~~~g~~~~~~~~~~~~~~~~~V~l 566 (1186)
++++|+++||+||||||||+||+|||||++||||||||++|+||++.+.+||.++|.++||++++++.+...++.++|||
T Consensus 489 ~~~~K~~~~R~Lhpt~WG~iCP~eTPEG~~cGLvknLal~~~Isvg~~~~pI~~~l~~~gme~le~~~~~~~~~~tkVfv 568 (1210)
T 3h0g_B 489 GRDGKLAKPRQLHNTHWGMVCPAETPEGQACGLVKNLSLMSYVSVGSPSAPIIEFLEEWGLETLEDYNPSASPNATKVFV 568 (1210)
T ss_dssp CSSCCSSSSSSCCGGGTTTCCCSCCCSSSSTTTSCBCCSSCCBCCCCCSSHHHHHHHSSSCCCCSCCCSSSSSSSCCCCS
T ss_pred hhccccccccccChhhheeeccccCCCCCcccccccccceeeeECCCCcHHHHHHHHHhCCcchhhcCcccCCCceEEEE
Confidence 99999999999999999999999999999999999999999999999999999999999999999988888889999999
Q ss_pred CCEEEEEEcChHHHHHHHHhhhhcCCCCCceEEEEeccCCeEEEEeCCCceeeeEEEEecc-------cchhhHHHHHHH
Q 001021 567 NGCWVGIHRDPEMLVKTLRRLRRRVDVNTEVGVVRDIRLKELRIYTDYGRCSRPLFIVEKQ-------RLLIKKRDIIAL 639 (1186)
Q Consensus 567 nG~~iG~~~~~~~l~~~lr~~rr~~~i~~~vsi~~~~~~~~i~I~td~gRl~RPl~~v~~~-------~~~~~~~~~~~l 639 (1186)
||+|||+|.+|..|++.||.|||+|.|+.+|||+++...+|++||||+||+|||||+|+|+ ++.++++|+++|
T Consensus 569 NG~wVGvh~dp~~Lv~~lR~lRR~g~Is~eVSIvrdir~rE~~IfTDaGRv~RPLfvVen~~~~~~~g~L~l~k~hi~~L 648 (1210)
T 3h0g_B 569 NGVWLGVHRDPAHLTETLRSLRRRLDISAEVSIVRDIREKELRLFTDAGRICRPLFIVDNNPNSERRGELCIRKEHIQQL 648 (1210)
T ss_dssp TTCCCCCCSCHHHHHHHHHHHHTTTSSCTTCCCCCCTTTCCCCCCCSSCCBCCEEEECCCSSCSSSSCCCSSCHHHHHHH
T ss_pred CCEEEEEeCCHHHHHHHHHHHhhcCCCCCceEEEecCCCCeEEEecCCCcccceEEEEccCCcccccccccccHHHHHHH
Confidence 9999999999999999999999999999999999999999999999999999999999986 899999999999
Q ss_pred hcCCC------CCCCCccccccCCcEEEeccccccceeeeecccccccccCC-----------C----Cc---cccccce
Q 001021 640 QQRES------PEDGGWHDLVAKGFIEYIDTEEEETTMISMTINDLVQARLH-----------P----EE---AYADTYT 695 (1186)
Q Consensus 640 ~~~~~------~~~~~~~~l~~~g~iE~i~~~Ee~~~~Ia~~~~~~~~~~~~-----------~----k~---~~~~~~t 695 (1186)
.++.. ....+|++|+++|+||||||+||++++|||+++|+...+.. + +. .....||
T Consensus 649 ~~~~~~~~~~~~~~~~w~~Lv~~GvIEylDaeEEet~mIamtpeDL~~~r~~~~g~~~~~~~d~~~r~k~~~~~~~~~~T 728 (1210)
T 3h0g_B 649 IEDKDRYDIDPEQRFGWTALVSSGLIEYLDAEEEETVMIAMSPEDLEASRQMQAGYEVKEELDPAQRVKPAPNPHVHAWT 728 (1210)
T ss_dssp HHHHTCCCSCTTCCCSSTTTTTTTSEEECCTTTGGGCCEESCHHHHHHHHHHTTCCCCCCSSCCSSCCCCCSCCSCCSCS
T ss_pred hcccccccccccccCCHHHHHhCCCEEEecHhhhhceeEEecHHHhhhhhhhhccccccccccchhhccccCCCcccccc
Confidence 74311 01258999999999999999999999999999999652100 0 00 0135799
Q ss_pred eeecCCCccccccccccCCCCCCCCccchhhhhcccccccccccceEEeecccceeeccCCcceeecccccccccccCCC
Q 001021 696 HCEIHPSLILGVCASIIPFPDHNQSPRNTYQSAMGKQAMGIYVTNYQFRMDTLAYVLYYPQKPLVTTRAMEHLHFRQLPA 775 (1186)
Q Consensus 696 h~Ei~p~~ilsv~AslIPF~~HNqSpRn~yqc~M~KQaig~~~~n~~~r~D~~~~~L~ypQ~PlV~t~~~~~~~~~~~p~ 775 (1186)
||||||++|||||||+||||||||||||||||||+|||||++++|++.|+||++|+|+|||+|||+|+++++++++++|+
T Consensus 729 HcEIhPsmILGIcASiIPFpdHNQSPRNtYQ~aMgKQamG~~~~n~~~R~Dt~~~~L~yPQkPlv~T~~~e~~~~~elp~ 808 (1210)
T 3h0g_B 729 HCEIHPAMILGILASIIPFPDHNQSPRNTYQSAMGKQAMGVYLTNYQVRMDTMANILYYPQKPLATTRSMEYLKFRELPA 808 (1210)
T ss_dssp EECSCGGGSSCSSSTTSSSSTTSCSHHHHHHHHHHTTCCSCCCTTTTTSCCSSEEEESSCBCCSSBCTTSTTTTCTTSCS
T ss_pred cccccchhhhhheeecccCccccccchhhhhhhhhcccccccccccccccCccccEeecCcCccccchhHHHhCCCcccC
Confidence 99999999999999999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred CceeEEEEEecCCCCCCCcEEeeccccccCceEEEEEEEEEeeecccCCcceeeecCCCCCCCCCCCCCCcCCCCCCCcc
Q 001021 776 GINAIVAIACYSGYNQEDSVIMNQSSIDRGFFRSLFFRSYRDEEKKMGTLVKEDFGRPDRSNTMGMRHGSYDKLDDDGLA 855 (1186)
Q Consensus 776 G~N~~VAv~sy~GYn~EDaiiink~sv~rG~~~s~~~~~~~~~~~~~~~~~~e~~~~p~~~~~~~~~~~~~~~ld~dGi~ 855 (1186)
|+||+||||||+||||||||||||+|+|||||||+||++|++++++.+.+..+.|++|+.+...+++...|++||+||||
T Consensus 809 G~NaiVAvmsy~GYn~EDAiIink~sv~rg~~~s~~~~~y~~~~~~~~~~~~~~~~~p~~~~~~~~~~~~~~~LD~dGi~ 888 (1210)
T 3h0g_B 809 GQNAIVAILCYSGYNQEDSIIMNQASIDRGLFRSIFYRTYTDQEKKIGMTVMEEFERPVRSTTLRMKHGTYDKLEDDGLI 888 (1210)
T ss_dssp CCEECBEECCCSSSSCSSCEEEEHHHHTTTTTCEEEEEEEEECCCCCSSSCCCCCCCCCTTSCCSCCSCCGGGCCTTSSC
T ss_pred ccceEEEEeccCCCChhhheeeehhheecCceEEEEEEEEEEEeeecCCCceeEEcCCCcchhcccchhhHhhcCCCCCc
Confidence 99999999999999999999999999999999999999999999887766788999998776666777789999999999
Q ss_pred CCCcEEcCCCEEEEEeCCCCcc--ccccccCccccceeeEEeecCCCcEEEEEEEEecCCCceEEEEEEEeecCCCCccc
Q 001021 856 PPGTRVSGEDVIIGKTTPISQD--EAQGQASRYTRRDHSISLRHSETGMVDQVLLTTNADGLRFVKVRVRSVRIPQIGDK 933 (1186)
Q Consensus 856 ~~g~~v~~gd~l~~k~~p~~~~--~~~~~~~~~~~~~~s~~~~~~~~g~v~~v~~~~~~~~~~~vkv~~r~~R~p~iGDK 933 (1186)
.||++|++|||||||++|+..+ +++...+....+|+|++++++|.|+||+|.++++.+|.+.|||++|+.|+|++|||
T Consensus 889 ~~G~~v~~gDiligK~~p~~~~~~~~~~~~~~~~~rd~s~~~~~~e~g~Vd~V~~~~~~~g~~~vkv~~~~~R~~~~GDK 968 (1210)
T 3h0g_B 889 APGTRVSGEDIIIGKTAPIPLDHEELGQRTQLHAKRDVSTPLRSTESGIVDQVMVTTNQEGLKFVKVRMRSTRIPQIGDK 968 (1210)
T ss_dssp CTTCCCCTTCCCCCCCCCC-----------CCCCCCCCCCCCCTTCCCCCCEEEEEECSSSSEEEEEEECCCBCCCTTCE
T ss_pred CCCCEecCCCEEEEEecCCCCCchhhcccccccccceeeEEecCCCCeEEEEEEEEEecCCCeEEEEEEEEecCCCchhh
Confidence 9999999999999999998742 23333345568999999999999999999999999999999999999999999999
Q ss_pred ccccCCCccEEEeeecCCCCCCCCCCCCCcEEeCCCCCCCCCchhhHHhhhhhHhhhhcCCccccCCCCCccHHHHHHHH
Q 001021 934 FSSRHGQKGTVGMTYTQEDMPWTVEGITPDIIVNPHAIPSRMTIGQLIECIMGKVAAHMGKEGDATPFTDVTVDNISKAL 1013 (1186)
Q Consensus 934 fssRhGqKGvvs~i~~~~dmPf~~~G~~pDiI~NPh~~PSRMtiGql~E~~~gk~~~~~g~~~d~tpF~~~~~~~~~~~l 1013 (1186)
||||||||||||+|||+|||||+++|++|||||||||||||||||||+|+++||||++.|.+.|+|||++.+++++++.|
T Consensus 969 ~a~RhGqKGvi~~i~~~edmPf~~~G~~pDii~NP~~~PSRMtigq~~E~~~g~~~~~~g~~~~~tpF~~~~~~~~~~~l 1048 (1210)
T 3h0g_B 969 FASRHGQKGTIGMTYRHEDMPFSAQGIVPDIIINPHAIPSRMTVAHLVECQLSKVSALSGFEGDATPFTDVTVEAVSKLL 1048 (1210)
T ss_dssp EECTTCCCEEEEEEECTTTSCCBTTTBCCSEECCGGGSTTSCCHHHHHHHHHHHHSSSSCCCCBCCSSCSCCHHHHHHHH
T ss_pred hhcccCCCceeeEEeccccCCcCCCCCCCeEEECCCcCCCCccchhhhHhHHHHHHHhcCCceeeccCCCCcHHHHHHHH
Confidence 99999999999999999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred HHcCCCCCCeEEEeeCCCCceEEeeEeEeeeehhccccccCCceEEeccCCccccccCCCCcccCCCcceeeehhhhHHH
Q 001021 1014 HKCGYQMRGFETMYNGHTGRRLTAMIFLGPTYYQRLKHMVDDKIHSRGRGPVQILTRQPAEGRSRDGGLRFGEMERDCMI 1093 (1186)
Q Consensus 1014 ~~~g~~~~G~e~ly~g~tG~~~~~~if~G~~yy~rL~Hmv~DK~~~R~~Gp~~~lT~QP~~Gr~~~GG~R~GEMErd~l~ 1093 (1186)
+++||+++|+|+||||+||++|+++||+|++|||||+|||+||+||||+|||+.|||||++||+|+|||||||||||||+
T Consensus 1049 ~~~g~~~~G~~~l~~g~tg~~~~~~i~~G~~yy~kL~Hmv~dK~h~r~~gp~~~~t~QP~~gr~~~GG~r~GEME~~~l~ 1128 (1210)
T 3h0g_B 1049 RSHGFQSRGFEVMYHGHTGRKLVAQVFLGPTYYQRLKHLVDDKIHARARGPVQILTRQPVEGRSRDGGLRFGEMERDCQI 1128 (1210)
T ss_dssp HTTTSCTTSCBCCBCSSSCCBCSSCBEECCEECEECSCCSTTTCEECSSCCBCSSSCSBCCSSTTCCCCCCCHHHHHHHH
T ss_pred HHcCcCCCCCEEEEcCCCCCCccccEEEEehHhhcchhhcccCcEEeccCCCchhccCCcccccccCCeeeehhhhhhhh
Confidence 99999999999999999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred hhccHHHHHHhhhcCCCcceeeeccccCcceeeccccCceeeccCCCCCCceeecccHhhHHHHHHHHhCCCceEEEecc
Q 001021 1094 AHGASHFLKERLFDQSDAYRVHVCEHCGLIAIANLKKNSFECRGCKNKTDIVQVHIPYACKLLFQELMAMAIAPRMLTKE 1173 (1186)
Q Consensus 1094 a~Gas~~L~erL~~~SD~~~~~vC~~cG~~~~~~~~~~~~~C~~C~~~~~i~~v~iPy~~k~l~~EL~sm~i~~~l~~~~ 1173 (1186)
|||||++|+|||+.+||++.++||+.||++++.+...+.++|+.|.++.+|.++.||||||||+|||+||||++||.+++
T Consensus 1129 a~Gaa~~l~e~l~~~SD~~~~~vC~~cg~~~~~~~~~~~~~c~~c~~~~~i~~~~~p~~~k~l~~El~~~~i~~rl~~~~ 1208 (1210)
T 3h0g_B 1129 SHGCSSVLRERLFDCSDAYRVIVCDICGLIAIASYKKDSYECRSCQNRTRFSQVYLPYAAKLLFQELMSMNIAPRLFTKN 1208 (1210)
T ss_dssp HHTBHHHHHHHHHTTTTCCEEEEESSSCCBCCCCSSSCCCCCTTTCCSSCEEEEECCHHHHHHHHHHHTTTCCEECCCST
T ss_pred hccHHHHHHHHhhcCCCcceeEeecCCCCeeeecccCCceEcCccCCCCccceecCCHHHHHHHHHHHhCCCceEEEecC
Confidence 99999999999999999999999999999998777777899999999999999999999999999999999999999865
Q ss_pred C
Q 001021 1174 D 1174 (1186)
Q Consensus 1174 ~ 1174 (1186)
+
T Consensus 1209 ~ 1209 (1210)
T 3h0g_B 1209 H 1209 (1210)
T ss_dssp T
T ss_pred C
Confidence 4
|
| >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 |
|---|
| >3qqc_A DNA-directed RNA polymerase subunit B, DNA-direct polymerase subunit A', DNA-directed...; transcription, fusion protein, chimera protein, multiprotein; 3.30A {Pyrococcus furiosus} | 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 |
|---|
| >3mlq_A DNA-directed RNA polymerase subunit beta; tudor, transferase-transcription complex; 2.91A {Thermus aquaticus} | 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 |
| 1186 | ||||
| d1twfb_ | 1207 | e.29.1.1 (B:) RBP2 {Baker's yeast (Saccharomyces c | 0.0 | |
| d1smyc_ | 1119 | e.29.1.1 (C:) RNA-polymerase beta {Thermus thermop | 0.0 |
| >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 = 1190 bits (3080), Expect = 0.0
Identities = 731/1208 (60%), Positives = 910/1208 (75%), Gaps = 53/1208 (4%)
Query: 17 EDEEEEITQEDAWAVISAYFEEKGLVRQQLDSFDEFIQNTMQEIVDESADIEIRPESQHN 76
EDE IT ED+WAVISA+F EKGLV QQLDSF++F+ T+Q+I+ E + + + +QH
Sbjct: 2 EDESAPITAEDSWAVISAFFREKGLVSQQLDSFNQFVDYTLQDIICEDSTLILEQLAQHT 61
Query: 77 PGQQSD-------FAEIYLSKPMMTESDGETATLFPKAARLRNLTYSAPLYVDVTKRV-- 127
+ F +IY++KPM+ ESDG T L+P+ ARLRNLTYS+ L+VDV KR
Sbjct: 62 TESDNISRKYEISFGKIYVTKPMVNESDGVTHALYPQEARLRNLTYSSGLFVDVKKRTYE 121
Query: 128 --------IKKGHDGEEVTETQDFTKVFIGKVPIMLRSSYCTLYQNSEKDLTELGECPYD 179
+K EE + + KVFIG++PIMLRS C L + +E DL +L ECP+D
Sbjct: 122 AIDVPGRELKYELIAEESEDDSESGKVFIGRLPIMLRSKNCYLSEATESDLYKLKECPFD 181
Query: 180 QGGYFIINGSEKVLIAQEKMSTNHVYVFKKRQPNKYAYVAEVRSMAESQNRPPSTMFVRM 239
GGYFIINGSEKVLIAQE+ + N V VFKK P+ ++VAE+RS E +R ST+ V++
Sbjct: 182 MGGYFIINGSEKVLIAQERSAGNIVQVFKKAAPSPISHVAEIRSALEKGSRFISTLQVKL 241
Query: 240 LSRTSAKGGSSGQYIRATLPYIRTEIPIIIVFRALGFVADKDILEHICYDFQDTQMMELL 299
+ GSS + I+ATLPYI+ +IPI+I+FRALG + D +ILEHICYD D QM+E+L
Sbjct: 242 YG----REGSSARTIKATLPYIKQDIPIVIIFRALGIIPDGEILEHICYDVNDWQMLEML 297
Query: 300 RPSLEEAFVIQNQQVALDYIGKRGATVGVTRDKRIKYAKEILQKEMLPHVGTGDFCETKK 359
+P +E+ FVIQ+++ ALD+IG+RG +G+ ++KRI+YAK+ILQKE LPH+ + E++K
Sbjct: 298 KPCVEDGFVIQDRETALDFIGRRGTALGIKKEKRIQYAKDILQKEFLPHITQLEGFESRK 357
Query: 360 AYYFGYIIHRLLLCALGRRAEDDRDHYGNKRLDLAGPLLGGLFRMLFRKLTRDVRAYVQK 419
A++ GY+I+RLLLCAL R+ +DDRDH+G KRLDLAGPLL LF+ LF+KLT+D+ Y+Q+
Sbjct: 358 AFFLGYMINRLLLCALDRKDQDDRDHFGKKRLDLAGPLLAQLFKTLFKKLTKDIFRYMQR 417
Query: 420 CVDNGKDVNLQFAIKAKTITSGLKYSLATGNWGQA-NAAGTRAGVSQVLNRLTYASTLSH 478
V+ D N++ AI AKTITSGLKY+LATGNWG+ A +RAGVSQVLNR TY+STLSH
Sbjct: 418 TVEEAHDFNMKLAINAKTITSGLKYALATGNWGEQKKAMSSRAGVSQVLNRYTYSSTLSH 477
Query: 479 LRRLNSPIGREGKLAKPRQLHNSQWGMMCPAETPEGQACGLVKNLALMVYITVGSAAYPI 538
LRR N+PIGR+GKLAKPRQLHN+ WG++CPAETPEGQACGLVKNL+LM I+VG+ PI
Sbjct: 478 LRRTNTPIGRDGKLAKPRQLHNTHWGLVCPAETPEGQACGLVKNLSLMSCISVGTDPMPI 537
Query: 539 LEFLEEWGTENFEEISPAVIPQATKIFVNGCWVGIHRDPEMLVKTLRRLRRRVDVNTEVG 598
+ FL EWG E E+ P P AT++FVNG W G+HR+P L++TLR LRR+ D+N EV
Sbjct: 538 ITFLSEWGMEPLEDYVPHQSPDATRVFVNGVWHGVHRNPARLMETLRTLRRKGDINPEVS 597
Query: 599 VVRDIRLKELRIYTDYGRCSRPLFIVE------KQRLLIKKRDIIALQQRESPEDGG--- 649
++RDIR KEL+I+TD GR RPLFIVE + L ++K I L E + G
Sbjct: 598 MIRDIREKELKIFTDAGRVYRPLFIVEDDESLGHKELKVRKGHIAKLMATEYQDIEGGFE 657
Query: 650 ------WHDLVAKGFIEYIDTEEEETTMISMTINDLVQARLHPEE-------------AY 690
W L+ +G +EYID EEEE+ +I+M DL A + E +
Sbjct: 658 DVEEYTWSSLLNEGLVEYIDAEEEESILIAMQPEDLEPAEANEENDLDVDPAKRIRVSHH 717
Query: 691 ADTYTHCEIHPSLILGVCASIIPFPDHNQSPRNTYQSAMGKQAMGIYVTNYQFRMDTLAY 750
A T+THCEIHPS+ILGV ASIIPFPDHNQSPRNTYQSAMGKQAMG+++TNY RMDT+A
Sbjct: 718 ATTFTHCEIHPSMILGVAASIIPFPDHNQSPRNTYQSAMGKQAMGVFLTNYNVRMDTMAN 777
Query: 751 VLYYPQKPLVTTRAMEHLHFRQLPAGINAIVAIACYSGYNQEDSVIMNQSSIDRGFFRSL 810
+LYYPQKPL TTRAME+L FR+LPAG NAIVAIACYSGYNQEDS+IMNQSSIDRG FRSL
Sbjct: 778 ILYYPQKPLGTTRAMEYLKFRELPAGQNAIVAIACYSGYNQEDSMIMNQSSIDRGLFRSL 837
Query: 811 FFRSYRDEEKKMGTLVKEDFGRPDRSNTMGMRHGSYDKLDDDGLAPPGTRVSGEDVIIGK 870
FFRSY D+EKK G + E F +P R+NT+ M+HG+YDKLDDDGL PG RVSGEDVIIGK
Sbjct: 838 FFRSYMDQEKKYGMSITETFEKPQRTNTLRMKHGTYDKLDDDGLIAPGVRVSGEDVIIGK 897
Query: 871 TTPISQD--EAQGQASRYTRRDHSISLRHSETGMVDQVLLTTNADGLRFVKVRVRSVRIP 928
TTPIS D E + + +++RD S LR +E G+VDQVL+TTN DGL+FVKVRVR+ +IP
Sbjct: 898 TTPISPDEEELGQRTAYHSKRDASTPLRSTENGIVDQVLVTTNQDGLKFVKVRVRTTKIP 957
Query: 929 QIGDKFSSRHGQKGTVGMTYTQEDMPWTVEGITPDIIVNPHAIPSRMTIGQLIECIMGKV 988
QIGDKF+SRHGQKGT+G+TY +EDMP+T EGI PD+I+NPHAIPSRMT+ LIEC++ KV
Sbjct: 958 QIGDKFASRHGQKGTIGITYRREDMPFTAEGIVPDLIINPHAIPSRMTVAHLIECLLSKV 1017
Query: 989 AAHMGKEGDATPFTDVTVDNISKALHKCGYQMRGFETMYNGHTGRRLTAMIFLGPTYYQR 1048
AA G EGDA+PFTD+TV+ ISK L + GYQ RGFE MYNGHTG++L A IF GPTYYQR
Sbjct: 1018 AALSGNEGDASPFTDITVEGISKLLREHGYQSRGFEVMYNGHTGKKLMAQIFFGPTYYQR 1077
Query: 1049 LKHMVDDKIHSRGRGPVQILTRQPAEGRSRDGGLRFGEMERDCMIAHGASHFLKERLFDQ 1108
L+HMVDDKIH+R RGP+Q+LTRQP EGRSRDGGLRFGEMERDCMIAHGA+ FLKERL +
Sbjct: 1078 LRHMVDDKIHARARGPMQVLTRQPVEGRSRDGGLRFGEMERDCMIAHGAASFLKERLMEA 1137
Query: 1109 SDAYRVHVCEHCGLIA-IANLKKNSFECRGCKNKTDIVQVHIPYACKLLFQELMAMAIAP 1167
SDA+RVH+C CGL+ IA L N FEC+GC NK DI Q+HIPYA KLLFQELMAM I P
Sbjct: 1138 SDAFRVHICGICGLMTVIAKLNHNQFECKGCDNKIDIYQIHIPYAAKLLFQELMAMNITP 1197
Query: 1168 RMLTKEDT 1175
R+ T
Sbjct: 1198 RLYTDRSR 1205
|
| >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 | 1186 | |||
| 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: | 85.55 |
| >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=9.9e-268 Score=2596.80 Aligned_cols=1155 Identities=63% Similarity=1.060 Sum_probs=1004.6
Q ss_pred cccccccchhhhhhhhhcccCccchHHHHHHHHHHHHHhhHHHHHhhcCCeeeCCCCC-------CCCCeEEEEeeEEEe
Q 001021 17 EDEEEEITQEDAWAVISAYFEEKGLVRQQLDSFDEFIQNTMQEIVDESADIEIRPESQ-------HNPGQQSDFAEIYLS 89 (1186)
Q Consensus 17 ~~~~~~~~~~~~~~~i~~~f~~~~Lv~~hi~SFN~Fl~~gL~~ii~~~~pI~~~~~~~-------~~~~~~l~f~~i~i~ 89 (1186)
||++.+++++|+|++|++||+.++|++|||+|||+||++||++|+++.+||.+....+ ....+.|+|++++|+
T Consensus 2 ~~~~~~~~~~d~w~~i~~~f~~~~Lv~~qidSFn~Fi~~gi~~Ii~~~~pi~~~~~~~~~~~~~~~~~~~~l~f~~i~i~ 81 (1207)
T d1twfb_ 2 EDESAPITAEDSWAVISAFFREKGLVSQQLDSFNQFVDYTLQDIICEDSTLILEQLAQHTTESDNISRKYEISFGKIYVT 81 (1207)
T ss_dssp CCTTCCCCTTHHHHHHHHHHHHHTTCHHHHHHHHHHHHTHHHHHHHTTCBCC------------------CCEECCCEEE
T ss_pred CccCCCCCHHHHHHHHHHHhCCCCccHHHHHHHHHHHHHCHHHHHHhcCCeEeeccccccccccCCCceEEEEEEEEEEc
Confidence 5667889999999999999999999999999999999999999999999997643321 112578999999999
Q ss_pred CCcccCCCCccCCCChHHHHhcCCCcceeEEEEEEEEEeccCCCCc----------ccccceeeEEEEecccceeeccCC
Q 001021 90 KPMMTESDGETATLFPKAARLRNLTYSAPLYVDVTKRVIKKGHDGE----------EVTETQDFTKVFIGKVPIMLRSSY 159 (1186)
Q Consensus 90 ~P~~~~~~~~~~~l~P~EcR~r~lTYsa~l~v~v~~~~~~~~~~~~----------~~~~~~~~~~v~lG~IPIMvkS~~ 159 (1186)
+|++.+.++..++|||+|||+|++||+|||+|+|++.+.+...... +.......++|+||+|||||+|++
T Consensus 82 kP~~~e~~g~~~~l~P~EcR~r~lTYs~~l~v~i~~~~~~~~~~~~~~~k~~~~~~~~~~~~~~~~v~iG~IPIMv~S~~ 161 (1207)
T d1twfb_ 82 KPMVNESDGVTHALYPQEARLRNLTYSSGLFVDVKKRTYEAIDVPGRELKYELIAEESEDDSESGKVFIGRLPIMLRSKN 161 (1207)
T ss_dssp EEEECCSSSCCEECCHHHHHHTTCCCEEEEECCEECCCCC-------------------------CCEEEEEECCTTSTT
T ss_pred CCeEEcCCCcccccCHHHHHhcCCccceEEEEEEEEEEEecccccccccceeecccccccceeeeeEEEEECCEEeCCCc
Confidence 9999888888899999999999999999999999976543221100 011233466899999999999999
Q ss_pred ccCCCCChhhhhhcCCCCCCCCceEEEcCeeeEEEeeeeeccCeEEEEEecCCCcceEEEEEEEeecCCCCCCceEEEEE
Q 001021 160 CTLYQNSEKDLTELGECPYDQGGYFIINGSEKVLIAQEKMSTNHVYVFKKRQPNKYAYVAEVRSMAESQNRPPSTMFVRM 239 (1186)
Q Consensus 160 C~L~~~s~~eli~~gE~~~D~GGYFIING~ERVIi~Qe~~s~N~~~~~~~~~~~~~~~~~~irs~~~~g~~~~~~~~v~~ 239 (1186)
|||+++++++|++.||||+|+||||||||+|||||+|++.++|+++++++++.+++.|+|++||++++++|..+++.+++
T Consensus 162 C~L~~~~~~~l~~~gEc~~D~GGYFIING~EKVIi~Q~r~~~n~~~v~~~~~~~~~~~~~~irS~~~~~~~~~~~~~~~~ 241 (1207)
T d1twfb_ 162 CYLSEATESDLYKLKECPFDMGGYFIINGSEKVLIAQERSAGNIVQVFKKAAPSPISHVAEIRSALEKGSRFISTLQVKL 241 (1207)
T ss_dssp SGGGTCCHHHHHHTTCCTTCCCCSEEETTEEEEECEEEEECSSCCEEEECCTTSSEEEEEEEECCCSSSCCCCCEEEEEE
T ss_pred ccCCCcCHHHHHHcCCCCCCCCcEEEECCEEEEEEEEEecCCCeEEEEEcCCCCceEEEEEEEEEeCCCCceeEEEEEEE
Confidence 99999999999999999999999999999999999999999999999988888888999999999999999888888887
Q ss_pred EecCCCCCCCCCcEEEEEeccccccchHHHHHHHhcCCCHHHHHHHhccccCchhhHhhhHhhHhhhhccccHHHHHHHH
Q 001021 240 LSRTSAKGGSSGQYIRATLPYIRTEIPIIIVFRALGFVADKDILEHICYDFQDTQMMELLRPSLEEAFVIQNQQVALDYI 319 (1186)
Q Consensus 240 ~~~~~~~~~~~~~~i~v~i~~~~~~IPl~ilLkALG~~sD~eI~~~i~~~~~~~~~~~~l~~~l~e~~~i~t~~~al~yI 319 (1186)
+.++. .....+++.+++++.+||+++||||||..||+||++.++.+..+.++.+.+..++++...+.|+++|+.||
T Consensus 242 ~~~~~----~~~~~i~~~~~~~~~~IPl~illrALG~~sD~eI~~~i~~~~~~~~~~~~l~~~~~~~~~~~t~e~al~yi 317 (1207)
T d1twfb_ 242 YGREG----SSARTIKATLPYIKQDIPIVIIFRALGIIPDGEILEHICYDVNDWQMLEMLKPCVEDGFVIQDRETALDFI 317 (1207)
T ss_dssp ESCSS----CSSCCEEEECTTCSSCEEHHHHHHHTTCCSHHHHHHHHCCCTTCHHHHHHHHHHHHHTTTCCSHHHHHHHH
T ss_pred EEcCC----ccceEEEEEeehhcccchHHHHHHHhCCcchhhhhhhcccCchhhHHHHHHHHHHhhccchhhHHHHHHHH
Confidence 65432 12457899999988899999999999999999999999988777778889999888888889999999999
Q ss_pred hhcCcccCCCchhhHHHHHHHHhhcccCCCCCCCccchhHHHHHHHHHHHHHHhccCCcCCCCCcccccceeccCchhhH
Q 001021 320 GKRGATVGVTRDKRIKYAKEILQKEMLPHVGTGDFCETKKAYYFGYIIHRLLLCALGRRAEDDRDHYGNKRLDLAGPLLG 399 (1186)
Q Consensus 320 g~r~~~~~~~~~~~~e~~~~iL~~~ll~Hl~~~~~~~~~K~~~L~~Mv~kLl~l~~g~~~~DD~D~l~NkRv~l~G~Ll~ 399 (1186)
|++++....+.....+.|+++|.+.+|||++....++..|+.+|++|++||+.+..|.+.+||+|||+||||+++|+||+
T Consensus 318 g~~~~~~~~~~~~~~~~~~~iL~~~llpHl~~~~~~~~~K~~~L~~mi~kll~~~~g~~~~dd~D~~~nkrv~~~G~Ll~ 397 (1207)
T d1twfb_ 318 GRRGTALGIKKEKRIQYAKDILQKEFLPHITQLEGFESRKAFFLGYMINRLLLCALDRKDQDDRDHFGKKRLDLAGPLLA 397 (1207)
T ss_dssp HHTTSCTTSCHHHHHHHHHHHHHHTSSTTTCCSSSCHHHHHHHHHHHHHHHHHHHTTSSCCCCTTCGGGEEEECHHHHHH
T ss_pred HhhccccCCCccchHHHHHHHHHhhhccccccccchhhhHHHHHHHHHHHHHHhhhcccCCcchhhhccchhhhHHHHHH
Confidence 99987666677778899999999999999998777778899999999999999999999999999999999999999999
Q ss_pred HHHHHHHHHHHHHHHHHHhhhhcCCCccchhhhccccchhhhhhhhcccCcccccc-ccccccceeeeccccChhhhhcc
Q 001021 400 GLFRMLFRKLTRDVRAYVQKCVDNGKDVNLQFAIKAKTITSGLKYSLATGNWGQAN-AAGTRAGVSQVLNRLTYASTLSH 478 (1186)
Q Consensus 400 ~lfr~~l~~~~k~ik~~l~k~~~~~~~~~~~~~i~~~~It~~i~~~~sTGNw~~~~-~~~~~sGvsq~l~r~N~l~~lSh 478 (1186)
.+||+.|+++++.+++.+.+...+.+.+++..+++++.||++|++||+||||.++. ..++++|+||+|+|+||+++|||
T Consensus 398 ~~fr~~~~~~~~~i~~~~~~~~~~~~~~~~~~~~~~~~it~~i~~~~~TGn~~~~~~~~~~~~G~sq~l~r~n~l~~lSh 477 (1207)
T d1twfb_ 398 QLFKTLFKKLTKDIFRYMQRTVEEAHDFNMKLAINAKTITSGLKYALATGNWGEQKKAMSSRAGVSQVLNRYTYSSTLSH 477 (1207)
T ss_dssp HHHHHHHHHHHHHHHHHHHSCCC--------CCCCTHHHHHHHHHHHHHCCCC---------CCCEEECCCSSHHHHHHH
T ss_pred HHHHHHHHHHHHHHHhhhccccccccccChhhhhccCcHHHHHHHHHhcCcccccccccccccchhhhhhhcCHHHHHHh
Confidence 99999999999999999988766666778888888999999999999999999886 56789999999999999999999
Q ss_pred ccccCCCCCcCCCcCcccccCCCCccccccCCCCCCcccccccccceeEEEccCCCchhHHHHHHHhCCccccccCCCCC
Q 001021 479 LRRLNSPIGREGKLAKPRQLHNSQWGMMCPAETPEGQACGLVKNLALMVYITVGSAAYPILEFLEEWGTENFEEISPAVI 558 (1186)
Q Consensus 479 ~Rrv~~~~~~~~K~t~vR~Lhps~wG~iCPveTPEG~~cGLvk~LA~~a~Is~~~~~~~i~~~l~~~g~~~~~~~~~~~~ 558 (1186)
+||+|+++++++|+++||+||||||||+||+|||||+|||||||||++|+|+.+.+..++.++|..+|+..+........
T Consensus 478 ~Rrv~~~~~~~~k~~~~R~Lhps~~G~iCPveTPEG~~~GLv~~La~~a~i~~~~~~~~~~~~l~~~g~~~~~~~~~~~~ 557 (1207)
T d1twfb_ 478 LRRTNTPIGRDGKLAKPRQLHNTHWGLVCPAETPEGQACGLVKNLSLMSCISVGTDPMPIITFLSEWGMEPLEDYVPHQS 557 (1207)
T ss_dssp HTEEECCC------CCTTSCCGGGTTTBCSSCCCSGGGBTTEEEBCTTCEECCCCCCHHHHHHHHHTTCEEGGGCCGGGC
T ss_pred hhcccCCcccccccchhhhcchhhccceeeeeCCCCCcccceeccceeeeeccccccceeeEEeeccCcccceeeeeccc
Confidence 99999999999999999999999999999999999999999999999999999989999999999999998877766667
Q ss_pred CCceEEEECCEEEEEEcChHHHHHHHHhhhhcCCCCCceEEEEeccCCeEEEEeCCCceeeeEEEEeccc------chhh
Q 001021 559 PQATKIFVNGCWVGIHRDPEMLVKTLRRLRRRVDVNTEVGVVRDIRLKELRIYTDYGRCSRPLFIVEKQR------LLIK 632 (1186)
Q Consensus 559 ~~~~~V~lnG~~iG~~~~~~~l~~~lr~~rr~~~i~~~vsi~~~~~~~~i~I~td~gRl~RPl~~v~~~~------~~~~ 632 (1186)
.+..+||+||.|+|+++++..|++.+|.+||.|.++.+++++++....+++|+||+||++||||+++|+. +.+.
T Consensus 558 ~~~~~V~~nG~~~G~~~~~~~l~~~lr~~R~~g~i~~~~s~~~~~~~~~i~i~td~Gr~~rPlfi~~nd~~~~~~~~~mq 637 (1207)
T d1twfb_ 558 PDATRVFVNGVWHGVHRNPARLMETLRTLRRKGDINPEVSMIRDIREKELKIFTDAGRVYRPLFIVEDDESLGHKELKVR 637 (1207)
T ss_dssp TTCEEEEETTEEEEEESCHHHHHHHHHHHHHHTSSCTTCEEEEETTTTEEEEECCSCCEEEEEEEEECCCTTSSCEESCC
T ss_pred cccceeeeeeeEEEEEcchheeehheeeeeeccCccceeeeeeeccccceEEEecCccccCCceeecchhhhcccceeee
Confidence 7889999999999999999999999999999999999999999999999999999999999999999864 4456
Q ss_pred HHHHHHHhcCCCC---------CCCCccccccCCcEEEeccccccceeeeecccccccccCCC---------C----ccc
Q 001021 633 KRDIIALQQRESP---------EDGGWHDLVAKGFIEYIDTEEEETTMISMTINDLVQARLHP---------E----EAY 690 (1186)
Q Consensus 633 ~~~~~~l~~~~~~---------~~~~~~~l~~~g~iE~i~~~Ee~~~~Ia~~~~~~~~~~~~~---------k----~~~ 690 (1186)
+.++..+...+.. ...+|.+++.+|+|||||++|++++.||+++++++...... + ...
T Consensus 638 rq~v~~l~~~e~~~v~~~~e~~~~~~~~~~~~~g~ieyid~~E~~~~~Ia~~~~~i~~~~~~~~~~~~~~~~~~~~~~~~ 717 (1207)
T d1twfb_ 638 KGHIAKLMATEYQDIEGGFEDVEEYTWSSLLNEGLVEYIDAEEEESILIAMQPEDLEPAEANEENDLDVDPAKRIRVSHH 717 (1207)
T ss_dssp HHHHHHHHHHHHCC---------CCCHHHHHHTTSEEEEEHHHHTTCCEESSGGGGCC---------CCCTTSCCCCCCC
T ss_pred HhhHhhhhccccccccccccchhhccccccccCCceeeecchhcceEEEEecccccccccccccccccccchhheeeecc
Confidence 6665544221100 13479999999999999999999999999999986531100 0 001
Q ss_pred cccceeeecCCCccccccccccCCCCCCCCccchhhhhcccccccccccceEEeecccceeeccCCcceeeccccccccc
Q 001021 691 ADTYTHCEIHPSLILGVCASIIPFPDHNQSPRNTYQSAMGKQAMGIYVTNYQFRMDTLAYVLYYPQKPLVTTRAMEHLHF 770 (1186)
Q Consensus 691 ~~~~th~Ei~p~~ilsv~AslIPF~~HNqSpRn~yqc~M~KQaig~~~~n~~~r~D~~~~~L~ypQ~PlV~t~~~~~~~~ 770 (1186)
...+||+||||++|||++||+|||+||||||||||||||+|||||++++|++.|.|+++|+|+|||+|||+|+.++.+++
T Consensus 718 ~~~~th~Ei~p~~ilg~~as~iPf~~hNqSpRn~yq~qm~KQa~G~~~~~~~~r~D~~~~~l~~pQ~Plv~t~~~~~~~~ 797 (1207)
T d1twfb_ 718 ATTFTHCEIHPSMILGVAASIIPFPDHNQSPRNTYQSAMGKQAMGVFLTNYNVRMDTMANILYYPQKPLGTTRAMEYLKF 797 (1207)
T ss_dssp CSCCCEECSCGGGGSCTTGGGSSSGGGSCHHHHHHHHHHGGGBCBCSCTTTTTCCCSEEEEESSCBCCSEECTTHHHHTT
T ss_pred cccccccccccceEEeeecceEEecccccccceeecccCCcccCCccccccceeccccceeEecCCCceeeccchhhhhh
Confidence 34689999999999999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred ccCCCCceeEEEEEecCCCCCCCcEEeeccccccCceEEEEEEEEEeeecccCCcceeeecCCCCCCCCCCCCCCcCCCC
Q 001021 771 RQLPAGINAIVAIACYSGYNQEDSVIMNQSSIDRGFFRSLFFRSYRDEEKKMGTLVKEDFGRPDRSNTMGMRHGSYDKLD 850 (1186)
Q Consensus 771 ~~~p~G~N~~VAv~sy~GYn~EDaiiink~sv~rG~~~s~~~~~~~~~~~~~~~~~~e~~~~p~~~~~~~~~~~~~~~ld 850 (1186)
+++|+|+||+||||||+||||||||||||+|++||||||+||++|++++++.+.+..+.+..|...+....+...|++||
T Consensus 798 ~e~p~G~N~iVAvmsy~GYN~EDAiIiNk~si~rG~f~s~~~k~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~Ld 877 (1207)
T d1twfb_ 798 RELPAGQNAIVAIACYSGYNQEDSMIMNQSSIDRGLFRSLFFRSYMDQEKKYGMSITETFEKPQRTNTLRMKHGTYDKLD 877 (1207)
T ss_dssp TTSCCCEEEEEEECBSSSTTTTTEEEEEHHHHHTTTTCEEEEEEEEECCCCSCTTCCCEESCCCCSSSCBCCSSCGGGCC
T ss_pred hcccchhceEEEEEeccCcccccccccchhhhhhcccceeeeEEEEEEeccccccccccccccccccccccchhhhhccc
Confidence 99999999999999999999999999999999999999999999999998877677778887776665566677899999
Q ss_pred CCCccCCCcEEcCCCEEEEEeCCCCcccc--ccccCccccceeeEEeecCCCcEEEEEEEEecCCCceEEEEEEEeecCC
Q 001021 851 DDGLAPPGTRVSGEDVIIGKTTPISQDEA--QGQASRYTRRDHSISLRHSETGMVDQVLLTTNADGLRFVKVRVRSVRIP 928 (1186)
Q Consensus 851 ~dGi~~~g~~v~~gd~l~~k~~p~~~~~~--~~~~~~~~~~~~s~~~~~~~~g~v~~v~~~~~~~~~~~vkv~~r~~R~p 928 (1186)
+||||++|++|++||+|+||++|..+.+. .........+|+|++++.+++|+||+|.++.+.++.+.|||++|+.|+|
T Consensus 878 ~dGi~~~G~~v~~gdilvgk~~p~~~~~~~~~~~~~~~~~~~~s~~~~~~~~g~V~~v~~~~~~~~~~~~kv~i~~~R~p 957 (1207)
T d1twfb_ 878 DDGLIAPGVRVSGEDVIIGKTTPISPDEEELGQRTAYHSKRDASTPLRSTENGIVDQVLVTTNQDGLKFVKVRVRTTKIP 957 (1207)
T ss_dssp TTSBCCTTCEECTTCEEECEECCCC-------------CCBBCCEECCTTCCEEEEEEEEEECSSSCEEEEEEEEEEECC
T ss_pred ccccccccccccCCceeeeeeeccCCchhhhhhccccccccceeEEccCCCCeEEEEEEEeecccccceeeEEEEEEecc
Confidence 99999999999999999999999875331 1122234578999999999999999999999999999999999999999
Q ss_pred CCcccccccCCCccEEEeeecCCCCCCCCCCCCCcEEeCCCCCCCCCchhhHHhhhhhHhhhhcCCccccCCCCCccHHH
Q 001021 929 QIGDKFSSRHGQKGTVGMTYTQEDMPWTVEGITPDIIVNPHAIPSRMTIGQLIECIMGKVAAHMGKEGDATPFTDVTVDN 1008 (1186)
Q Consensus 929 ~iGDKfssRhGqKGvvs~i~~~~dmPf~~~G~~pDiI~NPh~~PSRMtiGql~E~~~gk~~~~~g~~~d~tpF~~~~~~~ 1008 (1186)
+||||||||||||||||+|||+||||||+||++|||||||||||||||||||+|+++||||+++|.+.|+|||++..+++
T Consensus 958 ~iGDKfasRhGqKGv~s~i~p~eDMPf~~dG~~pDiI~NP~g~PSRMtiGql~E~~~gk~~~~~g~~~d~t~F~~~~~~~ 1037 (1207)
T d1twfb_ 958 QIGDKFASRHGQKGTIGITYRREDMPFTAEGIVPDLIINPHAIPSRMTVAHLIECLLSKVAALSGNEGDASPFTDITVEG 1037 (1207)
T ss_dssp CTTCEEECTTSCEEEEEEEECTTTSCEETTSCCCSEEECGGGSTTTTCHHHHHHHHHHHHHHHHCSCEECCSSSSCCHHH
T ss_pred chhhhhhhccCCcceeeeeechhhCCcCCCCCCccEEECCCcCcccCcHHHHHHHHHHHHHHhcCCccccCCCCCccHHH
Confidence 99999999999999999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred HHHHHHHcCCCCCCeEEEeeCCCCceEEeeEeEeeeehhccccccCCceEEeccCCccccccCCCCcccCCCcceeeehh
Q 001021 1009 ISKALHKCGYQMRGFETMYNGHTGRRLTAMIFLGPTYYQRLKHMVDDKIHSRGRGPVQILTRQPAEGRSRDGGLRFGEME 1088 (1186)
Q Consensus 1009 ~~~~l~~~g~~~~G~e~ly~g~tG~~~~~~if~G~~yy~rL~Hmv~DK~~~R~~Gp~~~lT~QP~~Gr~~~GG~R~GEME 1088 (1186)
+++.|+++||+++|+|.||||+||++|+++||+|++|||||+|||+||+|||++||+++|||||++||||+|||||||||
T Consensus 1038 ~~~~L~~~g~~~~G~e~ly~G~tG~~~~~~i~~G~~yy~rL~HmV~DK~~~Rs~Gp~~~lT~QP~~Gr~~~GG~R~GEME 1117 (1207)
T d1twfb_ 1038 ISKLLREHGYQSRGFEVMYNGHTGKKLMAQIFFGPTYYQRLRHMVDDKIHARARGPMQVLTRQPVEGRSRDGGLRFGEME 1117 (1207)
T ss_dssp HHHHHHTTTSCTTSEECEECTTTCCBCSSCEEEEEEEEEEBSSCGGGTCEEECCCC----------------CCCCCHHH
T ss_pred HHHHHHHcCCCCCCCEEEECCCCCCCccceEEEehhHhhhhhhhhccccEeeccCCCCccccCCCCccccCCCcceehHH
Confidence 99999999999999999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred hhHHHhhccHHHHHHhhhcCCCcceeeeccccCccee-eccccCceeeccCCCCCCceeecccHhhHHHHHHHHhCCCce
Q 001021 1089 RDCMIAHGASHFLKERLFDQSDAYRVHVCEHCGLIAI-ANLKKNSFECRGCKNKTDIVQVHIPYACKLLFQELMAMAIAP 1167 (1186)
Q Consensus 1089 rd~l~a~Gas~~L~erL~~~SD~~~~~vC~~cG~~~~-~~~~~~~~~C~~C~~~~~i~~v~iPy~~k~l~~EL~sm~i~~ 1167 (1186)
||||+|||||++|+|||+.+||++.++||..||+++. .+.+...++|+.|+++.+|.++.+|||||||+|||+||||.+
T Consensus 1118 ~dal~a~Gaa~~L~e~l~~~SD~~~~~vc~~cg~~~~~~~~~~~~~~c~~c~~~~~i~~~~iPy~fk~l~~EL~sm~i~~ 1197 (1207)
T d1twfb_ 1118 RDCMIAHGAASFLKERLMEASDAFRVHICGICGLMTVIAKLNHNQFECKGCDNKIDIYQIHIPYAAKLLFQELMAMNITP 1197 (1207)
T ss_dssp HHHHHHHTCHHHHHHHHCCSSCCCEEEEESSSCSSCCEEETTTTEEEBTTTTBSSSEEEEECCHHHHHHHHHHHHTTBCC
T ss_pred HHHHHHHhHHHHHHHHhhccCCccceeccccCCceEEEecccccceeecCCCCCCCccccCCCHHHHHHHHHHHHCCCce
Confidence 9999999999999999999999999999999999985 344566789999999999999999999999999999999999
Q ss_pred EEEeccCC
Q 001021 1168 RMLTKEDT 1175 (1186)
Q Consensus 1168 ~l~~~~~~ 1175 (1186)
||.+++..
T Consensus 1198 ~l~~~~~~ 1205 (1207)
T d1twfb_ 1198 RLYTDRSR 1205 (1207)
T ss_dssp EEESCSSC
T ss_pred EEEecCcc
Confidence 99997754
|
| >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 |
|---|