Citrus Sinensis ID: 000996
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 | 1195 | 2.2.26 [Sep-21-2011] | |||||||
| Q42877 | 1191 | DNA-directed RNA polymera | N/A | no | 0.994 | 0.998 | 0.956 | 0.0 | |
| P38420 | 1188 | DNA-directed RNA polymera | yes | no | 0.983 | 0.989 | 0.951 | 0.0 | |
| Q54J75 | 1170 | DNA-directed RNA polymera | yes | no | 0.969 | 0.990 | 0.688 | 0.0 | |
| P30876 | 1174 | DNA-directed RNA polymera | yes | no | 0.973 | 0.990 | 0.673 | 0.0 | |
| Q8CFI7 | 1174 | DNA-directed RNA polymera | yes | no | 0.973 | 0.990 | 0.673 | 0.0 | |
| P08266 | 1176 | DNA-directed RNA polymera | yes | no | 0.958 | 0.974 | 0.664 | 0.0 | |
| Q02061 | 1210 | DNA-directed RNA polymera | yes | no | 0.972 | 0.960 | 0.629 | 0.0 | |
| Q10578 | 1193 | DNA-directed RNA polymera | yes | no | 0.973 | 0.974 | 0.631 | 0.0 | |
| P08518 | 1224 | DNA-directed RNA polymera | yes | no | 0.969 | 0.946 | 0.616 | 0.0 | |
| A5DHT2 | 1236 | DNA-directed RNA polymera | N/A | no | 0.970 | 0.938 | 0.612 | 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 = 2363 bits (6125), Expect = 0.0, Method: Compositional matrix adjust.
Identities = 1142/1194 (95%), Positives = 1171/1194 (98%), Gaps = 5/1194 (0%)
Query: 2 MEDDYDYEEQHQQEEEDEEEEITQEDAWAVISAYFEEKGLVRQQLDSFDEFIQNTMQEIV 61
MED+Y + Q +D+EEEITQEDAWAVISAYFEEKGLVRQQLDSFDEFIQNTMQEIV
Sbjct: 3 MEDEY----EPQYNVDDDEEEITQEDAWAVISAYFEEKGLVRQQLDSFDEFIQNTMQEIV 58
Query: 62 DESADIEIRPESQHNPGQQSDFAETIYKISFGQIYLSKPMMTESDGETATLFPKAARLRN 121
DESADIEIRPESQHNPG QSDFAETIYKI+FGQIYLSKPMMTESDGETATLFPKAARLRN
Sbjct: 59 DESADIEIRPESQHNPGHQSDFAETIYKINFGQIYLSKPMMTESDGETATLFPKAARLRN 118
Query: 122 LTYSAPLYVDVTKRVIKKGHDGEEVTETQDFTKVFIGKVPIMLRSSYCTLYQNSEKDLTE 181
LTYSAPLYVDVTKRVIKKGHDGEEVTETQDFTKVFIGKVPIMLRSSYCTLYQNSEKDLTE
Sbjct: 119 LTYSAPLYVDVTKRVIKKGHDGEEVTETQDFTKVFIGKVPIMLRSSYCTLYQNSEKDLTE 178
Query: 182 LGECPYDQGGYFIINGSEKVLIAQEKMSTNHVYVFKKRQPNKYAYVAEVRSMAESQNRPP 241
LGECP DQGGYFIINGSEKVLIAQEKMSTNHVYVFKKRQPNKYA+VAEVRSMA++QNRPP
Sbjct: 179 LGECPLDQGGYFIINGSEKVLIAQEKMSTNHVYVFKKRQPNKYAFVAEVRSMADTQNRPP 238
Query: 242 STMFVRMLSRTSAKGGSSGQYIRATLPYIRTEIPIIIVFRALGFVADKDILEHICYDFQD 301
STMFVRMLSRTSAKGGSSGQYIRATLPYIRTEIPIIIVFRALGFVADKDILEHICYDF D
Sbjct: 239 STMFVRMLSRTSAKGGSSGQYIRATLPYIRTEIPIIIVFRALGFVADKDILEHICYDFND 298
Query: 302 TQMMELLRPSLEEAFVIQNQQVALDYIGKRGATVGVTRDKRIKYAKEILQKEMLPHVGTG 361
TQMMELLRPSLEEAFVIQNQQVALDYIGKRGATVGVTR+KRIKYAKEILQKEMLPHVG G
Sbjct: 299 TQMMELLRPSLEEAFVIQNQQVALDYIGKRGATVGVTREKRIKYAKEILQKEMLPHVGVG 358
Query: 362 DFCETKKAYYFGYIIHRLLLCALGRRAEDDRDHYGNKRLDLAGPLLGGLFRMLFRKLTRD 421
++CETKKAYYFGYIIHRLLLCALGRRAEDDRDHYGNKRLDLAGPLLGGLFRMLFRKLTRD
Sbjct: 359 EYCETKKAYYFGYIIHRLLLCALGRRAEDDRDHYGNKRLDLAGPLLGGLFRMLFRKLTRD 418
Query: 422 VRAYVQKCVDNGKDVNLQFAIKAKTITSGLKYSLATGNWGQANAAGTRAGVSQVLNRLTY 481
VR YVQKCVDNGKDVNLQFAIKAKTITSGLKYSLATGNWGQANAAGTRAGVSQVLNRLTY
Sbjct: 419 VRGYVQKCVDNGKDVNLQFAIKAKTITSGLKYSLATGNWGQANAAGTRAGVSQVLNRLTY 478
Query: 482 ASTLSHLRRLNSPIGREGKLAKPRQLHNSQWGMMCPAETPEGQACGLVKNLALMVYITVG 541
ASTLSHLRRLNSPIGREGKLAKPRQLHNSQWGMMCPAETPEGQACGLVKNLALMVYITVG
Sbjct: 479 ASTLSHLRRLNSPIGREGKLAKPRQLHNSQWGMMCPAETPEGQACGLVKNLALMVYITVG 538
Query: 542 SAAYPILEFLEEWGTENFEEISPAVIPQATKIFVNGCWVGIHRDPEMLVKTLRRLRRRVD 601
SAAYPILEFLEEWGTENFEEISPAVIPQATKIFVNG WVGIHRDP+MLV+TLRRLRRRVD
Sbjct: 539 SAAYPILEFLEEWGTENFEEISPAVIPQATKIFVNGTWVGIHRDPDMLVRTLRRLRRRVD 598
Query: 602 VNTEVGVVRDIRLKELRIYTDYGRCSRPLFIVEKQRLLIKKRDIIALQQRESPEDGGWHD 661
VNTEVGVVRDIRLKELRIYTDYGRCSRPLFIVEKQRL+IKK+DI LQQRESP++GGWHD
Sbjct: 599 VNTEVGVVRDIRLKELRIYTDYGRCSRPLFIVEKQRLMIKKKDIQTLQQRESPDEGGWHD 658
Query: 662 LVAKGFIEYIDTEEEETTMISMTINDLVQARLHPEEAYADTYTHCEIHPSLILGVCASII 721
LVAKG+IEYIDTEEEETTMISMTINDLVQARL+P +AY+DTYTHCEIHPSLILGVCASII
Sbjct: 659 LVAKGYIEYIDTEEEETTMISMTINDLVQARLNPGDAYSDTYTHCEIHPSLILGVCASII 718
Query: 722 PFPDHNQSPRNTYQSAMGKQAMGIYVTNYQFRMDTLAYVLYYPQKPLVTTRAMEHLHFRQ 781
PFPDHNQSPRNTYQSAMGKQAMGIYVTNYQFRMDTLAYVLYYPQKPLVTTRAMEHLHFRQ
Sbjct: 719 PFPDHNQSPRNTYQSAMGKQAMGIYVTNYQFRMDTLAYVLYYPQKPLVTTRAMEHLHFRQ 778
Query: 782 LPAGINAIVAIACYSGYNQEDSVIMNQSSIDRGFFRSLFFRSYRDEEKKMGTLVKEDFGR 841
LPAGINAIVAI+CYSGYNQEDSVIMNQSSIDRGFFRSLFFRSYRDEEKKMGTLVKEDFGR
Sbjct: 779 LPAGINAIVAISCYSGYNQEDSVIMNQSSIDRGFFRSLFFRSYRDEEKKMGTLVKEDFGR 838
Query: 842 PDRSNTMGMRHGSYDKLDDDGLAPPGTRVSGEDVIIGKTTPISQDEAQGQASRYTRRDHS 901
PDR++TMGMRHGSYDKLDDDGLAPPGTRVSGEDVIIGKTTPISQD+AQGQASRYTR+DHS
Sbjct: 839 PDRASTMGMRHGSYDKLDDDGLAPPGTRVSGEDVIIGKTTPISQDDAQGQASRYTRKDHS 898
Query: 902 ISLRHSETGMVDQVLLTTNADGLRFVKVRVRSVRIPQIGDKFSSRHGQKGTVGMTYTQED 961
SLRHSETGMVDQVLLTTNADGLRFVKVRVRSVRIPQIGDKFSSRHGQKGTVGMTYTQED
Sbjct: 899 TSLRHSETGMVDQVLLTTNADGLRFVKVRVRSVRIPQIGDKFSSRHGQKGTVGMTYTQED 958
Query: 962 MPWTVEGITPDIIVNPHAIPSRMTIGQLIECIMGKVAAHMGKEGDATPFTDVTVDNISKA 1021
MPWTVEGITPDIIVNPHAIPSRMTIGQLIECIMGKVAAHMGKEGDATPFTDVTVDNISKA
Sbjct: 959 MPWTVEGITPDIIVNPHAIPSRMTIGQLIECIMGKVAAHMGKEGDATPFTDVTVDNISKA 1018
Query: 1022 LHKCGYQMRGFETMYNGHTGRRLTAMIFLGPTYYQRLKHMVDDKIHSRGRGPVQILTRQP 1081
LHKCGYQMRGFETMYNGHTGRRL+AMIFLGPTYYQRLKHMVDDKIHSRGRGPVQILTRQP
Sbjct: 1019 LHKCGYQMRGFETMYNGHTGRRLSAMIFLGPTYYQRLKHMVDDKIHSRGRGPVQILTRQP 1078
Query: 1082 AEGRSRDGGLRFGEMERDCMIAHGASHFLKERLFDQSDAYRVHVCEHCGLIAIANLKKNS 1141
AEGRSRDGGLRFGEMERDCMIAHGA+HFLKERLFDQSDAYRVHVCE CGLIAIANLKKNS
Sbjct: 1079 AEGRSRDGGLRFGEMERDCMIAHGAAHFLKERLFDQSDAYRVHVCERCGLIAIANLKKNS 1138
Query: 1142 FECRGCKNKTDIVQVHIPYACKLLFQELMAMAIAPRMLTKEDTKQSKDHKKKGA 1195
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|P08518|RPB2_YEAST DNA-directed RNA polymerase II subunit RPB2 OS=Saccharomyces cerevisiae (strain ATCC 204508 / S288c) GN=RPB2 PE=1 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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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 | 1195 | ||||||
| 255556051 | 1194 | DNA-directed RNA polymerase II subunit, | 0.998 | 0.999 | 0.963 | 0.0 | |
| 449433841 | 1199 | PREDICTED: DNA-directed RNA polymerase I | 0.984 | 0.981 | 0.966 | 0.0 | |
| 356558375 | 1193 | PREDICTED: DNA-directed RNA polymerase I | 0.975 | 0.977 | 0.964 | 0.0 | |
| 356530409 | 1192 | PREDICTED: DNA-directed RNA polymerase I | 0.974 | 0.977 | 0.963 | 0.0 | |
| 225446351 | 1193 | PREDICTED: DNA-directed RNA polymerase I | 0.980 | 0.982 | 0.958 | 0.0 | |
| 350534526 | 1191 | DNA-directed RNA polymerase II subunit R | 0.994 | 0.998 | 0.956 | 0.0 | |
| 357438193 | 1213 | DNA-directed RNA polymerase [Medicago tr | 0.976 | 0.962 | 0.949 | 0.0 | |
| 70794966 | 1191 | RNA polymerase II second largest subunit | 0.984 | 0.987 | 0.965 | 0.0 | |
| 68300814 | 1200 | RNA polymerase II second largest subunit | 0.981 | 0.977 | 0.954 | 0.0 | |
| 68300812 | 1195 | RNA polymerase II second largest subunit | 0.980 | 0.980 | 0.962 | 0.0 |
| >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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Score = 2374 bits (6153), Expect = 0.0, Method: Compositional matrix adjust.
Identities = 1151/1195 (96%), Positives = 1180/1195 (98%), Gaps = 2/1195 (0%)
Query: 2 MEDDYDYEEQ-HQQEEEDEEEEITQEDAWAVISAYFEEKGLVRQQLDSFDEFIQNTMQEI 60
MEDD +Y++ ++ E+++E+EITQEDAWAVISAYFEEKGLVRQQLDSFDEFIQNTMQEI
Sbjct: 1 MEDDQEYDQNLNEDYEDEDEDEITQEDAWAVISAYFEEKGLVRQQLDSFDEFIQNTMQEI 60
Query: 61 VDESADIEIRPESQHNPGQQSDFAETIYKISFGQIYLSKPMMTESDGETATLFPKAARLR 120
VDESADIEIRPESQHNPG QSDFAETIYKISFGQIYLSKPMMTESDGETATLFPKAARLR
Sbjct: 61 VDESADIEIRPESQHNPGHQSDFAETIYKISFGQIYLSKPMMTESDGETATLFPKAARLR 120
Query: 121 NLTYSAPLYVDVTKRVIKKGHDGEEVTETQDFTKVFIGKVPIMLRSSYCTLYQNSEKDLT 180
NLTYSAPLYVDVTKRVIKKGHDGEEVTETQDFTKVFIGKVPIMLRSSYCTLYQNSEKDLT
Sbjct: 121 NLTYSAPLYVDVTKRVIKKGHDGEEVTETQDFTKVFIGKVPIMLRSSYCTLYQNSEKDLT 180
Query: 181 ELGECPYDQGGYFIINGSEKVLIAQEKMSTNHVYVFKKRQPNKYAYVAEVRSMAESQNRP 240
ELGECPYDQGGYFIINGSEKVLIAQEKMSTNHVYVFKKRQPNKYAYVAEVRSMAESQNRP
Sbjct: 181 ELGECPYDQGGYFIINGSEKVLIAQEKMSTNHVYVFKKRQPNKYAYVAEVRSMAESQNRP 240
Query: 241 PSTMFVRMLSRTSAKGGSSGQYIRATLPYIRTEIPIIIVFRALGFVADKDILEHICYDFQ 300
PSTMFVRMLSRTSAKGGSSGQYIRATLPYIRTEIPIIIVFRALGFVADKDILEHICYDF
Sbjct: 241 PSTMFVRMLSRTSAKGGSSGQYIRATLPYIRTEIPIIIVFRALGFVADKDILEHICYDFS 300
Query: 301 DTQMMELLRPSLEEAFVIQNQQVALDYIGKRGATVGVTRDKRIKYAKEILQKEMLPHVGT 360
DTQMMELLRPSLEEAFVIQNQQVALDYIGKRGATVGVT++KRIKYAKEILQKEMLPHVG
Sbjct: 301 DTQMMELLRPSLEEAFVIQNQQVALDYIGKRGATVGVTKEKRIKYAKEILQKEMLPHVGV 360
Query: 361 GDFCETKKAYYFGYIIHRLLLCALGRRAEDDRDHYGNKRLDLAGPLLGGLFRMLFRKLTR 420
G++CETKKAYYFGYIIHRLLLCALGRRAEDDRDHYGNKRLDLAGPLLGGLFRMLFRKLTR
Sbjct: 361 GEYCETKKAYYFGYIIHRLLLCALGRRAEDDRDHYGNKRLDLAGPLLGGLFRMLFRKLTR 420
Query: 421 DVRAYVQKCVDNGKDVNLQFAIKAKTITSGLKYSLATGNWGQANAAGTRAGVSQVLNRLT 480
DVR+YVQKCVDNGKDVNLQFAIKAKTITSGLKYSLATGNWGQANAAGTRAGVSQVLNRLT
Sbjct: 421 DVRSYVQKCVDNGKDVNLQFAIKAKTITSGLKYSLATGNWGQANAAGTRAGVSQVLNRLT 480
Query: 481 YASTLSHLRRLNSPIGREGKLAKPRQLHNSQWGMMCPAETPEGQACGLVKNLALMVYITV 540
YASTLSHLRRLNSPIGREGKLAKPRQLHNSQWGMMCPAETPEGQACGLVKNLALMVYITV
Sbjct: 481 YASTLSHLRRLNSPIGREGKLAKPRQLHNSQWGMMCPAETPEGQACGLVKNLALMVYITV 540
Query: 541 GSAAYPILEFLEEWGTENFEEISPAVIPQATKIFVNGCWVGIHRDPEMLVKTLRRLRRRV 600
GSAAYPILEFLEEWGTENFEEISPAVIPQATKIFVNGCWVGIHRDP+MLVKTLRRLRRRV
Sbjct: 541 GSAAYPILEFLEEWGTENFEEISPAVIPQATKIFVNGCWVGIHRDPDMLVKTLRRLRRRV 600
Query: 601 DVNTEVGVVRDIRLKELRIYTDYGRCSRPLFIVEKQRLLIKKRDIIALQQRESPEDGGWH 660
DVNTEVGVVRDIRLKELRIYTDYGRCSRPLFIVEKQRLLIKK+DI ALQQRES E+GGWH
Sbjct: 601 DVNTEVGVVRDIRLKELRIYTDYGRCSRPLFIVEKQRLLIKKKDIHALQQRESSEEGGWH 660
Query: 661 DLVAKGFIEYIDTEEEETTMISMTINDLVQARLHPEEAYADTYTHCEIHPSLILGVCASI 720
DLVAKGFIEYIDTEEEETTMISMTI+DLVQAR++PEEAY+DTYTHCEIHPSLILGVCASI
Sbjct: 661 DLVAKGFIEYIDTEEEETTMISMTIHDLVQARINPEEAYSDTYTHCEIHPSLILGVCASI 720
Query: 721 IPFPDHNQSPRNTYQSAMGKQAMGIYVTNYQFRMDTLAYVLYYPQKPLVTTRAMEHLHFR 780
IPFPDHNQSPRNTYQSAMGKQAMGIYVTNYQFRMDTLAYVLYYPQKPLVTTRAMEHLHFR
Sbjct: 721 IPFPDHNQSPRNTYQSAMGKQAMGIYVTNYQFRMDTLAYVLYYPQKPLVTTRAMEHLHFR 780
Query: 781 QLPAGINAIVAIACYSGYNQEDSVIMNQSSIDRGFFRSLFFRSYRDEEKKMGTLVKEDFG 840
QLPAGINAIVAIACYSGYNQEDSVIMNQSSIDRGFFRSLFFRSYRDEEKKMGTLVKEDFG
Sbjct: 781 QLPAGINAIVAIACYSGYNQEDSVIMNQSSIDRGFFRSLFFRSYRDEEKKMGTLVKEDFG 840
Query: 841 RPDRSNTMGMRHGSYDKLDDDGLAPPGTRVSGEDVIIGKTTPISQDEAQGQASRYTRRDH 900
RPDR+NTMGMRHGSYDKLDDDGLAPPGTRVSGEDVIIGKTTPI+Q+EAQGQ++RYTRRDH
Sbjct: 841 RPDRANTMGMRHGSYDKLDDDGLAPPGTRVSGEDVIIGKTTPIAQEEAQGQSARYTRRDH 900
Query: 901 SISLRHSETGMVDQVLLTTNADGLRFVKVRVRSVRIPQIGDKFSSRHGQKGTVGMTYTQE 960
SISLRHSETG+VDQVLLTTNADGLRFVKVRVRSVRIPQIGDKFSSRHGQKGTVGMTYTQE
Sbjct: 901 SISLRHSETGIVDQVLLTTNADGLRFVKVRVRSVRIPQIGDKFSSRHGQKGTVGMTYTQE 960
Query: 961 DMPWTVEGITPDIIVNPHAIPSRMTIGQLIECIMGKVAAHMGKEGDATPFTDVTVDNISK 1020
DMPWTVEGITPDIIVNPHAIPSRMTIGQLIECIMGKVAAHMGKEGDATPFTDVTVDNISK
Sbjct: 961 DMPWTVEGITPDIIVNPHAIPSRMTIGQLIECIMGKVAAHMGKEGDATPFTDVTVDNISK 1020
Query: 1021 ALHKCGYQMRGFETMYNGHTGRRLTAMIFLGPTYYQRLKHMVDDKIHSRGRGPVQILTRQ 1080
ALHKCGYQMRGFETMYNGHTGRRLTAMIFLGPTYYQRLKHMVDDKIHSRGRGPVQILTRQ
Sbjct: 1021 ALHKCGYQMRGFETMYNGHTGRRLTAMIFLGPTYYQRLKHMVDDKIHSRGRGPVQILTRQ 1080
Query: 1081 PAEGRSRDGGLRFGEMERDCMIAHGASHFLKERLFDQSDAYRVHVCEHCGLIAIANLKKN 1140
PAEGRSRDGGLRFGEMERDCMIAHGA+HFLKERLFDQSDAYRVHVCE CGLIAIANLKKN
Sbjct: 1081 PAEGRSRDGGLRFGEMERDCMIAHGAAHFLKERLFDQSDAYRVHVCERCGLIAIANLKKN 1140
Query: 1141 SFECRGCKNKTDIVQVHIPYACKLLFQELMAMAIAPRMLTKEDTKQSKDHKKKGA 1195
SFECRGCKNKTDIVQVHIPYACKLLFQELMAMAIAPRMLTK D K +KD KKKGA
Sbjct: 1141 SFECRGCKNKTDIVQVHIPYACKLLFQELMAMAIAPRMLTK-DVKPTKDQKKKGA 1194
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Source: Ricinus communis Species: Ricinus communis Genus: Ricinus Family: Euphorbiaceae Order: Malpighiales Class: Phylum: Streptophyta Superkingdom: Eukaryota |
| >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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| >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|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|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|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 | 1195 | ||||||
| TAIR|locus:2119013 | 1188 | NRPB2 [Arabidopsis thaliana (t | 0.970 | 0.976 | 0.932 | 0.0 | |
| DICTYBASE|DDB_G0288257 | 1170 | rpb2 "RNA polymerase II core s | 0.953 | 0.974 | 0.683 | 0.0 | |
| UNIPROTKB|A5PJW8 | 1174 | POLR2B "DNA-directed RNA polym | 0.953 | 0.971 | 0.666 | 0.0 | |
| UNIPROTKB|E2RNN5 | 1174 | POLR2B "DNA-directed RNA polym | 0.953 | 0.971 | 0.666 | 0.0 | |
| UNIPROTKB|I3LGP4 | 1167 | POLR2B "DNA-directed RNA polym | 0.953 | 0.976 | 0.666 | 0.0 | |
| UNIPROTKB|C9J2Y9 | 1167 | POLR2B "DNA-directed RNA polym | 0.953 | 0.976 | 0.666 | 0.0 | |
| UNIPROTKB|P30876 | 1174 | POLR2B "DNA-directed RNA polym | 0.953 | 0.971 | 0.666 | 0.0 | |
| RGD|1309477 | 1174 | Polr2b "polymerase (RNA) II (D | 0.953 | 0.971 | 0.666 | 0.0 | |
| MGI|MGI:2388280 | 1174 | Polr2b "polymerase (RNA) II (D | 0.953 | 0.971 | 0.665 | 0.0 | |
| UNIPROTKB|F1NCB0 | 1174 | POLR2B "DNA-directed RNA polym | 0.953 | 0.971 | 0.663 | 0.0 |
| TAIR|locus:2119013 NRPB2 [Arabidopsis thaliana (taxid:3702)] | Back alignment and assigned GO terms |
|---|
Score = 5676 (2003.1 bits), Expect = 0., P = 0.
Identities = 1083/1161 (93%), Positives = 1110/1161 (95%)
Query: 28 AWAVISAYFEEKGLVRQQLDSFDEFIQNTMQEIVDESADIEIRPESQHNPGQQSDFAETI 87
AWAVISAYFEEKGLVRQQLDSFDEFIQNTMQEIVDESADIEIRPESQHNPG QSDFAETI
Sbjct: 26 AWAVISAYFEEKGLVRQQLDSFDEFIQNTMQEIVDESADIEIRPESQHNPGHQSDFAETI 85
Query: 88 YKISFGQIYLSKPMMTESDGETATLFPKAARLRNLTYSAPLYVDVTKRVIKKGHDGEEVT 147
YKISFGQIYLSKPMMTESDGETATLFPKAARLRNLTYSAPLYVDVTKRVIKKGHDGEEVT
Sbjct: 86 YKISFGQIYLSKPMMTESDGETATLFPKAARLRNLTYSAPLYVDVTKRVIKKGHDGEEVT 145
Query: 148 ETQDFTKVFIGKVPIMLRSSYCTLYQNSEKDLTELGECPYDQGGYFIINGSEKVLIAQEK 207
ETQDFTKVFIGKVPIMLRSSYCTL+QNSEKDLTELGECPYDQGGYFIINGSEKVLIAQEK
Sbjct: 146 ETQDFTKVFIGKVPIMLRSSYCTLFQNSEKDLTELGECPYDQGGYFIINGSEKVLIAQEK 205
Query: 208 MSTNHVYVFKKRQPNKYAYVAEVRSMAESQNRPPSTMFVRMLSRTSAKGGSSGQYIRATL 267
MSTNHVYVFKKRQPNKYAYV EVRSMAE+QNRPPSTMFVRML+R SAKGGSSGQYIR TL
Sbjct: 206 MSTNHVYVFKKRQPNKYAYVGEVRSMAENQNRPPSTMFVRMLARASAKGGSSGQYIRCTL 265
Query: 268 PYIRTEIPIIIVFRALGFVADKDILEHICYDFQDTQMMELLRPSLEEAFVIQNQQVALDY 327
PYIRTEIPIIIVFRALGFVADKDILEHICYDF DTQMMELLRPSLEEAFVIQNQ VALDY
Sbjct: 266 PYIRTEIPIIIVFRALGFVADKDILEHICYDFADTQMMELLRPSLEEAFVIQNQLVALDY 325
Query: 328 IGKRGATVGVTRDKRIKYAKEILQKEMLPHVGTGDFCETKKAYYFGYIIHRLLLCALGRR 387
IGKRGATVGVT++KRIKYA++ILQKEMLPHVG G+ CETKKAYYFGYIIHRLLLCALGRR
Sbjct: 326 IGKRGATVGVTKEKRIKYARDILQKEMLPHVGIGEHCETKKAYYFGYIIHRLLLCALGRR 385
Query: 388 AEDDRDHYGNKRLDLAGPLLGGLFRMLFRKLTRDVRAYVQKCVDNGKDVNLQFAIKAKTI 447
EDDRDHYGNKRLDLAGPLLGGLFRMLFRKLTRDVR+YVQKCVDNGK+VNLQFAIKAKTI
Sbjct: 386 PEDDRDHYGNKRLDLAGPLLGGLFRMLFRKLTRDVRSYVQKCVDNGKEVNLQFAIKAKTI 445
Query: 448 TSGLKYSLATGNWGQANAAGTRAGVSQVLNRLTYASTLSHLRRLNSPIGREGKLAKPRQL 507
TSGLKYSLATGNWGQANAAGTRAGVSQVLNRLTYASTLSHLRRLNSPIGREGKLAKPRQL
Sbjct: 446 TSGLKYSLATGNWGQANAAGTRAGVSQVLNRLTYASTLSHLRRLNSPIGREGKLAKPRQL 505
Query: 508 HNSQWGMMCPAETPEGQACGLVKNLALMVYITVGSAAYPILEFLEEWGTENFEEISPAVI 567
HNSQWGMMCPAETPEGQACGLVKNLALMVYITVGSAAYPILEFLEEWGTENFEEISP+VI
Sbjct: 506 HNSQWGMMCPAETPEGQACGLVKNLALMVYITVGSAAYPILEFLEEWGTENFEEISPSVI 565
Query: 568 PQATKIFVNGCWVGIHRDPEMLVKTXXXXXXXVDVNTEVGVVRDIRLKELRIYTDYGRCS 627
PQATKIFVNG WVG+HRDP+MLVKT VDVNTEVGVVRDIRLKELRIYTDYGRCS
Sbjct: 566 PQATKIFVNGMWVGVHRDPDMLVKTLRRLRRRVDVNTEVGVVRDIRLKELRIYTDYGRCS 625
Query: 628 RPLFIVEKQRLLIKKRDIIALQQRESPEDGGWHDLVAKGFXXXXXXXXXXXXXXXXXXND 687
RPLFIV+ Q+LLIKKRDI ALQQRES E+ GWH LVAKGF +D
Sbjct: 626 RPLFIVDNQKLLIKKRDIYALQQRESAEEDGWHHLVAKGFIEYIDTEEEETTMISMTISD 685
Query: 688 LVQARLHPEEAYADTYTHCEIHPSLILGVCASIIPFPDHNQSPRNTYQSAMGKQAMGIYV 747
LVQARL PEEAY + YTHCEIHPSLILGVCASIIPFPDHNQSPRNTYQSAMGKQAMGIYV
Sbjct: 686 LVQARLRPEEAYTENYTHCEIHPSLILGVCASIIPFPDHNQSPRNTYQSAMGKQAMGIYV 745
Query: 748 TNYQFRMDTLAYVLYYPQKPLVTTRAMEHLHFRQLPAGINAIVAIACYSGYNQEDSVIMN 807
TNYQFRMDTLAYVLYYPQKPLVTTRAMEHLHFRQLPAGINAIVAI+CYSGYNQEDSVIMN
Sbjct: 746 TNYQFRMDTLAYVLYYPQKPLVTTRAMEHLHFRQLPAGINAIVAISCYSGYNQEDSVIMN 805
Query: 808 QSSIDRGFFRSLFFRSYRDEEKKMGTLVKEDFGRPDRSNTMGMRHGSYDKLDDDGLAPPG 867
QSSIDRGFFRSLFFRSYRDEEKKMGTLVKEDFGRPDR +TMGMRHGSYDKLDDDGLAPPG
Sbjct: 806 QSSIDRGFFRSLFFRSYRDEEKKMGTLVKEDFGRPDRGSTMGMRHGSYDKLDDDGLAPPG 865
Query: 868 TRVSGEDVIIGKTTPISQDEAQGQASRYTRRDHSISLRHSETGMVDQVLLTTNADGLRFV 927
TRVSGEDVIIGKTTPISQDEAQGQ+SRYTRRDHSISLRHSETGMVDQVLLTTNADGLRFV
Sbjct: 866 TRVSGEDVIIGKTTPISQDEAQGQSSRYTRRDHSISLRHSETGMVDQVLLTTNADGLRFV 925
Query: 928 KVRVRSVRIPQIGDKFSSRHGQKGTVGMTYTQEDMPWTVEGITPDIIVNPHAIPSRMTIG 987
KVRVRSVRIPQIGDKFSSRHGQKGTVGMTYTQEDMPWT+EG+TPDIIVNPHAIPSRMTIG
Sbjct: 926 KVRVRSVRIPQIGDKFSSRHGQKGTVGMTYTQEDMPWTIEGVTPDIIVNPHAIPSRMTIG 985
Query: 988 QLIECIMGKVAAHMGKEGDATPFTDVTVDNISKALHKCGYQMRGFETMYNGHTGRRLTAM 1047
QLIECIMGKVAAHMGKEGDATPFTDVTVDNISKALHKCGYQMRGFE MYNGHTGR LTAM
Sbjct: 986 QLIECIMGKVAAHMGKEGDATPFTDVTVDNISKALHKCGYQMRGFERMYNGHTGRPLTAM 1045
Query: 1048 IFLGPTYYQRLKHMVDDKIHSRGRGPVQILTRQPAEGRSRDGGLRFGEMERDCMIAHGAS 1107
IFLGPTYYQRLKHMVDDKIHSRGRGPVQILTRQPAEGRSRDGGLRFGEMERDCMIAHGA+
Sbjct: 1046 IFLGPTYYQRLKHMVDDKIHSRGRGPVQILTRQPAEGRSRDGGLRFGEMERDCMIAHGAA 1105
Query: 1108 HFLKERLFDQSDAYRVHVCEHCGLIAIANLKKNSFECRGCKNKTDIVQVHIPYACKLLFQ 1167
HFLKERLFDQSDAYRVHVCE CGLIAIANLKKNSFECRGCKNKTDIVQV+IPYACKLLFQ
Sbjct: 1106 HFLKERLFDQSDAYRVHVCEVCGLIAIANLKKNSFECRGCKNKTDIVQVYIPYACKLLFQ 1165
Query: 1168 ELMAMAIAPRMLTKEDTKQSK 1188
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 | 0.9564 | 0.9949 | 0.9983 | N/A | no |
| Q8SR75 | RPB2_ENCCU | 2, ., 7, ., 7, ., 6 | 0.5900 | 0.9514 | 0.9964 | yes | no |
| Q8CFI7 | RPB2_MOUSE | 2, ., 7, ., 7, ., 6 | 0.6731 | 0.9732 | 0.9906 | yes | no |
| P08518 | RPB2_YEAST | 2, ., 7, ., 7, ., 6 | 0.6160 | 0.9690 | 0.9460 | yes | no |
| Q10578 | RPB2_CAEEL | 2, ., 7, ., 7, ., 6 | 0.6316 | 0.9732 | 0.9748 | yes | no |
| P08266 | RPB2_DROME | 2, ., 7, ., 7, ., 6 | 0.6643 | 0.9589 | 0.9744 | yes | no |
| P30876 | RPB2_HUMAN | 2, ., 7, ., 7, ., 6 | 0.6739 | 0.9732 | 0.9906 | yes | no |
| A5DHT2 | RPB2_PICGU | 2, ., 7, ., 7, ., 6 | 0.6121 | 0.9707 | 0.9385 | N/A | no |
| P38420 | RPB2_ARATH | 2, ., 7, ., 7, ., 6 | 0.9514 | 0.9832 | 0.9890 | yes | no |
| Q02061 | RPB2_SCHPO | 2, ., 7, ., 7, ., 6 | 0.6294 | 0.9723 | 0.9603 | yes | no |
| Q54J75 | RPB2_DICDI | 2, ., 7, ., 7, ., 6 | 0.6882 | 0.9698 | 0.9905 | yes | no |
| Q6FLD5 | RPB2_CANGA | 2, ., 7, ., 7, ., 6 | 0.6091 | 0.9824 | 0.9599 | yes | no |
| Q03587 | RPOB_THEAC | 2, ., 7, ., 7, ., 6 | 0.3727 | 0.9221 | 0.9221 | yes | no |
| Q753Q4 | RPB2_ASHGO | 2, ., 7, ., 7, ., 6 | 0.6081 | 0.9640 | 0.9427 | yes | no |
| P11513 | RPOB_SULAC | 2, ., 7, ., 7, ., 6 | 0.4249 | 0.9179 | 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 | 1195 | |||
| 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-160 | |
| cd00653 | 866 | cd00653, RNA_pol_B_RPB2, RNA polymerase beta subun | 1e-141 | |
| PRK09606 | 494 | PRK09606, PRK09606, DNA-directed RNA polymerase su | 1e-140 | |
| pfam04561 | 185 | pfam04561, RNA_pol_Rpb2_2, RNA polymerase Rpb2, do | 9e-58 | |
| TIGR02013 | 1065 | TIGR02013, rpoB, DNA-directed RNA polymerase, beta | 5e-53 | |
| CHL00207 | 1077 | CHL00207, rpoB, RNA polymerase beta subunit; Provi | 2e-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 | 2e-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 | |
| PRK00405 | 1112 | PRK00405, rpoB, DNA-directed RNA polymerase subuni | 7e-10 | |
| PRK09603 | 2890 | PRK09603, PRK09603, bifunctional DNA-directed RNA | 7e-10 | |
| PRK14844 | 2836 | PRK14844, PRK14844, bifunctional DNA-directed RNA | 1e-09 | |
| CHL00001 | 1070 | CHL00001, rpoB, RNA polymerase beta subunit | 1e-06 | |
| PRK00405 | 1112 | PRK00405, rpoB, DNA-directed RNA polymerase subuni | 1e-05 | |
| TIGR02013 | 1065 | TIGR02013, rpoB, DNA-directed RNA polymerase, beta | 2e-05 | |
| CHL00001 | 1070 | CHL00001, rpoB, RNA polymerase beta subunit | 5e-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 = 1275 bits (3302), Expect = 0.0
Identities = 527/1160 (45%), Positives = 719/1160 (61%), Gaps = 66/1160 (5%)
Query: 29 WAVISAYFEEKGLVRQQLDSFDEFIQNTMQEIVDESADIEIRPESQHNPGQQSDFAETIY 88
W V+ AYF+EKGLVRQ LDS+++FI+ +QEIVDE +I+ PG
Sbjct: 2 WTVVEAYFKEKGLVRQHLDSYNDFIERGLQEIVDEFGEIKT-----EIPG---------L 47
Query: 89 KISFGQIYLSKPMMTESDGETATLFPKAARLRNLTYSAPLYVDVTKRVIKKGHDGEEVTE 148
KI G+I + +P + E+DG + P ARLRNLTY+APLY+ + +G E
Sbjct: 48 KIVLGKIRVGEPEIKEADGSERPITPMEARLRNLTYAAPLYLTMIPVE-----NGIEYEP 102
Query: 149 TQDFTKVFIGKVPIMLRSSYCTLYQNSEKDLTELGECPYDQGGYFIINGSEKVLIAQEKM 208
+ V IG +PIM++S C L S +L E+GE P D GGYFIINGSE+V+++QE +
Sbjct: 103 EE----VKIGDLPIMVKSKICPLSGLSPDELIEIGEDPKDPGGYFIINGSERVIVSQEDL 158
Query: 209 STNHVYVFKKRQPNKYAYVAEVRSMAESQNRPPSTMFVRMLSRTSAKGGSSGQYIRATLP 268
+ N V V K + + A+V S R K G+ I + P
Sbjct: 159 APNRVLVDKGEAGSSITHTAKVISSRAGYRAQ--VTVERR------KDGT----IYVSFP 206
Query: 269 YIRTEIPIIIVFRALGFVADKDILEHICYDFQDTQMMELLRPSLEEAFVIQN-QQVALDY 327
+ +IP +I+ RALG D+DI+ + D ++ + L PSLE+A I + ALDY
Sbjct: 207 AVPGKIPFVILMRALGLETDRDIVYAV---SLDPEIQQELLPSLEQASSIAATVEDALDY 263
Query: 328 IGKRGATVGVTRDKRIKYAKEILQKEMLPHVGTGDFCETKKAYYFGYIIHRLLLCALGRR 387
IGKR A +G R+ RI+ A++IL K +LPH+GT KKAY+ G + +LL LGRR
Sbjct: 264 IGKRVA-IGQPREYRIERAEQILDKYLLPHLGTSPEDRIKKAYFLGQMASKLLELYLGRR 322
Query: 388 AEDDRDHYGNKRLDLAGPLLGGLFRMLFRKLTRDVRAYVQKCVDNGKDVNLQFAIKAKTI 447
DD+DHY NKRL LAG LL LFR+ F++L +D++ ++K G+ ++L+ ++ I
Sbjct: 323 EPDDKDHYANKRLRLAGDLLAELFRVAFKQLVKDLKYQLEKSYARGRKLDLRAIVRPDII 382
Query: 448 TSGLKYSLATGNWGQANAAGTRAGVSQVLNRLTYASTLSHLRRLNSPIGREGKLAKPRQL 507
T ++++LATGNW G R GVSQ+L+R Y STLSHLRR+ SP+ R + R L
Sbjct: 383 TERIRHALATGNWV-----GGRTGVSQLLDRTNYLSTLSHLRRVVSPLSRGQPHFEARDL 437
Query: 508 HNSQWGMMCPAETPEGQACGLVKNLALMVYITVGSAAYPILEFLEEWGTENFEEISPAVI 567
H +QWG +CP ETPEG CGLVKNLALM I+VG + E L E G EE
Sbjct: 438 HGTQWGRICPFETPEGPNCGLVKNLALMAQISVGVDEEEVEEILYELGVVPVEEAREEEY 497
Query: 568 PQATKIFVNGCWVGIHRDPEMLVKTLRRLRRRVDVNTEVGV--VRDIRLKELRIYTDYGR 625
+++++NG +G H D E L + +R LRR ++ EV V + + E+ + D GR
Sbjct: 498 ISWSRVYLNGRLIGYHPDGEELAEKIRELRRSGKISDEVNVAYIETGEINEVYVNCDSGR 557
Query: 626 CSRPLFIVEKQRLLIKKRDIIALQQRESPEDGGWHDLVAKGFIEYIDTEEEETTMISMTI 685
RPL +VE + + + + L++ E + DLV G IEY+D EEEE +++
Sbjct: 558 VRRPLIVVENGKPKLTREHVEKLKKGELT----FDDLVKMGVIEYLDAEEEENAYVALDP 613
Query: 686 NDLVQARLHPEEAYADTYTHCEIHPSLILGVCASIIPFPDHNQSPRNTYQSAMGKQAMGI 745
DL PE +TH EI P ILG+ ASIIP+P+HNQSPRNTYQ+AM KQ++G+
Sbjct: 614 EDLT-----PE------HTHLEIWPPAILGITASIIPYPEHNQSPRNTYQAAMAKQSLGL 662
Query: 746 YVTNYQFRMDTLAYVLYYPQKPLVTTRAMEHLHFRQLPAGINAIVAIACYSGYNQEDSVI 805
Y N++ R DT ++L+YPQ+PLV TRA+E + + PAG NA+VA+ Y+GYN ED++I
Sbjct: 663 YAANFRIRTDTRGHLLHYPQRPLVQTRALEIIGYNDRPAGQNAVVAVLSYTGYNIEDAII 722
Query: 806 MNQSSIDRGFFRSLFFRSYRDEEKKMGTLVKEDFGRPDRSNTMGMR-HGSYDKLDDDGLA 864
MN++SI+RG RS FFR+Y EE+K ++ P+ N G R Y KLD+DG+
Sbjct: 723 MNKASIERGLARSTFFRTYETEERKYPGGQEDKIEIPE-PNVRGYRGEEYYRKLDEDGIV 781
Query: 865 PPGTRVSGEDVIIGKTTPISQDEAQGQASRYT--RRDHSISLRHSETGMVDQVLLTTNAD 922
P V G DV+IGKT+P E + S RRD S+++RH E G+VD VL+T + +
Sbjct: 782 SPEVEVKGGDVLIGKTSPPRFLEELEELSLGLQERRDTSVTVRHGEKGIVDTVLITESPE 841
Query: 923 GLRFVKVRVRSVRIPQIGDKFSSRHGQKGTVGMTYTQEDMPWTVEGITPDIIVNPHAIPS 982
G + VKVRVR +RIP++GDKF+SRHGQKG +GM QEDMP+T +GI PD+I+NPHAIPS
Sbjct: 842 GNKLVKVRVRDLRIPELGDKFASRHGQKGVIGMLVPQEDMPFTEDGIVPDLIINPHAIPS 901
Query: 983 RMTIGQLIECIMGKVAAHMGKEGDATPFTDVTVDNISKALHKCGYQMRGFETMYNGHTGR 1042
RMT+GQL+E I GKVAA G+ DATPF + + K L K GY+ G E MY+G TG
Sbjct: 902 RMTVGQLLESIAGKVAALEGRFVDATPFYGEPEEELRKELLKLGYKPDGTEVMYDGRTGE 961
Query: 1043 RLTAMIFLGPTYYQRLKHMVDDKIHSRGRGPVQILTRQPAEGRSRDGGLRFGEMERDCMI 1102
++ A IF+G YYQ+L HMV DKIH+R RGPVQILTRQP EGR+R+GGLRFGEMERDC+I
Sbjct: 962 KIKAPIFIGVVYYQKLHHMVADKIHARARGPVQILTRQPTEGRAREGGLRFGEMERDCLI 1021
Query: 1103 AHGASHFLKERLFDQSDAYRVHVCEHCGLIAIANLKKNSFECRGCKNKTDIVQVHIPYAC 1162
HGA+ LKERL D SD ++VCE CG IA + +KN + C +K +I V + YA
Sbjct: 1022 GHGAAMLLKERLLDSSDKTTIYVCELCGHIAWYDRRKNKYVCPIHGDKGNISPVEVSYAF 1081
Query: 1163 KLLFQELMAMAIAPRMLTKE 1182
KLL QELM+M I+PR+ +
Sbjct: 1082 KLLLQELMSMGISPRLKLGD 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|234749 PRK00405, rpoB, DNA-directed RNA polymerase subunit beta; Reviewed | 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|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|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|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 | 1195 | |||
| 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 | |
| PRK09606 | 494 | DNA-directed RNA polymerase subunit B''; Validated | 100.0 | |
| PF00562 | 386 | RNA_pol_Rpb2_6: RNA polymerase Rpb2, domain 6; Int | 100.0 | |
| PF04563 | 203 | RNA_pol_Rpb2_1: RNA polymerase beta subunit; Inter | 100.0 | |
| 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 | 99.74 | |
| KOG0214 | 1141 | consensus RNA polymerase II, second largest subuni | 99.19 | |
| PF04567 | 48 | RNA_pol_Rpb2_5: RNA polymerase Rpb2, domain 5; Int | 98.98 | |
| KOG0215 | 1153 | consensus RNA polymerase III, second largest subun | 98.94 | |
| COG0085 | 1060 | RpoB DNA-directed RNA polymerase, beta subunit/140 | 97.82 | |
| PF06883 | 58 | RNA_pol_Rpa2_4: RNA polymerase I, Rpa2 specific do | 97.52 | |
| PHA03394 | 865 | lef-8 DNA-directed RNA polymerase subunit beta-lik | 94.59 |
| >KOG0214 consensus RNA polymerase II, second largest subunit [Transcription] | Back alignment and domain information |
|---|
Probab=100.00 E-value=2.1e-283 Score=2436.42 Aligned_cols=1136 Identities=72% Similarity=1.139 Sum_probs=1076.4
Q ss_pred hhhhhhhhhcccCccchHHHHHHHHHHHHHhhHHHHHcccCCeeeCCCCCCCCCCCCCCCCceEEEEEeEEEEccCcccc
Q 000996 25 QEDAWAVISAYFEEKGLVRQQLDSFDEFIQNTMQEIVDESADIEIRPESQHNPGQQSDFAETIYKISFGQIYLSKPMMTE 104 (1195)
Q Consensus 25 ~~~~~~~i~~~f~~~~Lv~~qi~SFn~Fi~~gL~~ii~~~~pI~~~~~~~~~~~~~~~~~~~~~~l~f~~v~v~~P~~~e 104 (1195)
.+++|.+|++||+.+||+++|++|||.|++.++++|+.+.++|+.....++.- ....++.|.|+.+++.+|+.+|
T Consensus 2 qe~~w~vis~~f~ekglvrqQldsFdeFiq~~~qeiv~~~p~i~l~~~~qh~~-----~~~~r~~l~f~qiylskP~~~e 76 (1141)
T KOG0214|consen 2 QEDCWDVISAYFEEKGLVRQQLDSFDEFIQQTLQEIVADSPKIELQDEAQHTQ-----ENPARYQLFFEQIYLSKPTHTE 76 (1141)
T ss_pred hhHHHHHHHhhhcccchHHHHHHHHHHHHHHHHHHHHhcCCCceehhhhhhhc-----cCccceEEEeeeEEEecccccc
Confidence 57899999999999999999999999999999999999999998765443331 1234599999999999999999
Q ss_pred CCCcccCCChHHHHhcCCccceeEEEEEEEEEeccCCCCcccccceeeEEEEecccceeeccCCccCCCCChhhhhhcCC
Q 000996 105 SDGETATLFPKAARLRNLTYSAPLYVDVTKRVIKKGHDGEEVTETQDFTKVFIGKVPIMLRSSYCTLYQNSEKDLTELGE 184 (1195)
Q Consensus 105 ~~~~~~~l~P~EcR~r~lTYsa~l~v~v~~~~~~~~~~~~~~~~~~~~~~v~lG~IPIMvkS~~C~L~~~s~~eli~~gE 184 (1195)
.||....++|+|||+|++||||||||+++..+..... ++...+.+.|+||+||||+||..|.|+++++.+|.+.||
T Consensus 77 ~dg~~~~m~p~eARlrnLTYSspLyVd~~k~~~~~~~----~~~~~~~qkvfIGkIPiMlrS~~C~l~~~~d~dl~~l~e 152 (1141)
T KOG0214|consen 77 SDGSTSTMFPNEARLRNLTYSSPLYVDATKIVKTSRD----EVEDMQEQKVFIGKIPIMLRSSYCLLSGLTDKDLTELGE 152 (1141)
T ss_pred cCCCccccCchhhHhhhcccccceEEEeEEEEeeccc----cccccccceeeEeccceeeehhhhhhcccchhhhhhccC
Confidence 9999999999999999999999999999998764431 123445788999999999999999999999999999999
Q ss_pred CCCCCCceEEEcCeeeEEeeeeeeecceEEEEEecCCCcceEEEEEEEeecCCCCCCceEEEEEEecCCCCCCCCCcEEE
Q 000996 185 CPYDQGGYFIINGSEKVLIAQEKMSTNHVYVFKKRQPNKYAYVAEVRSMAESQNRPPSTMFVRMLSRTSAKGGSSGQYIR 264 (1195)
Q Consensus 185 ~~~D~GGYFIING~ERVII~Qe~~s~N~~~~~~~~~~~~~~~~~~irs~~~~g~~~~~~~~v~~~~~~~~k~~~~~~~i~ 264 (1195)
||+|+||||||||+|||+|+||++|+|.+|+|++..++.+.|.++|||..+++++..+++.+++..++. ....|.
T Consensus 153 Cp~DqgGyfIINGseKVlIAQe~matn~vyvf~k~~p~~~ay~~EirS~le~~sR~~stl~v~~~ar~~-----~gq~i~ 227 (1141)
T KOG0214|consen 153 CPYDQGGYFIINGSEKVLIAQEKMATNIVYVFKKAHPGTYAYTGEIRSCLERSSRFISTLSVNMDARAG-----KGQEII 227 (1141)
T ss_pred CCcCCCceEEEcCceeeeeehhhccCceEEEEecCCCCceeEeeeeehhhhccCCCcceeeeeeccccC-----CCceEE
Confidence 999999999999999999999999999999999988889999999999999999988999999876541 245789
Q ss_pred EEeccccccchHHHHHHHhcCCChHHHHHHhcccccchHHHHHhHhhHhhhhccCCHHHHHHHHhhcCcccCCCchhhHH
Q 000996 265 ATLPYIRTEIPIIIVFRALGFVADKDILEHICYDFQDTQMMELLRPSLEEAFVIQNQQVALDYIGKRGATVGVTRDKRIK 344 (1195)
Q Consensus 265 v~i~~~~~~IPl~ilLrALG~~sD~eI~~~i~~~~~~~~~~~~l~~sl~e~~~i~t~~~al~yig~r~~~~~~~~~~~~e 344 (1195)
+.+++++++||+++||||||+.+|+||++.||||.+|.++++++.+++++++.+..+..||+|||+|....+.+++.+++
T Consensus 228 ~tlpyikqeIPI~ilfrALG~v~dreILehIcYd~~D~em~e~lkpsieeafviq~qn~ALdfig~rga~~Gvtkekri~ 307 (1141)
T KOG0214|consen 228 ATLPYIKQEIPILILFRALGFVSDREILEHICYDFDDAEMFESLKPSIEEAFVIQEQNVALDFIGQRGACIGVTKEKRIK 307 (1141)
T ss_pred EEeeeecccCcEEEEehhhcCCccHHHHHhhcCCCCcHHHHHHhhhhhhhhhhhhhhHHHHHHHHhcCCCCCCCcchhhH
Confidence 99999999999999999999999999999999999999999999999999999999999999999997667778899999
Q ss_pred HHHHHHHhcccCCCCCCCCcchhHHHHHHHHHHHHHHhhcCCCCCCCCCccccceecccchhHHHHHHHHHHHHHHHHHH
Q 000996 345 YAKEILQKEMLPHVGTGDFCETKKAYYFGYIIHRLLLCALGRRAEDDRDHYGNKRLDLAGPLLGGLFRMLFRKLTRDVRA 424 (1195)
Q Consensus 345 ~~~~~L~~~llpHl~~~~~~~~~K~~~L~~Mi~kLl~~~~g~~~~DD~D~l~NKRv~l~G~Ll~~lfr~~l~~~~k~ik~ 424 (1195)
+|+++|.+++|||++..+...+.|++||+|||++|+.++.|++.+||+||++|||++++|+||..+||..|+++.+++..
T Consensus 308 yakdiLqKe~lPhi~~~e~~etkKA~fLGYmi~rlll~aLgRr~~ddRDHfG~KRLDlaGpLLa~lfR~lf~~l~rd~~~ 387 (1141)
T KOG0214|consen 308 YAKEILQKELLPHVGLGEICETKKAYFLGYMVHRLLLAALGRRELDDRDHFGNKRLDLAGPLLAKLFRSLFAKLLRDVTR 387 (1141)
T ss_pred HHHHHHHHHhccccccchhhhhhHHHHHHhhHHHHHHHHcCCCCccchhhccccchhhchhHHHHHHHHHHHHHHHHHHH
Confidence 99999999999999999888889999999999999999999999999999999999999999999999999999999999
Q ss_pred HhhhhhccCCCCchhhcccccccccccccccccccccccc-cccccccceeeccccChhhhhccccccCCCCCcCCCccc
Q 000996 425 YVQKCVDNGKDVNLQFAIKAKTITSGLKYSLATGNWGQAN-AAGTRAGVSQVLNRLTYASTLSHLRRLNSPIGREGKLAK 503 (1195)
Q Consensus 425 ~l~k~~~~~~~~~~~~~i~~~~It~~i~~~~sTGnw~~~~-~~~~~sG~sq~l~r~N~ls~lSh~Rrv~~~~~~~~k~t~ 503 (1195)
.++|.+++..++++.-+++++.||++++|+||||||+.++ .++.++||||+|+|+||+++|||+||+++|+++++|.+.
T Consensus 388 ~mQk~le~~~dfni~~aika~iIt~gl~yslaTgnwgdq~ka~~~ragVsQVLnR~t~~sTLsHlRR~n~Pigr~GKlAk 467 (1141)
T KOG0214|consen 388 YMQKCLENGVDFNIELAIKAKIITNGLNYALATGNWGDQKKAMQGRAGVSQVLNRLNPLSTLSHLRRTNSPIGRTGKLAK 467 (1141)
T ss_pred HHHHHHhcCccceEEEEEEeeeecccceeeeccCCccchhHHhhccccHHHHhccccHHHHHHHHhhcCCccccccccCC
Confidence 9999999999999999999999999999999999999555 777899999999999999999999999999999999999
Q ss_pred cccccCCCcccccccCCCCCcccchhhcccccEEEccCCCchhHHHHHHHhCCccccccCCCCCCCceEEEECCEEEEEE
Q 000996 504 PRQLHNSQWGMMCPAETPEGQACGLVKNLALMVYITVGSAAYPILEFLEEWGTENFEEISPAVIPQATKIFVNGCWVGIH 583 (1195)
Q Consensus 504 vR~Lhps~wG~iCPveTPEG~~cGLvk~LA~~a~It~~~~~~~i~~~l~~~g~~~~~~~~~~~~~~~~~V~lnG~~iG~~ 583 (1195)
||+|||||||++||+|||||++||||||||+||.|++|+.+.|++++|+++||+.++++++..+...++|||||.|+|+|
T Consensus 468 pRqlHnthwGmvCPaeTPEGqacGLVKNLSLmayIsvGS~~sPi~EfLeewgmE~le~~~ps~~~datkvfvNG~wvGlh 547 (1141)
T KOG0214|consen 468 PRQLHNSHWGMVCPAETPEGQACGLVKNLSLMAYISVGSLESPIVEFLEEWGMENLEEISPSPSPDATKVFVNGVWVGLH 547 (1141)
T ss_pred ccccCcccceeeccccCCCcceeeccccceEEEEEecCCCccHHHHHHHHhchhhHhhcCCCcCCCceEEEEcccEEEec
Confidence 99999999999999999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred cChHHHHHHHHhhhccCCCCcceEEEEeccCCeEEEEeCCCceeeeEEEEecccchhhHHHHHHhhcCCCCCCCCccccc
Q 000996 584 RDPEMLVKTLRRLRRRVDVNTEVGVVRDIRLKELRIYTDYGRCSRPLFIVEKQRLLIKKRDIIALQQRESPEDGGWHDLV 663 (1195)
Q Consensus 584 ~~~~~~~~~lr~~rr~~~i~~~~~i~~~~~~~~i~I~td~GRl~RPl~~v~~~~~~~~~~~~~~l~~~~~~~~~~~~~l~ 663 (1195)
.+|+.++.+||.+||+..++.++++++|...++++||||+||+|||||+|+|+++.++|+|+..|+..+. ++-+|..|+
T Consensus 548 rdp~~l~~tlr~lRR~~di~~Evs~vRDIr~kE~ri~tDaGR~~rPLliven~~l~~~k~hi~~L~~~~~-~~~~w~~lv 626 (1141)
T KOG0214|consen 548 RDPEELVATLKRLRRQFDIIAEVSMVRDIRDKEIRIFTDAGRSLRPLLIVENAKLLIKKRHIRALKQSKP-NEYRWAHLL 626 (1141)
T ss_pred CCHHHHHHHHHHHHHhhccchhhhhhccccccceeeeeccCccccceEEEechhhhhhhHHHHHHhhCch-hhcchhhhc
Confidence 9999999999999999999999999999999999999999999999999999999999999999987621 112899999
Q ss_pred cCCeEEEecccccccceeecccchhhcccCCCCccCCCceeeeecCCCccccccccccCCCCCCCCCccccccccccCcc
Q 000996 664 AKGFIEYIDTEEEETTMISMTINDLVQARLHPEEAYADTYTHCEIHPSLILGVCASIIPFPDHNQSPRNTYQSAMGKQAM 743 (1195)
Q Consensus 664 ~~g~iE~i~~~Ee~~~~Ia~~~~~~~~~~~~~~~~~~~~~th~EI~P~~ilsv~AslIPF~~hNqSpRn~yqc~M~KQa~ 743 (1195)
..|++||||++||+.++|||.+.++.+. .+...||||||||++||||+||+||||||||||||+||++|+||||
T Consensus 627 ~~G~ie~idteeEEtvmiam~~~dL~~~------~~~~~~THCEiHpsmILgv~asiIpFpdh~qspr~tYQsa~~kqam 700 (1141)
T KOG0214|consen 627 SSGEVEYIDTEEEETVMIAMGPKDLAES------AYPKTYTHCEIHPSMILGVCASIIPFPDHNQSPRNTYQSAMGKQAM 700 (1141)
T ss_pred cccceeeeccchhhhHHHhcCHHHHhhc------cCCcccccccccHHHhhhhceeeeecCCCCCchHHHHHHHHhhhcc
Confidence 9999999999999999999999999762 2356899999999999999999999999999999999999999999
Q ss_pred cccceeeEEEeeccceeeecCCCceeecccccccccccCCCCceEEEEEEecCCccCCCcEEEecceeecCceeEEEEEE
Q 000996 744 GIYVTNYQFRMDTLAYVLYYPQKPLVTTRAMEHLHFRQLPAGINAIVAIACYSGYNQEDSVIMNQSSIDRGFFRSLFFRS 823 (1195)
Q Consensus 744 g~~~~n~~~r~D~~~~~l~ypQ~Plv~t~~~~~~~~~~~~~G~N~~VAv~s~~Gyn~EDaiiink~s~~rG~f~s~~~~~ 823 (1195)
|++.+|++.|+||..|+|+|||+|+|+|++++++.+.++|+|+|++||++||+|||||||||+|+++++||+|||++||+
T Consensus 701 g~y~tn~~vR~dtl~~~l~ypqkpl~tt~~~e~l~~~eL~aG~NaiVAi~~~~GYNqEDsvimn~s~v~rg~FrS~~~Rs 780 (1141)
T KOG0214|consen 701 GVYHTNPQVRMDTLAKVLYYPQKPLVTTRAMEYLRFRELPAGQNAIVAIACYSGYNQEDSVIMNQSSVDRGLFRSFFIRS 780 (1141)
T ss_pred eeeeecchhhhhhhhhcccccccchhhHHHHhhhhhhhcccccceEEEEecccCccHHHHHHHHhhhhhcchhhhhhhhH
Confidence 99999999999999999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred EEechhccCCcccccccCCCCCCCCCCCCCCcCCCCCCCCcCCCcEECCCCEEEEEeCCCCc--cccccccCCCccceee
Q 000996 824 YRDEEKKMGTLVKEDFGRPDRSNTMGMRHGSYDKLDDDGLAPPGTRVSGEDVIIGKTTPISQ--DEAQGQASRYTRRDHS 901 (1195)
Q Consensus 824 ~~~~~~~~~~~~~e~~~~p~~~~~~~~~~~~~~~Ld~dGi~~~G~~v~~gdvli~k~~~~~~--~~~~~~~~~~~~~~~s 901 (1195)
|+.++.+...+..+.|+.|....+.++|++.|++||+||++.||++|..|||+|||.+|... ++.+...+....+|+|
T Consensus 781 Yk~q~~~~~~~~ee~~~~~~~~~~~~mr~~~~dkLdddG~i~~G~~vs~~Dv~iGk~t~~~~~~~~~~~~~~~~t~~d~s 860 (1141)
T KOG0214|consen 781 YKDQEHKKDQGPEEIFEEPPRGEGRGMRNGKYDKLDDDGIIMPGSRVSGGDVLIGKTTPQPAKEDESGPEDRLYTKRDHS 860 (1141)
T ss_pred HHhhhhhcccccccccccccccccccccccccccccccCCccccceeecCCEEeccccCCcccchhccccccccccccce
Confidence 99998877677778889999888899999999999999999999999999999999998653 3344444555689999
Q ss_pred EEeecCCCcEEEEEEEEecCCCcEEEEEEEeeecCCCCcccccccCCCceeEEeeecCCCCCCCCCCCCCcEEeCCCCCC
Q 000996 902 ISLRHSETGMVDQVLLTTNADGLRFVKVRVRSVRIPQIGDKFSSRHGQKGTVGMTYTQEDMPWTVEGITPDIIVNPHAIP 981 (1195)
Q Consensus 902 ~~~~~~~~g~v~~v~~~~~~~~~~~v~v~~~~~R~~~iGDKf~sRHGqKGvvs~i~~~~dmPf~~~G~~pDiIiNPh~~P 981 (1195)
+.++++|.|+||+|++++|.+|.+.+||++|+.|.|++|||||||||||||||.+++++|||||.+|++|||||||||||
T Consensus 861 ~~Lr~~e~Givd~V~vt~n~~G~kF~kv~vr~~ripqiGDKfasrHgqKG~ig~~~~qedmpft~eGi~pDiiiNPhaiP 940 (1141)
T KOG0214|consen 861 TKLRHTERGIVDQVWVTKNSEGPKFVKVRVRQVRIPQIGDKFASRHGQKGTIGITYRQEDMPFTIEGIVPDIIINPHAIP 940 (1141)
T ss_pred eecccCCcceEEEEEEecCCCCCceeEEEEeecccccccchhccccccCccccceeecCCCCccccCCCcceEECcccCc
Confidence 99999999999999999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred CCCchhhHHHHhhhHHhhhcCCCcccCCCCCccHHHHHHHHHHcCCCCCCeEEEeeCCCCceeeeeEeEeeeehhccccc
Q 000996 982 SRMTIGQLIECIMGKVAAHMGKEGDATPFTDVTVDNISKALHKCGYQMRGFETMYNGHTGRRLTAMIFLGPTYYQRLKHM 1061 (1195)
Q Consensus 982 SRMtiGql~E~~~gk~~~~~g~~~~~tpF~~~~~~~~~~~l~~~g~~~~G~~~l~~G~tG~~~~~~if~G~~yy~rL~Hm 1061 (1195)
||||||||+||++||.++..|...|+|||....+..++..|+++||+++|+|+||||+||++|.+.||+||.|||||+||
T Consensus 941 SRmtig~liEc~lgk~~a~~~e~~~atpFs~v~v~~is~~l~~~g~~~~G~e~~ynGrtG~~~~~~if~GptyyqrL~Hm 1020 (1141)
T KOG0214|consen 941 SRMTIGQLIECLLGKVAAYEGEEGDATPFSDVTVSKISANLHVYGYQYRGNERMYNGRTGRKLRAQIFIGPTYYQRLKHM 1020 (1141)
T ss_pred cccchhhhHHHhhhhhhhcccccccCCCCCccchhcccchHHHhccccCCCEEEecCCCCceeeeeeecCchHHHHHHHh
Confidence 99999999999999999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred cCcccEEeccCCccccccCCCCcccCCCccccchhhhhHHHhhccHHHHHHhhhcCCCceeeeeccccCcceeeccccCc
Q 000996 1062 VDDKIHSRGRGPVQILTRQPAEGRSRDGGLRFGEMERDCMIAHGASHFLKERLFDQSDAYRVHVCEHCGLIAIANLKKNS 1141 (1195)
Q Consensus 1062 v~dK~~~R~~Gp~~~lT~QP~~Gr~~~GG~R~GEMErd~l~a~Gas~~l~Erl~~~SD~~~~~vC~~cG~~~~~~~~~~~ 1141 (1195)
|+||+|+|++||++.|||||++||||+||||||||||||+||||||++|+|||+..||.|.+++|..||..+.++...+.
T Consensus 1021 vd~kih~R~~Gp~q~ltRQP~~gRsr~GGlRfGEMErdc~iahGaa~~L~ERL~~~SD~~~~~~c~~c~l~~i~~~~~n~ 1100 (1141)
T KOG0214|consen 1021 VDDKIHSRARGPVQILTRQPVEGRSRDGGLRFGEMERDCLIAHGAAAFLKERLFEKSDAYRVHICVLCGLTAIAGLIPNS 1100 (1141)
T ss_pred hhheeeecccCCceeeeccccccccccCCeeeehhHHHHHHHhhHHHHHHHHhhccCccceEEEeccchhhhhhccCCCc
Confidence 99999999999999999999999999999999999999999999999999999999999999999999977778888888
Q ss_pred eeeccCCCCCCceeecchHhhHHHHHHHHhCCCceEEEec
Q 000996 1142 FECRGCKNKTDIVQVHIPYACKLLFQELMAMAIAPRMLTK 1181 (1195)
Q Consensus 1142 ~~C~~C~~~~~~~~v~iPy~~kll~~EL~sm~i~~~l~~~ 1181 (1195)
+.|+.|.+.+.++.+.+|||||||+|||+||||.+|+.++
T Consensus 1101 ~~ck~c~n~~~v~~v~ipya~kLl~qelmsmni~pr~~~~ 1140 (1141)
T KOG0214|consen 1101 FECRGCENKTLVVRVYIPYAAKLLFQELMSMNIAPRRKTK 1140 (1141)
T ss_pred cccccccCccceEEEechhHHHHHHHHHHhccCccccccC
Confidence 8999999999999999999999999999999999998764
|
|
| >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 |
|---|
| >PRK09606 DNA-directed RNA polymerase subunit B''; Validated | Back alignment and domain information |
|---|
| >PF00562 RNA_pol_Rpb2_6: RNA polymerase Rpb2, domain 6; InterPro: IPR007120 DNA-directed RNA polymerases 2 | Back alignment and domain information |
|---|
| >PF04563 RNA_pol_Rpb2_1: RNA polymerase beta subunit; InterPro: IPR007644 RNA polymerases catalyse the DNA dependent polymerisation of RNA | Back alignment and domain information |
|---|
| >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 |
|---|
| >COG0085 RpoB DNA-directed RNA polymerase, beta subunit/140 kD 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 |
|---|
| >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 | 1195 | ||||
| 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 | ||
| 1hqm_C | 1119 | Crystal Structure Of Thermus Aquaticus Core Rna Pol | 7e-40 | ||
| 1ynj_C | 1119 | Taq Rna Polymerase-Sorangicin Complex Length = 1119 | 7e-40 | ||
| 1l9u_C | 1118 | Thermus Aquaticus Rna Polymerase Holoenzyme At 4 A | 7e-40 | ||
| 1i6v_C | 1118 | Thermus Aquaticus Core Rna Polymerase-Rifampicin Co | 8e-40 | ||
| 1iw7_C | 1119 | Crystal Structure Of The Rna Polymerase Holoenzyme | 1e-39 | ||
| 3lu0_C | 1342 | Molecular Model Of Escherichia Coli Core Rna Polyme | 2e-25 | ||
| 3iyd_C | 1342 | Three-Dimensional Em Structure Of An Intact Activat | 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|1HQM|C Chain C, Crystal Structure Of Thermus Aquaticus Core Rna Polymerase- Includes Complete Structure With Side-Chains (Except For Disordered Regions)-Further Refined From Original Deposition-Contains Additional Sequence Information Length = 1119 | Back alignment and structure |
| >pdb|1YNJ|C Chain C, Taq Rna Polymerase-Sorangicin Complex Length = 1119 | Back alignment and structure |
| >pdb|1L9U|C Chain C, Thermus Aquaticus Rna Polymerase Holoenzyme At 4 A Resolution Length = 1118 | Back alignment and structure |
| >pdb|1I6V|C Chain C, Thermus Aquaticus Core Rna Polymerase-Rifampicin Complex Length = 1118 | 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|3LU0|C Chain C, Molecular Model Of Escherichia Coli Core Rna Polymerase Length = 1342 | Back alignment and structure |
| >pdb|3IYD|C Chain C, Three-Dimensional Em Structure Of An Intact Activator-Dependent Transcription Initiation Complex Length = 1342 | Back alignment and structure |
| >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 = 1804 bits (4673), Expect = 0.0
Identities = 753/1210 (62%), Positives = 931/1210 (76%), Gaps = 47/1210 (3%)
Query: 15 EEEDEEEEITQEDAWAVISAYFEEKGLVRQQLDSFDEFIQNTMQEIVDESADIEIRPESQ 74
E+ E +TQED W VIS++FEE L RQQL SFDEF+QNTMQEIVD+ + + + +Q
Sbjct: 4 EDYQYNETLTQEDCWTVISSFFEETSLARQQLFSFDEFVQNTMQEIVDDDSTLTLDQYAQ 63
Query: 75 HNPGQQSDFAETIYKISFGQIYLSKPMMTESDGETATLFPKAARLRNLTYSAPLYVDVTK 134
H Q Y+I+FGQIYLS+P MTE+DG T T+FP+ ARLRNLTYS+PLYVD+ K
Sbjct: 64 HTGAQ--GDVTRRYEINFGQIYLSRPTMTEADGSTTTMFPQEARLRNLTYSSPLYVDMRK 121
Query: 135 RVIKKGHDGEEVTETQDF--------TKVFIGKVPIMLRSSYCTLYQNSEKDLTELGECP 186
+V+ + E + +KVFIGK+PIMLRS++C L S+ +L +L ECP
Sbjct: 122 KVMVAADSNVPIGEEEWLVEEEDEEPSKVFIGKIPIMLRSTFCILNGVSDSELYDLNECP 181
Query: 187 YDQGGYFIINGSEKVLIAQEKMSTNHVYVFKKRQPNKYAYVAEVRSMAESQNRPPSTMFV 246
YDQGGYFIINGSEKV+IAQE+ + N V VFKK P+ AYVAE+RS E +R S+M +
Sbjct: 182 YDQGGYFIINGSEKVIIAQERSAANIVQVFKKAAPSPIAYVAEIRSALERGSRLISSMQI 241
Query: 247 RMLSRTSAKGGSSGQYIRATLPYIRTEIPIIIVFRALGFVADKDILEHICYDFQDTQMME 306
++++R +SGQ IRATLPYIR++IPI+IVFRALG V D+DILEHICYD D QM+E
Sbjct: 242 KLMAR---NTENSGQTIRATLPYIRSDIPIVIVFRALGVVPDRDILEHICYDPNDFQMLE 298
Query: 307 LLRPSLEEAFVIQNQQVALDYIGKRGATVGVTRDKRIKYAKEILQKEMLPHVGTGDFCET 366
+++P +EEAFVIQ++ +ALDYIGKRG+T GVTR+KR++YA +ILQKE+LPH+ T + ET
Sbjct: 299 MMKPCIEEAFVIQDKDIALDYIGKRGSTTGVTREKRLRYAHDILQKELLPHITTMEGFET 358
Query: 367 KKAYYFGYIIHRLLLCALGRRAEDDRDHYGNKRLDLAGPLLGGLFRMLFRKLTRDVRAYV 426
+KA++ GY+IHR+LLCAL RR DDRDH+G KRLDLAGPLL LFRMLFRK+TRDV Y+
Sbjct: 359 RKAFFLGYMIHRMLLCALERREPDDRDHFGKKRLDLAGPLLASLFRMLFRKMTRDVYKYM 418
Query: 427 QKCVDNGKDVNLQFAIKAKTITSGLKYSLATGNWG-QANAAGTRAGVSQVLNRLTYASTL 485
QKCV+ ++ NL A+K+ IT+GL+YSLATGNWG Q + R GVSQVLNR T+ASTL
Sbjct: 419 QKCVETNREFNLTLAVKSNIITNGLRYSLATGNWGDQKRSMVNRVGVSQVLNRYTFASTL 478
Query: 486 SHLRRLNSPIGREGKLAKPRQLHNSQWGMMCPAETPEGQACGLVKNLALMVYITVGSAAY 545
SHLRR N+PIGR+GKLAKPRQLHN+ WGM+CPAETPEGQACGLVKNL+LM Y++VGS +
Sbjct: 479 SHLRRTNTPIGRDGKLAKPRQLHNTHWGMVCPAETPEGQACGLVKNLSLMSYVSVGSPSA 538
Query: 546 PILEFLEEWGTENFEEISPAVIPQATKIFVNGCWVGIHRDPEMLVKTLRRLRRRVDVNTE 605
PI+EFLEEWG E E+ +P+ P ATK+FVNG W+G+HRDP L +TLR LRRR+D++ E
Sbjct: 539 PIIEFLEEWGLETLEDYNPSASPNATKVFVNGVWLGVHRDPAHLTETLRSLRRRLDISAE 598
Query: 606 VGVVRDIRLKELRIYTDYGRCSRPLFIVE-------KQRLLIKKRDIIALQQRESPEDG- 657
V +VRDIR KELR++TD GR RPLFIV+ + L I+K I L + + D
Sbjct: 599 VSIVRDIREKELRLFTDAGRICRPLFIVDNNPNSERRGELCIRKEHIQQLIEDKDRYDID 658
Query: 658 -----GWHDLVAKGFIEYIDTEEEETTMISMTINDLVQARLH------------------ 694
GW LV+ G IEY+D EEEET MI+M+ DL +R
Sbjct: 659 PEQRFGWTALVSSGLIEYLDAEEEETVMIAMSPEDLEASRQMQAGYEVKEELDPAQRVKP 718
Query: 695 PEEAYADTYTHCEIHPSLILGVCASIIPFPDHNQSPRNTYQSAMGKQAMGIYVTNYQFRM 754
+ +THCEIHP++ILG+ ASIIPFPDHNQSPRNTYQSAMGKQAMG+Y+TNYQ RM
Sbjct: 719 APNPHVHAWTHCEIHPAMILGILASIIPFPDHNQSPRNTYQSAMGKQAMGVYLTNYQVRM 778
Query: 755 DTLAYVLYYPQKPLVTTRAMEHLHFRQLPAGINAIVAIACYSGYNQEDSVIMNQSSIDRG 814
DT+A +LYYPQKPL TTR+ME+L FR+LPAG NAIVAI CYSGYNQEDS+IMNQ+SIDRG
Sbjct: 779 DTMANILYYPQKPLATTRSMEYLKFRELPAGQNAIVAILCYSGYNQEDSIIMNQASIDRG 838
Query: 815 FFRSLFFRSYRDEEKKMGTLVKEDFGRPDRSNTMGMRHGSYDKLDDDGLAPPGTRVSGED 874
FRS+F+R+Y D+EKK+G V E+F RP RS T+ M+HG+YDKL+DDGL PGTRVSGED
Sbjct: 839 LFRSIFYRTYTDQEKKIGMTVMEEFERPVRSTTLRMKHGTYDKLEDDGLIAPGTRVSGED 898
Query: 875 VIIGKTTPISQDEAQ--GQASRYTRRDHSISLRHSETGMVDQVLLTTNADGLRFVKVRVR 932
+IIGKT PI D + + + +RD S LR +E+G+VDQV++TTN +GL+FVKVR+R
Sbjct: 899 IIIGKTAPIPLDHEELGQRTQLHAKRDVSTPLRSTESGIVDQVMVTTNQEGLKFVKVRMR 958
Query: 933 SVRIPQIGDKFSSRHGQKGTVGMTYTQEDMPWTVEGITPDIIVNPHAIPSRMTIGQLIEC 992
S RIPQIGDKF+SRHGQKGT+GMTY EDMP++ +GI PDII+NPHAIPSRMT+ L+EC
Sbjct: 959 STRIPQIGDKFASRHGQKGTIGMTYRHEDMPFSAQGIVPDIIINPHAIPSRMTVAHLVEC 1018
Query: 993 IMGKVAAHMGKEGDATPFTDVTVDNISKALHKCGYQMRGFETMYNGHTGRRLTAMIFLGP 1052
+ KV+A G EGDATPFTDVTV+ +SK L G+Q RGFE MY+GHTGR+L A +FLGP
Sbjct: 1019 QLSKVSALSGFEGDATPFTDVTVEAVSKLLRSHGFQSRGFEVMYHGHTGRKLVAQVFLGP 1078
Query: 1053 TYYQRLKHMVDDKIHSRGRGPVQILTRQPAEGRSRDGGLRFGEMERDCMIAHGASHFLKE 1112
TYYQRLKH+VDDKIH+R RGPVQILTRQP EGRSRDGGLRFGEMERDC I+HG S L+E
Sbjct: 1079 TYYQRLKHLVDDKIHARARGPVQILTRQPVEGRSRDGGLRFGEMERDCQISHGCSSVLRE 1138
Query: 1113 RLFDQSDAYRVHVCEHCGLIAIANLKKNSFECRGCKNKTDIVQVHIPYACKLLFQELMAM 1172
RLFD SDAYRV VC+ CGLIAIA+ KK+S+ECR C+N+T QV++PYA KLLFQELM+M
Sbjct: 1139 RLFDCSDAYRVIVCDICGLIAIASYKKDSYECRSCQNRTRFSQVYLPYAAKLLFQELMSM 1198
Query: 1173 AIAPRMLTKE 1182
IAPR+ TK
Sbjct: 1199 NIAPRLFTKN 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 |
|---|
| >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 | 1195 | |||
| 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 | 99.17 | |
| 3tbi_B | 228 | DNA-directed RNA polymerase subunit beta; transcri | 99.17 | |
| 3lti_A | 296 | DNA-directed RNA polymerase subunit beta; BBM2, nu | 98.8 | |
| 3mlq_A | 188 | DNA-directed RNA polymerase subunit beta; tudor, t | 96.17 |
| >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=2e-303 Score=2844.20 Aligned_cols=1157 Identities=65% Similarity=1.095 Sum_probs=1050.9
Q ss_pred ccchhhhhhhhhcccCccchHHHHHHHHHHHHHhhHHHHHcccCCeeeCCCCCCCCCCCCCCCCceEEEEEeEEEEccCc
Q 000996 22 EITQEDAWAVISAYFEEKGLVRQQLDSFDEFIQNTMQEIVDESADIEIRPESQHNPGQQSDFAETIYKISFGQIYLSKPM 101 (1195)
Q Consensus 22 ~~~~~~~~~~i~~~f~~~~Lv~~qi~SFn~Fi~~gL~~ii~~~~pI~~~~~~~~~~~~~~~~~~~~~~l~f~~v~v~~P~ 101 (1195)
+++.+|+|.++++||+.+||++|||||||+|+++||++|+++++||+++.+.++.+.. ++....+.|+|++++|++|+
T Consensus 11 ~~~~ed~w~li~aff~~~gLV~qHIdSFN~FI~~~Lq~IV~~~~~I~~~~~~~~~~~~--~~~~~~~~l~f~~i~v~kP~ 88 (1210)
T 3h0g_B 11 TLTQEDCWTVISSFFEETSLARQQLFSFDEFVQNTMQEIVDDDSTLTLDQYAQHTGAQ--GDVTRRYEINFGQIYLSRPT 88 (1210)
T ss_dssp CCCHHHHHHHHHHHHHHTCTTCSSSSSSSSSTTTTHHHHSSTTCCCC---------------------CEEEEEECCCCC
T ss_pred cCCHHHHHHHHHHHhcccchHHHHHHHHHHHHHHhHHHHHhccCcEEecCccCccccc--ccCCceEEEEEEEEEEcCCc
Confidence 3788999999999999999999999999999999999999999999876543322211 12345789999999999999
Q ss_pred cccCCCcccCCChHHHHhcCCccceeEEEEEEEEEeccCCC------Ccc--cccceeeEEEEecccceeeccCCccCCC
Q 000996 102 MTESDGETATLFPKAARLRNLTYSAPLYVDVTKRVIKKGHD------GEE--VTETQDFTKVFIGKVPIMLRSSYCTLYQ 173 (1195)
Q Consensus 102 ~~e~~~~~~~l~P~EcR~r~lTYsa~l~v~v~~~~~~~~~~------~~~--~~~~~~~~~v~lG~IPIMvkS~~C~L~~ 173 (1195)
+.+.++..++|||+|||+|++||+|||+|+|++.+++...+ ... ..+.....++.||+|||||||++|||++
T Consensus 89 ~~e~d~~~~~l~P~EcRlR~lTYsapl~Vdi~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~v~IG~iPIMlrS~~C~L~g 168 (1210)
T 3h0g_B 89 MTEADGSTTTMFPQEARLRNLTYSSPLYVDMRKKVMVAADSNVPIGEEEWLVEEEDEEPSKVFIGKIPIMLRSTFCILNG 168 (1210)
T ss_dssp CBCTTSCBCCCCTTTTTTTCCCCEEEEEEEEEC---------------------CCSSCCCEEEEEEECCSSSTTSSSSS
T ss_pred eecCCCcccccCHHHHHhcCCccceeEEEEEEEEEcCccccccccccccccccccccccceEEEecCCEEeCCCcccCCC
Confidence 99988889999999999999999999999999988653210 000 0011234579999999999999999999
Q ss_pred CChhhhhhcCCCCCCCCceEEEcCeeeEEeeeeeeecceEEEEEecCCCcceEEEEEEEeecCCCCCCceEEEEEEecCC
Q 000996 174 NSEKDLTELGECPYDQGGYFIINGSEKVLIAQEKMSTNHVYVFKKRQPNKYAYVAEVRSMAESQNRPPSTMFVRMLSRTS 253 (1195)
Q Consensus 174 ~s~~eli~~gE~~~D~GGYFIING~ERVII~Qe~~s~N~~~~~~~~~~~~~~~~~~irs~~~~g~~~~~~~~v~~~~~~~ 253 (1195)
+||+||+++||||+||||||||||+|||||+||++|+|+++++++++++++.|.|+|||+++++++..++++++++.+..
T Consensus 169 ~s~~eL~~~gEcp~D~GGYFIING~EKVII~qerla~N~~iv~~~~~~~~~~~~a~irS~~~~~~~~~s~~~v~~~~~~~ 248 (1210)
T 3h0g_B 169 VSDSELYDLNECPYDQGGYFIINGSEKVIIAQERSAANIVQVFKKAAPSPIAYVAEIRSALERGSRLISSMQIKLMARNT 248 (1210)
T ss_dssp CCHHHHHHTTCCTTCCCCCBCGGGSCBCCCBCBCCCCSCCCCCCCCCSSSCCCCCCCCCCCCSSSCCCCCCCCCCCCCCT
T ss_pred CCHHHHHhcCCCCCCCCCEEEEeCEEEEEEechhhccceEEEEeecCCCCceEEEEEEEEecCCccceeEEEEEEEeccc
Confidence 99999999999999999999999999999999999999999988887788899999999999887766666666654321
Q ss_pred CCCCCCCcEEEEEeccccccchHHHHHHHhcCCChHHHHHHhcccccchHHHHHhHhhHhhhhccCCHHHHHHHHhhcCc
Q 000996 254 AKGGSSGQYIRATLPYIRTEIPIIIVFRALGFVADKDILEHICYDFQDTQMMELLRPSLEEAFVIQNQQVALDYIGKRGA 333 (1195)
Q Consensus 254 ~k~~~~~~~i~v~i~~~~~~IPl~ilLrALG~~sD~eI~~~i~~~~~~~~~~~~l~~sl~e~~~i~t~~~al~yig~r~~ 333 (1195)
. ..++.+++++++++.+||+++||||||.+||+||++.|+++..|+++.++|+.+++++..++||++||+|||+||+
T Consensus 249 ~---~~~~~i~~~~~~~~~~IPi~ivlkALg~~sD~EI~~~I~~~~~d~~~~~~l~~slee~~~i~tq~~aL~yIG~r~~ 325 (1210)
T 3h0g_B 249 E---NSGQTIRATLPYIRSDIPIVIVFRALGVVPDRDILEHICYDPNDFQMLEMMKPCIEEAFVIQDKDIALDYIGKRGS 325 (1210)
T ss_dssp T---SCSCCCCCCCTTSCSCCCSHHHHTTTTCCSTTHHHHHHCCSSCCHHHHHTHHHHHHTTSSCCSSHHHHHTTCCCSS
T ss_pred c---CCCceEEEEEeccccCCcHHHHHHHcCCCCHHHHHHHHhCCCCcHHHHHHHHHHHHHhhhcCCHHHHHHHHHHhcc
Confidence 0 1146799999999999999999999999999999999998888889999999999998888999999999999998
Q ss_pred ccCCCchhhHHHHHHHHHhcccCCCCCCCCcchhHHHHHHHHHHHHHHhhcCCCCCCCCCccccceecccchhHHHHHHH
Q 000996 334 TVGVTRDKRIKYAKEILQKEMLPHVGTGDFCETKKAYYFGYIIHRLLLCALGRRAEDDRDHYGNKRLDLAGPLLGGLFRM 413 (1195)
Q Consensus 334 ~~~~~~~~~~e~~~~~L~~~llpHl~~~~~~~~~K~~~L~~Mi~kLl~~~~g~~~~DD~D~l~NKRv~l~G~Ll~~lfr~ 413 (1195)
....++.+++++|+++|++++||||+....++.+||+||+||+||||+++.|.+.+||+|||+||||+++|+||+.+||+
T Consensus 326 ~~~~~~~~~~~~a~~iL~~~lLpHl~~~~~~~~~Ka~fL~~MvrkLl~~~~G~~~~Dd~D~~~nkrl~l~G~Ll~~lfr~ 405 (1210)
T 3h0g_B 326 TTGVTREKRLRYAHDILQKELLPHITTMEGFETRKAFFLGYMIHRMLLCALERREPDDRDHFGKKRLDLAGPLLASLFRM 405 (1210)
T ss_dssp SCCCCHHHHHHHHHHHHTTTSSCSSCCSSSCCSSHHHHHHHHHHHHHHHHTTSSCCCCTTCSSSCCBCCHHHHHHHHHHH
T ss_pred ccCCCchhHHHHHHHHHHhhEEeCcCCCccchhHHHHHHHHHHHHHHHHhCCCCCCCCCccccCeEEecHHHHHHHHHHH
Confidence 65567778899999999999999999988778899999999999999999999999999999999999999999999999
Q ss_pred HHHHHHHHHHHHhhhhhccCCCCchhhcccccccccccccccccccccccc-cccccccceeeccccChhhhhccccccC
Q 000996 414 LFRKLTRDVRAYVQKCVDNGKDVNLQFAIKAKTITSGLKYSLATGNWGQAN-AAGTRAGVSQVLNRLTYASTLSHLRRLN 492 (1195)
Q Consensus 414 ~l~~~~k~ik~~l~k~~~~~~~~~~~~~i~~~~It~~i~~~~sTGnw~~~~-~~~~~sG~sq~l~r~N~ls~lSh~Rrv~ 492 (1195)
.|+++++.+++.+++.+++.+.+++..+++++.||++|+||||||||+..+ +.++++||||+|+|+||+|+||||||++
T Consensus 406 ~~~~~~~~i~~~l~k~~~~~~~~~~~~~i~~~~It~~l~~~laTGNW~~~kk~~~~~sGvsqvl~R~n~~s~lShlRrv~ 485 (1210)
T 3h0g_B 406 LFRKMTRDVYKYMQKCVETNREFNLTLAVKSNIITNGLRYSLATGNWGDQKRSMVNRVGVSQVLNRYTFASTLSHLRRTN 485 (1210)
T ss_dssp HHHHHHHHHHHHHHHHHTTCCSCCCTTSSCSTTTSHHHHHHHSSSCSSTTSSCCSCCCCSCCBCCCSSHHHHHHHTTBBC
T ss_pred HHHHHHHHHHHHHHHHhhcCCccCHHHhcchhhhHHHHHHHhhcCCcccccccccCcCCEEEEcccCCHHHHHHHHHhcc
Confidence 999999999999999888878888989999999999999999999999766 7789999999999999999999999999
Q ss_pred CCCCcCCCccccccccCCCcccccccCCCCCcccchhhcccccEEEccCCCchhHHHHHHHhCCccccccCCCCCCCceE
Q 000996 493 SPIGREGKLAKPRQLHNSQWGMMCPAETPEGQACGLVKNLALMVYITVGSAAYPILEFLEEWGTENFEEISPAVIPQATK 572 (1195)
Q Consensus 493 ~~~~~~~k~t~vR~Lhps~wG~iCPveTPEG~~cGLvk~LA~~a~It~~~~~~~i~~~l~~~g~~~~~~~~~~~~~~~~~ 572 (1195)
+|+++++|+++||+||||||||+||+|||||++||||||||++|+||++.+.+||.++|.++||++++++.+...++.++
T Consensus 486 ~p~~~~~K~~~~R~Lhpt~WG~iCP~eTPEG~~cGLvknLal~~~Isvg~~~~pI~~~l~~~gme~le~~~~~~~~~~tk 565 (1210)
T 3h0g_B 486 TPIGRDGKLAKPRQLHNTHWGMVCPAETPEGQACGLVKNLSLMSYVSVGSPSAPIIEFLEEWGLETLEDYNPSASPNATK 565 (1210)
T ss_dssp CSCCSSCCSSSSSSCCGGGTTTCCCSCCCSSSSTTTSCBCCSSCCBCCCCCSSHHHHHHHSSSCCCCSCCCSSSSSSSCC
T ss_pred CchhhccccccccccChhhheeeccccCCCCCcccccccccceeeeECCCCcHHHHHHHHHhCCcchhhcCcccCCCceE
Confidence 99999999999999999999999999999999999999999999999999999999999999999999988888888999
Q ss_pred EEECCEEEEEEcChHHHHHHHHhhhccCCCCcceEEEEeccCCeEEEEeCCCceeeeEEEEecc-------cchhhHHHH
Q 000996 573 IFVNGCWVGIHRDPEMLVKTLRRLRRRVDVNTEVGVVRDIRLKELRIYTDYGRCSRPLFIVEKQ-------RLLIKKRDI 645 (1195)
Q Consensus 573 V~lnG~~iG~~~~~~~~~~~lr~~rr~~~i~~~~~i~~~~~~~~i~I~td~GRl~RPl~~v~~~-------~~~~~~~~~ 645 (1195)
|||||+|||+|.+|..|++.||.|||+|.|+.+|||+++...++++||||+||+|||||+|+|+ ++.++++|+
T Consensus 566 VfvNG~wVGvh~dp~~Lv~~lR~lRR~g~Is~eVSIvrdir~rE~~IfTDaGRv~RPLfvVen~~~~~~~g~L~l~k~hi 645 (1210)
T 3h0g_B 566 VFVNGVWLGVHRDPAHLTETLRSLRRRLDISAEVSIVRDIREKELRLFTDAGRICRPLFIVDNNPNSERRGELCIRKEHI 645 (1210)
T ss_dssp CCSTTCCCCCCSCHHHHHHHHHHHHTTTSSCTTCCCCCCTTTCCCCCCCSSCCBCCEEEECCCSSCSSSSCCCSSCHHHH
T ss_pred EEECCEEEEEeCCHHHHHHHHHHHhhcCCCCCceEEEecCCCCeEEEecCCCcccceEEEEccCCcccccccccccHHHH
Confidence 9999999999999999999999999999999999999999999999999999999999999986 899999999
Q ss_pred HHhhcCCCC------CCCCccccccCCeEEEecccccccceeecccchhhcccCC-----------C----C---ccCCC
Q 000996 646 IALQQRESP------EDGGWHDLVAKGFIEYIDTEEEETTMISMTINDLVQARLH-----------P----E---EAYAD 701 (1195)
Q Consensus 646 ~~l~~~~~~------~~~~~~~l~~~g~iE~i~~~Ee~~~~Ia~~~~~~~~~~~~-----------~----~---~~~~~ 701 (1195)
++|+.++.. ...+|++|+++|+||||||+||++++|||+++|+...+.. + + .....
T Consensus 646 ~~L~~~~~~~~~~~~~~~~w~~Lv~~GvIEylDaeEEet~mIamtpeDL~~~r~~~~g~~~~~~~d~~~r~k~~~~~~~~ 725 (1210)
T 3h0g_B 646 QQLIEDKDRYDIDPEQRFGWTALVSSGLIEYLDAEEEETVMIAMSPEDLEASRQMQAGYEVKEELDPAQRVKPAPNPHVH 725 (1210)
T ss_dssp HHHHHHHTCCCSCTTCCCSSTTTTTTTSEEECCTTTGGGCCEESCHHHHHHHHHHTTCCCCCCSSCCSSCCCCCSCCSCC
T ss_pred HHHhcccccccccccccCCHHHHHhCCCEEEecHhhhhceeEEecHHHhhhhhhhhccccccccccchhhccccCCCccc
Confidence 999743100 0128999999999999999999999999999999652100 0 0 01135
Q ss_pred ceeeeecCCCccccccccccCCCCCCCCCccccccccccCcccccceeeEEEeeccceeeecCCCceeeccccccccccc
Q 000996 702 TYTHCEIHPSLILGVCASIIPFPDHNQSPRNTYQSAMGKQAMGIYVTNYQFRMDTLAYVLYYPQKPLVTTRAMEHLHFRQ 781 (1195)
Q Consensus 702 ~~th~EI~P~~ilsv~AslIPF~~hNqSpRn~yqc~M~KQa~g~~~~n~~~r~D~~~~~l~ypQ~Plv~t~~~~~~~~~~ 781 (1195)
.||||||||++|||||||+||||||||||||||||||+|||||++++|++.|+||++|+|+|||+|||+|++++++++++
T Consensus 726 ~~THcEIhPsmILGIcASiIPFpdHNQSPRNtYQ~aMgKQamG~~~~n~~~R~Dt~~~~L~yPQkPlv~T~~~e~~~~~e 805 (1210)
T 3h0g_B 726 AWTHCEIHPAMILGILASIIPFPDHNQSPRNTYQSAMGKQAMGVYLTNYQVRMDTMANILYYPQKPLATTRSMEYLKFRE 805 (1210)
T ss_dssp SCSEECSCGGGSSCSSSTTSSSSTTSCSHHHHHHHHHHTTCCSCCCTTTTTSCCSSEEEESSCBCCSSBCTTSTTTTCTT
T ss_pred ccccccccchhhhhheeecccCccccccchhhhhhhhhcccccccccccccccCccccEeecCcCccccchhHHHhCCCc
Confidence 79999999999999999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred CCCCceEEEEEEecCCccCCCcEEEecceeecCceeEEEEEEEEechhccCCcccccccCCCCCCCCCCCCCCcCCCCCC
Q 000996 782 LPAGINAIVAIACYSGYNQEDSVIMNQSSIDRGFFRSLFFRSYRDEEKKMGTLVKEDFGRPDRSNTMGMRHGSYDKLDDD 861 (1195)
Q Consensus 782 ~~~G~N~~VAv~s~~Gyn~EDaiiink~s~~rG~f~s~~~~~~~~~~~~~~~~~~e~~~~p~~~~~~~~~~~~~~~Ld~d 861 (1195)
+|+|+||+||||||+||||||||||||+|+|||||||+||++|++++++.+.+..+.|++|+.....+++.+.|++||+|
T Consensus 806 lp~G~NaiVAvmsy~GYn~EDAiIink~sv~rg~~~s~~~~~y~~~~~~~~~~~~~~~~~p~~~~~~~~~~~~~~~LD~d 885 (1210)
T 3h0g_B 806 LPAGQNAIVAILCYSGYNQEDSIIMNQASIDRGLFRSIFYRTYTDQEKKIGMTVMEEFERPVRSTTLRMKHGTYDKLEDD 885 (1210)
T ss_dssp SCSCCEECBEECCCSSSSCSSCEEEEHHHHTTTTTCEEEEEEEEECCCCCSSSCCCCCCCCCTTSCCSCCSCCGGGCCTT
T ss_pred ccCccceEEEEeccCCCChhhheeeehhheecCceEEEEEEEEEEEeeecCCCceeEEcCCCcchhcccchhhHhhcCCC
Confidence 99999999999999999999999999999999999999999999999887666678999998766666777789999999
Q ss_pred CCcCCCcEECCCCEEEEEeCCCCcc--ccccccCCCccceeeEEeecCCCcEEEEEEEEecCCCcEEEEEEEeeecCCCC
Q 000996 862 GLAPPGTRVSGEDVIIGKTTPISQD--EAQGQASRYTRRDHSISLRHSETGMVDQVLLTTNADGLRFVKVRVRSVRIPQI 939 (1195)
Q Consensus 862 Gi~~~G~~v~~gdvli~k~~~~~~~--~~~~~~~~~~~~~~s~~~~~~~~g~v~~v~~~~~~~~~~~v~v~~~~~R~~~i 939 (1195)
|||.||++|++|||||||++|+..+ +++...+....+|+|++++++|.|+||+|.++++++|.+.|||++|+.|+|++
T Consensus 886 Gi~~~G~~v~~gDiligK~~p~~~~~~~~~~~~~~~~~rd~s~~~~~~e~g~Vd~V~~~~~~~g~~~vkv~~~~~R~~~~ 965 (1210)
T 3h0g_B 886 GLIAPGTRVSGEDIIIGKTAPIPLDHEELGQRTQLHAKRDVSTPLRSTESGIVDQVMVTTNQEGLKFVKVRMRSTRIPQI 965 (1210)
T ss_dssp SSCCTTCCCCTTCCCCCCCCCC-----------CCCCCCCCCCCCCTTCCCCCCEEEEEECSSSSEEEEEEECCCBCCCT
T ss_pred CCcCCCCEecCCCEEEEEecCCCCCchhhcccccccccceeeEEecCCCCeEEEEEEEEEecCCCeEEEEEEEEecCCCc
Confidence 9999999999999999999998642 23333345568999999999999999999999999999999999999999999
Q ss_pred cccccccCCCceeEEeeecCCCCCCCCCCCCCcEEeCCCCCCCCCchhhHHHHhhhHHhhhcCCCcccCCCCCccHHHHH
Q 000996 940 GDKFSSRHGQKGTVGMTYTQEDMPWTVEGITPDIIVNPHAIPSRMTIGQLIECIMGKVAAHMGKEGDATPFTDVTVDNIS 1019 (1195)
Q Consensus 940 GDKf~sRHGqKGvvs~i~~~~dmPf~~~G~~pDiIiNPh~~PSRMtiGql~E~~~gk~~~~~g~~~~~tpF~~~~~~~~~ 1019 (1195)
|||||||||||||||+|||+|||||++||++|||||||||||||||||||+|+++|||+++.|.+.|+|||++.++++++
T Consensus 966 GDK~a~RhGqKGvi~~i~~~edmPf~~~G~~pDii~NP~~~PSRMtigq~~E~~~g~~~~~~g~~~~~tpF~~~~~~~~~ 1045 (1210)
T 3h0g_B 966 GDKFASRHGQKGTIGMTYRHEDMPFSAQGIVPDIIINPHAIPSRMTVAHLVECQLSKVSALSGFEGDATPFTDVTVEAVS 1045 (1210)
T ss_dssp TCEEECTTCCCEEEEEEECTTTSCCBTTTBCCSEECCGGGSTTSCCHHHHHHHHHHHHSSSSCCCCBCCSSCSCCHHHHH
T ss_pred hhhhhcccCCCceeeEEeccccCCcCCCCCCCeEEECCCcCCCCccchhhhHhHHHHHHHhcCCceeeccCCCCcHHHHH
Confidence 99999999999999999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred HHHHHcCCCCCCeEEEeeCCCCceeeeeEeEeeeehhccccccCcccEEeccCCccccccCCCCcccCCCccccchhhhh
Q 000996 1020 KALHKCGYQMRGFETMYNGHTGRRLTAMIFLGPTYYQRLKHMVDDKIHSRGRGPVQILTRQPAEGRSRDGGLRFGEMERD 1099 (1195)
Q Consensus 1020 ~~l~~~g~~~~G~~~l~~G~tG~~~~~~if~G~~yy~rL~Hmv~dK~~~R~~Gp~~~lT~QP~~Gr~~~GG~R~GEMErd 1099 (1195)
+.|+++||+++|+++||||+||++|+++||+|++|||||+|||+||+|||++|||+.|||||++||+|+|||||||||||
T Consensus 1046 ~~l~~~g~~~~G~~~l~~g~tg~~~~~~i~~G~~yy~kL~Hmv~dK~h~r~~gp~~~~t~QP~~gr~~~GG~r~GEME~~ 1125 (1210)
T 3h0g_B 1046 KLLRSHGFQSRGFEVMYHGHTGRKLVAQVFLGPTYYQRLKHLVDDKIHARARGPVQILTRQPVEGRSRDGGLRFGEMERD 1125 (1210)
T ss_dssp HHHHTTTSCTTSCBCCBCSSSCCBCSSCBEECCEECEECSCCSTTTCEECSSCCBCSSSCSBCCSSTTCCCCCCCHHHHH
T ss_pred HHHHHcCcCCCCCEEEEcCCCCCCccccEEEEehHhhcchhhcccCcEEeccCCCchhccCCcccccccCCeeeehhhhh
Confidence 99999999999999999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred HHHhhccHHHHHHhhhcCCCceeeeeccccCcceeeccccCceeeccCCCCCCceeecchHhhHHHHHHHHhCCCceEEE
Q 000996 1100 CMIAHGASHFLKERLFDQSDAYRVHVCEHCGLIAIANLKKNSFECRGCKNKTDIVQVHIPYACKLLFQELMAMAIAPRML 1179 (1195)
Q Consensus 1100 ~l~a~Gas~~l~Erl~~~SD~~~~~vC~~cG~~~~~~~~~~~~~C~~C~~~~~~~~v~iPy~~kll~~EL~sm~i~~~l~ 1179 (1195)
||+|||||++|||||+.+||++.++||+.||++++.+...+.++|+.|+++.++.++.||||||||+|||+||||.+||.
T Consensus 1126 ~l~a~Gaa~~l~e~l~~~SD~~~~~vC~~cg~~~~~~~~~~~~~c~~c~~~~~i~~~~~p~~~k~l~~El~~~~i~~rl~ 1205 (1210)
T 3h0g_B 1126 CQISHGCSSVLRERLFDCSDAYRVIVCDICGLIAIASYKKDSYECRSCQNRTRFSQVYLPYAAKLLFQELMSMNIAPRLF 1205 (1210)
T ss_dssp HHHHHTBHHHHHHHHHTTTTCCEEEEESSSCCBCCCCSSSCCCCCTTTCCSSCEEEEECCHHHHHHHHHHHTTTCCEECC
T ss_pred hhhhccHHHHHHHHhhcCCCcceeEeecCCCCeeeecccCCceEcCccCCCCccceecCCHHHHHHHHHHHhCCCceEEE
Confidence 99999999999999999999999999999999998777777899999999999999999999999999999999999999
Q ss_pred eccC
Q 000996 1180 TKED 1183 (1195)
Q Consensus 1180 ~~~~ 1183 (1195)
++++
T Consensus 1206 ~~~~ 1209 (1210)
T 3h0g_B 1206 TKNH 1209 (1210)
T ss_dssp CSTT
T ss_pred ecCC
Confidence 8654
|
| >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 |
| 1195 | ||||
| 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 = 1199 bits (3103), Expect = 0.0
Identities = 737/1210 (60%), Positives = 917/1210 (75%), Gaps = 48/1210 (3%)
Query: 17 EDEEEEITQEDAWAVISAYFEEKGLVRQQLDSFDEFIQNTMQEIVDESADIEIRPESQHN 76
EDE IT ED+WAVISA+F EKGLV QQLDSF++F+ T+Q+I+ E + + + +QH
Sbjct: 2 EDESAPITAEDSWAVISAFFREKGLVSQQLDSFNQFVDYTLQDIICEDSTLILEQLAQHT 61
Query: 77 PGQQSDFAETIYKISFGQIYLSKPMMTESDGETATLFPKAARLRNLTYSAPLYVDVTKRV 136
+SD Y+ISFG+IY++KPM+ ESDG T L+P+ ARLRNLTYS+ L+VDV KR
Sbjct: 62 T--ESDNISRKYEISFGKIYVTKPMVNESDGVTHALYPQEARLRNLTYSSGLFVDVKKRT 119
Query: 137 ----------IKKGHDGEEVTETQDFTKVFIGKVPIMLRSSYCTLYQNSEKDLTELGECP 186
+K EE + + KVFIG++PIMLRS C L + +E DL +L ECP
Sbjct: 120 YEAIDVPGRELKYELIAEESEDDSESGKVFIGRLPIMLRSKNCYLSEATESDLYKLKECP 179
Query: 187 YDQGGYFIINGSEKVLIAQEKMSTNHVYVFKKRQPNKYAYVAEVRSMAESQNRPPSTMFV 246
+D GGYFIINGSEKVLIAQE+ + N V VFKK P+ ++VAE+RS E +R ST+ V
Sbjct: 180 FDMGGYFIINGSEKVLIAQERSAGNIVQVFKKAAPSPISHVAEIRSALEKGSRFISTLQV 239
Query: 247 RMLSRTSAKGGSSGQYIRATLPYIRTEIPIIIVFRALGFVADKDILEHICYDFQDTQMME 306
++ + GSS + I+ATLPYI+ +IPI+I+FRALG + D +ILEHICYD D QM+E
Sbjct: 240 KLYG----REGSSARTIKATLPYIKQDIPIVIIFRALGIIPDGEILEHICYDVNDWQMLE 295
Query: 307 LLRPSLEEAFVIQNQQVALDYIGKRGATVGVTRDKRIKYAKEILQKEMLPHVGTGDFCET 366
+L+P +E+ FVIQ+++ ALD+IG+RG +G+ ++KRI+YAK+ILQKE LPH+ + E+
Sbjct: 296 MLKPCVEDGFVIQDRETALDFIGRRGTALGIKKEKRIQYAKDILQKEFLPHITQLEGFES 355
Query: 367 KKAYYFGYIIHRLLLCALGRRAEDDRDHYGNKRLDLAGPLLGGLFRMLFRKLTRDVRAYV 426
+KA++ GY+I+RLLLCAL R+ +DDRDH+G KRLDLAGPLL LF+ LF+KLT+D+ Y+
Sbjct: 356 RKAFFLGYMINRLLLCALDRKDQDDRDHFGKKRLDLAGPLLAQLFKTLFKKLTKDIFRYM 415
Query: 427 QKCVDNGKDVNLQFAIKAKTITSGLKYSLATGNWGQA-NAAGTRAGVSQVLNRLTYASTL 485
Q+ V+ D N++ AI AKTITSGLKY+LATGNWG+ A +RAGVSQVLNR TY+STL
Sbjct: 416 QRTVEEAHDFNMKLAINAKTITSGLKYALATGNWGEQKKAMSSRAGVSQVLNRYTYSSTL 475
Query: 486 SHLRRLNSPIGREGKLAKPRQLHNSQWGMMCPAETPEGQACGLVKNLALMVYITVGSAAY 545
SHLRR N+PIGR+GKLAKPRQLHN+ WG++CPAETPEGQACGLVKNL+LM I+VG+
Sbjct: 476 SHLRRTNTPIGRDGKLAKPRQLHNTHWGLVCPAETPEGQACGLVKNLSLMSCISVGTDPM 535
Query: 546 PILEFLEEWGTENFEEISPAVIPQATKIFVNGCWVGIHRDPEMLVKTLRRLRRRVDVNTE 605
PI+ FL EWG E E+ P P AT++FVNG W G+HR+P L++TLR LRR+ D+N E
Sbjct: 536 PIITFLSEWGMEPLEDYVPHQSPDATRVFVNGVWHGVHRNPARLMETLRTLRRKGDINPE 595
Query: 606 VGVVRDIRLKELRIYTDYGRCSRPLFIVE------KQRLLIKKRDIIALQQRESPEDGG- 658
V ++RDIR KEL+I+TD GR RPLFIVE + L ++K I L E + G
Sbjct: 596 VSMIRDIREKELKIFTDAGRVYRPLFIVEDDESLGHKELKVRKGHIAKLMATEYQDIEGG 655
Query: 659 --------WHDLVAKGFIEYIDTEEEETTMISMTINDLVQARLHPEE------------- 697
W L+ +G +EYID EEEE+ +I+M DL A + E
Sbjct: 656 FEDVEEYTWSSLLNEGLVEYIDAEEEESILIAMQPEDLEPAEANEENDLDVDPAKRIRVS 715
Query: 698 AYADTYTHCEIHPSLILGVCASIIPFPDHNQSPRNTYQSAMGKQAMGIYVTNYQFRMDTL 757
+A T+THCEIHPS+ILGV ASIIPFPDHNQSPRNTYQSAMGKQAMG+++TNY RMDT+
Sbjct: 716 HHATTFTHCEIHPSMILGVAASIIPFPDHNQSPRNTYQSAMGKQAMGVFLTNYNVRMDTM 775
Query: 758 AYVLYYPQKPLVTTRAMEHLHFRQLPAGINAIVAIACYSGYNQEDSVIMNQSSIDRGFFR 817
A +LYYPQKPL TTRAME+L FR+LPAG NAIVAIACYSGYNQEDS+IMNQSSIDRG FR
Sbjct: 776 ANILYYPQKPLGTTRAMEYLKFRELPAGQNAIVAIACYSGYNQEDSMIMNQSSIDRGLFR 835
Query: 818 SLFFRSYRDEEKKMGTLVKEDFGRPDRSNTMGMRHGSYDKLDDDGLAPPGTRVSGEDVII 877
SLFFRSY D+EKK G + E F +P R+NT+ M+HG+YDKLDDDGL PG RVSGEDVII
Sbjct: 836 SLFFRSYMDQEKKYGMSITETFEKPQRTNTLRMKHGTYDKLDDDGLIAPGVRVSGEDVII 895
Query: 878 GKTTPISQD--EAQGQASRYTRRDHSISLRHSETGMVDQVLLTTNADGLRFVKVRVRSVR 935
GKTTPIS D E + + +++RD S LR +E G+VDQVL+TTN DGL+FVKVRVR+ +
Sbjct: 896 GKTTPISPDEEELGQRTAYHSKRDASTPLRSTENGIVDQVLVTTNQDGLKFVKVRVRTTK 955
Query: 936 IPQIGDKFSSRHGQKGTVGMTYTQEDMPWTVEGITPDIIVNPHAIPSRMTIGQLIECIMG 995
IPQIGDKF+SRHGQKGT+G+TY +EDMP+T EGI PD+I+NPHAIPSRMT+ LIEC++
Sbjct: 956 IPQIGDKFASRHGQKGTIGITYRREDMPFTAEGIVPDLIINPHAIPSRMTVAHLIECLLS 1015
Query: 996 KVAAHMGKEGDATPFTDVTVDNISKALHKCGYQMRGFETMYNGHTGRRLTAMIFLGPTYY 1055
KVAA G EGDA+PFTD+TV+ ISK L + GYQ RGFE MYNGHTG++L A IF GPTYY
Sbjct: 1016 KVAALSGNEGDASPFTDITVEGISKLLREHGYQSRGFEVMYNGHTGKKLMAQIFFGPTYY 1075
Query: 1056 QRLKHMVDDKIHSRGRGPVQILTRQPAEGRSRDGGLRFGEMERDCMIAHGASHFLKERLF 1115
QRL+HMVDDKIH+R RGP+Q+LTRQP EGRSRDGGLRFGEMERDCMIAHGA+ FLKERL
Sbjct: 1076 QRLRHMVDDKIHARARGPMQVLTRQPVEGRSRDGGLRFGEMERDCMIAHGAASFLKERLM 1135
Query: 1116 DQSDAYRVHVCEHCGLIA-IANLKKNSFECRGCKNKTDIVQVHIPYACKLLFQELMAMAI 1174
+ SDA+RVH+C CGL+ IA L N FEC+GC NK DI Q+HIPYA KLLFQELMAM I
Sbjct: 1136 EASDAFRVHICGICGLMTVIAKLNHNQFECKGCDNKIDIYQIHIPYAAKLLFQELMAMNI 1195
Query: 1175 APRMLTKEDT 1184
PR+ T
Sbjct: 1196 TPRLYTDRSR 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 | 1195 | |||
| 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: | 83.86 |
| >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=1.4e-266 Score=2588.43 Aligned_cols=1162 Identities=63% Similarity=1.060 Sum_probs=1002.9
Q ss_pred cccccccchhhhhhhhhcccCccchHHHHHHHHHHHHHhhHHHHHcccCCeeeCCCCCCCCCCCCCCCCceEEEEEeEEE
Q 000996 17 EDEEEEITQEDAWAVISAYFEEKGLVRQQLDSFDEFIQNTMQEIVDESADIEIRPESQHNPGQQSDFAETIYKISFGQIY 96 (1195)
Q Consensus 17 ~~~~~~~~~~~~~~~i~~~f~~~~Lv~~qi~SFn~Fi~~gL~~ii~~~~pI~~~~~~~~~~~~~~~~~~~~~~l~f~~v~ 96 (1195)
||++..++++|+|++|++||+.++|++|||+|||+||++||++|+++.+||.+....+..... ++....+.|+|++++
T Consensus 2 ~~~~~~~~~~d~w~~i~~~f~~~~Lv~~qidSFn~Fi~~gi~~Ii~~~~pi~~~~~~~~~~~~--~~~~~~~~l~f~~i~ 79 (1207)
T d1twfb_ 2 EDESAPITAEDSWAVISAFFREKGLVSQQLDSFNQFVDYTLQDIICEDSTLILEQLAQHTTES--DNISRKYEISFGKIY 79 (1207)
T ss_dssp CCTTCCCCTTHHHHHHHHHHHHHTTCHHHHHHHHHHHHTHHHHHHHTTCBCC--------------------CCEECCCE
T ss_pred CccCCCCCHHHHHHHHHHHhCCCCccHHHHHHHHHHHHHCHHHHHHhcCCeEeeccccccccc--cCCCceEEEEEEEEE
Confidence 456778899999999999999999999999999999999999999999999865432221111 133457899999999
Q ss_pred EccCccccCCCcccCCChHHHHhcCCccceeEEEEEEEEEeccCCCCcc----------cccceeeEEEEecccceeecc
Q 000996 97 LSKPMMTESDGETATLFPKAARLRNLTYSAPLYVDVTKRVIKKGHDGEE----------VTETQDFTKVFIGKVPIMLRS 166 (1195)
Q Consensus 97 v~~P~~~e~~~~~~~l~P~EcR~r~lTYsa~l~v~v~~~~~~~~~~~~~----------~~~~~~~~~v~lG~IPIMvkS 166 (1195)
|++|++.+.++..++|||+|||+|++||+|+|+|+|++.+........+ .......++|+||+|||||+|
T Consensus 80 i~kP~~~e~~g~~~~l~P~EcR~r~lTYs~~l~v~i~~~~~~~~~~~~~~~k~~~~~~~~~~~~~~~~v~iG~IPIMv~S 159 (1207)
T d1twfb_ 80 VTKPMVNESDGVTHALYPQEARLRNLTYSSGLFVDVKKRTYEAIDVPGRELKYELIAEESEDDSESGKVFIGRLPIMLRS 159 (1207)
T ss_dssp EEEEEECCSSSCCEECCHHHHHHTTCCCEEEEECCEECCCCC-------------------------CCEEEEEECCTTS
T ss_pred EcCCeEEcCCCcccccCHHHHHhcCCccceEEEEEEEEEEEecccccccccceeecccccccceeeeeEEEEECCEEeCC
Confidence 9999999888888999999999999999999999999876433211100 112234568999999999999
Q ss_pred CCccCCCCChhhhhhcCCCCCCCCceEEEcCeeeEEeeeeeeecceEEEEEecCCCcceEEEEEEEeecCCCCCCceEEE
Q 000996 167 SYCTLYQNSEKDLTELGECPYDQGGYFIINGSEKVLIAQEKMSTNHVYVFKKRQPNKYAYVAEVRSMAESQNRPPSTMFV 246 (1195)
Q Consensus 167 ~~C~L~~~s~~eli~~gE~~~D~GGYFIING~ERVII~Qe~~s~N~~~~~~~~~~~~~~~~~~irs~~~~g~~~~~~~~v 246 (1195)
++|||+++++++|++.||||+|+||||||||+|||||+|++.++|+++++++++++++.|+|++||++++++|..+++.+
T Consensus 160 ~~C~L~~~~~~~l~~~gEc~~D~GGYFIING~EKVIi~Q~r~~~n~~~v~~~~~~~~~~~~~~irS~~~~~~~~~~~~~~ 239 (1207)
T d1twfb_ 160 KNCYLSEATESDLYKLKECPFDMGGYFIINGSEKVLIAQERSAGNIVQVFKKAAPSPISHVAEIRSALEKGSRFISTLQV 239 (1207)
T ss_dssp TTSGGGTCCHHHHHHTTCCTTCCCCSEEETTEEEEECEEEEECSSCCEEEECCTTSSEEEEEEEECCCSSSCCCCCEEEE
T ss_pred CcccCCCcCHHHHHHcCCCCCCCCcEEEECCEEEEEEEEEecCCCeEEEEEcCCCCceEEEEEEEEEeCCCCceeEEEEE
Confidence 99999999999999999999999999999999999999999999999999988888899999999999999998888888
Q ss_pred EEEecCCCCCCCCCcEEEEEeccccccchHHHHHHHhcCCChHHHHHHhcccccchHHHHHhHhhHhhhhccCCHHHHHH
Q 000996 247 RMLSRTSAKGGSSGQYIRATLPYIRTEIPIIIVFRALGFVADKDILEHICYDFQDTQMMELLRPSLEEAFVIQNQQVALD 326 (1195)
Q Consensus 247 ~~~~~~~~k~~~~~~~i~v~i~~~~~~IPl~ilLrALG~~sD~eI~~~i~~~~~~~~~~~~l~~sl~e~~~i~t~~~al~ 326 (1195)
+++..+. .....+++.+++++.+||+++||||||..+|+||++.++++..+.++.+.+..++++...+.|+++|+.
T Consensus 240 ~~~~~~~----~~~~~i~~~~~~~~~~IPl~illrALG~~sD~eI~~~i~~~~~~~~~~~~l~~~~~~~~~~~t~e~al~ 315 (1207)
T d1twfb_ 240 KLYGREG----SSARTIKATLPYIKQDIPIVIIFRALGIIPDGEILEHICYDVNDWQMLEMLKPCVEDGFVIQDRETALD 315 (1207)
T ss_dssp EEESCSS----CSSCCEEEECTTCSSCEEHHHHHHHTTCCSHHHHHHHHCCCTTCHHHHHHHHHHHHHTTTCCSHHHHHH
T ss_pred EEEEcCC----ccceEEEEEeehhcccchHHHHHHHhCCcchhhhhhhcccCchhhHHHHHHHHHHhhccchhhHHHHHH
Confidence 8765431 123468999999999999999999999999999999999887777888899999888888899999999
Q ss_pred HHhhcCcccCCCchhhHHHHHHHHHhcccCCCCCCCCcchhHHHHHHHHHHHHHHhhcCCCCCCCCCccccceecccchh
Q 000996 327 YIGKRGATVGVTRDKRIKYAKEILQKEMLPHVGTGDFCETKKAYYFGYIIHRLLLCALGRRAEDDRDHYGNKRLDLAGPL 406 (1195)
Q Consensus 327 yig~r~~~~~~~~~~~~e~~~~~L~~~llpHl~~~~~~~~~K~~~L~~Mi~kLl~~~~g~~~~DD~D~l~NKRv~l~G~L 406 (1195)
|||++++..........+.++++|.+.+|||++....+...|+.+|++|++||+.+..|.+.+||+|||+||||+++|+|
T Consensus 316 yig~~~~~~~~~~~~~~~~~~~iL~~~llpHl~~~~~~~~~K~~~L~~mi~kll~~~~g~~~~dd~D~~~nkrv~~~G~L 395 (1207)
T d1twfb_ 316 FIGRRGTALGIKKEKRIQYAKDILQKEFLPHITQLEGFESRKAFFLGYMINRLLLCALDRKDQDDRDHFGKKRLDLAGPL 395 (1207)
T ss_dssp HHHHTTSCTTSCHHHHHHHHHHHHHHTSSTTTCCSSSCHHHHHHHHHHHHHHHHHHHTTSSCCCCTTCGGGEEEECHHHH
T ss_pred HHHhhccccCCCccchHHHHHHHHHhhhccccccccchhhhHHHHHHHHHHHHHHhhhcccCCcchhhhccchhhhHHHH
Confidence 99999876556667778999999999999999987777778999999999999999999999999999999999999999
Q ss_pred HHHHHHHHHHHHHHHHHHHhhhhhccCCCCchhhcccccccccccccccccccccccc-cccccccceeeccccChhhhh
Q 000996 407 LGGLFRMLFRKLTRDVRAYVQKCVDNGKDVNLQFAIKAKTITSGLKYSLATGNWGQAN-AAGTRAGVSQVLNRLTYASTL 485 (1195)
Q Consensus 407 l~~lfr~~l~~~~k~ik~~l~k~~~~~~~~~~~~~i~~~~It~~i~~~~sTGnw~~~~-~~~~~sG~sq~l~r~N~ls~l 485 (1195)
|+.+||+.|+++++.+++.+.+...+.+.+++..+++++.||++|++||+||||++.. ..++++|+||+|+|+||+++|
T Consensus 396 l~~~fr~~~~~~~~~i~~~~~~~~~~~~~~~~~~~~~~~~it~~i~~~~~TGn~~~~~~~~~~~~G~sq~l~r~n~l~~l 475 (1207)
T d1twfb_ 396 LAQLFKTLFKKLTKDIFRYMQRTVEEAHDFNMKLAINAKTITSGLKYALATGNWGEQKKAMSSRAGVSQVLNRYTYSSTL 475 (1207)
T ss_dssp HHHHHHHHHHHHHHHHHHHHHSCCC--------CCCCTHHHHHHHHHHHHHCCCC---------CCCEEECCCSSHHHHH
T ss_pred HHHHHHHHHHHHHHHHHhhhccccccccccChhhhhccCcHHHHHHHHHhcCcccccccccccccchhhhhhhcCHHHHH
Confidence 9999999999999999999988766666778888889999999999999999999876 567899999999999999999
Q ss_pred ccccccCCCCCcCCCccccccccCCCcccccccCCCCCcccchhhcccccEEEccCCCchhHHHHHHHhCCccccccCCC
Q 000996 486 SHLRRLNSPIGREGKLAKPRQLHNSQWGMMCPAETPEGQACGLVKNLALMVYITVGSAAYPILEFLEEWGTENFEEISPA 565 (1195)
Q Consensus 486 Sh~Rrv~~~~~~~~k~t~vR~Lhps~wG~iCPveTPEG~~cGLvk~LA~~a~It~~~~~~~i~~~l~~~g~~~~~~~~~~ 565 (1195)
||+||+|+++++++|+++||+||||||||+||+|||||+|||||||||++|+|+.+.+..++.++|..+|+..+....+.
T Consensus 476 Sh~Rrv~~~~~~~~k~~~~R~Lhps~~G~iCPveTPEG~~~GLv~~La~~a~i~~~~~~~~~~~~l~~~g~~~~~~~~~~ 555 (1207)
T d1twfb_ 476 SHLRRTNTPIGRDGKLAKPRQLHNTHWGLVCPAETPEGQACGLVKNLSLMSCISVGTDPMPIITFLSEWGMEPLEDYVPH 555 (1207)
T ss_dssp HHHTEEECCC------CCTTSCCGGGTTTBCSSCCCSGGGBTTEEEBCTTCEECCCCCCHHHHHHHHHTTCEEGGGCCGG
T ss_pred HhhhcccCCcccccccchhhhcchhhccceeeeeCCCCCcccceeccceeeeeccccccceeeEEeeccCcccceeeeec
Confidence 99999999999999999999999999999999999999999999999999999999899999999999999988877666
Q ss_pred CCCCceEEEECCEEEEEEcChHHHHHHHHhhhccCCCCcceEEEEeccCCeEEEEeCCCceeeeEEEEeccc------ch
Q 000996 566 VIPQATKIFVNGCWVGIHRDPEMLVKTLRRLRRRVDVNTEVGVVRDIRLKELRIYTDYGRCSRPLFIVEKQR------LL 639 (1195)
Q Consensus 566 ~~~~~~~V~lnG~~iG~~~~~~~~~~~lr~~rr~~~i~~~~~i~~~~~~~~i~I~td~GRl~RPl~~v~~~~------~~ 639 (1195)
......+||+||.|+|+++++..|++.+|.+||.|.++.+++++++....+++|+||+||++||||+++|+. +.
T Consensus 556 ~~~~~~~V~~nG~~~G~~~~~~~l~~~lr~~R~~g~i~~~~s~~~~~~~~~i~i~td~Gr~~rPlfi~~nd~~~~~~~~~ 635 (1207)
T d1twfb_ 556 QSPDATRVFVNGVWHGVHRNPARLMETLRTLRRKGDINPEVSMIRDIREKELKIFTDAGRVYRPLFIVEDDESLGHKELK 635 (1207)
T ss_dssp GCTTCEEEEETTEEEEEESCHHHHHHHHHHHHHHTSSCTTCEEEEETTTTEEEEECCSCCEEEEEEEEECCCTTSSCEES
T ss_pred cccccceeeeeeeEEEEEcchheeehheeeeeeccCccceeeeeeeccccceEEEecCccccCCceeecchhhhccccee
Confidence 667889999999999999999999999999999999999999999999999999999999999999999864 44
Q ss_pred hhHHHHHHhhcCCCC---------CCCCccccccCCeEEEecccccccceeecccchhhcccCCC-------------Cc
Q 000996 640 IKKRDIIALQQRESP---------EDGGWHDLVAKGFIEYIDTEEEETTMISMTINDLVQARLHP-------------EE 697 (1195)
Q Consensus 640 ~~~~~~~~l~~~~~~---------~~~~~~~l~~~g~iE~i~~~Ee~~~~Ia~~~~~~~~~~~~~-------------~~ 697 (1195)
+.+.++..+...+.+ ...+|.+++.+|.|||||++|++++.||+.+.++....... ..
T Consensus 636 mqrq~v~~l~~~e~~~v~~~~e~~~~~~~~~~~~~g~ieyid~~E~~~~~Ia~~~~~i~~~~~~~~~~~~~~~~~~~~~~ 715 (1207)
T d1twfb_ 636 VRKGHIAKLMATEYQDIEGGFEDVEEYTWSSLLNEGLVEYIDAEEEESILIAMQPEDLEPAEANEENDLDVDPAKRIRVS 715 (1207)
T ss_dssp CCHHHHHHHHHHHHCC---------CCCHHHHHHTTSEEEEEHHHHTTCCEESSGGGGCC---------CCCTTSCCCCC
T ss_pred eeHhhHhhhhccccccccccccchhhccccccccCCceeeecchhcceEEEEecccccccccccccccccccchhheeee
Confidence 556555543221100 11389999999999999999999999999999986421100 00
Q ss_pred cCCCceeeeecCCCccccccccccCCCCCCCCCccccccccccCcccccceeeEEEeeccceeeecCCCceeeccccccc
Q 000996 698 AYADTYTHCEIHPSLILGVCASIIPFPDHNQSPRNTYQSAMGKQAMGIYVTNYQFRMDTLAYVLYYPQKPLVTTRAMEHL 777 (1195)
Q Consensus 698 ~~~~~~th~EI~P~~ilsv~AslIPF~~hNqSpRn~yqc~M~KQa~g~~~~n~~~r~D~~~~~l~ypQ~Plv~t~~~~~~ 777 (1195)
.....+||+||+|++|||++|++|||+||||||||+|||||+|||||++++|++.|.|++.|+|+|||+|||+|+.++.+
T Consensus 716 ~~~~~~th~Ei~p~~ilg~~as~iPf~~hNqSpRn~yq~qm~KQa~G~~~~~~~~r~D~~~~~l~~pQ~Plv~t~~~~~~ 795 (1207)
T d1twfb_ 716 HHATTFTHCEIHPSMILGVAASIIPFPDHNQSPRNTYQSAMGKQAMGVFLTNYNVRMDTMANILYYPQKPLGTTRAMEYL 795 (1207)
T ss_dssp CCCSCCCEECSCGGGGSCTTGGGSSSGGGSCHHHHHHHHHHGGGBCBCSCTTTTTCCCSEEEEESSCBCCSEECTTHHHH
T ss_pred cccccccccccccceEEeeecceEEecccccccceeecccCCcccCCccccccceeccccceeEecCCCceeeccchhhh
Confidence 01346899999999999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred ccccCCCCceEEEEEEecCCccCCCcEEEecceeecCceeEEEEEEEEechhccCCcccccccCCCCCCCCCCCCCCcCC
Q 000996 778 HFRQLPAGINAIVAIACYSGYNQEDSVIMNQSSIDRGFFRSLFFRSYRDEEKKMGTLVKEDFGRPDRSNTMGMRHGSYDK 857 (1195)
Q Consensus 778 ~~~~~~~G~N~~VAv~s~~Gyn~EDaiiink~s~~rG~f~s~~~~~~~~~~~~~~~~~~e~~~~p~~~~~~~~~~~~~~~ 857 (1195)
+++++|+|+||+||||||+||||||||||||+|++||+|||+||++|++++++.+.+..+.+..|........+...|++
T Consensus 796 ~~~e~p~G~N~iVAvmsy~GYN~EDAiIiNk~si~rG~f~s~~~k~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 875 (1207)
T d1twfb_ 796 KFRELPAGQNAIVAIACYSGYNQEDSMIMNQSSIDRGLFRSLFFRSYMDQEKKYGMSITETFEKPQRTNTLRMKHGTYDK 875 (1207)
T ss_dssp TTTTSCCCEEEEEEECBSSSTTTTTEEEEEHHHHHTTTTCEEEEEEEEECCCCSCTTCCCEESCCCCSSSCBCCSSCGGG
T ss_pred hhhcccchhceEEEEEeccCcccccccccchhhhhhcccceeeeEEEEEEeccccccccccccccccccccccchhhhhc
Confidence 99999999999999999999999999999999999999999999999999888766666777777655555566778999
Q ss_pred CCCCCCcCCCcEECCCCEEEEEeCCCCcccc--ccccCCCccceeeEEeecCCCcEEEEEEEEecCCCcEEEEEEEeeec
Q 000996 858 LDDDGLAPPGTRVSGEDVIIGKTTPISQDEA--QGQASRYTRRDHSISLRHSETGMVDQVLLTTNADGLRFVKVRVRSVR 935 (1195)
Q Consensus 858 Ld~dGi~~~G~~v~~gdvli~k~~~~~~~~~--~~~~~~~~~~~~s~~~~~~~~g~v~~v~~~~~~~~~~~v~v~~~~~R 935 (1195)
||+||||++|++|++||+||||++|..+++. .........+|+|++++.++.|+||+|.++.+.++.+.|||++|+.|
T Consensus 876 Ld~dGi~~~G~~v~~gdilvgk~~p~~~~~~~~~~~~~~~~~~~~s~~~~~~~~g~V~~v~~~~~~~~~~~~kv~i~~~R 955 (1207)
T d1twfb_ 876 LDDDGLIAPGVRVSGEDVIIGKTTPISPDEEELGQRTAYHSKRDASTPLRSTENGIVDQVLVTTNQDGLKFVKVRVRTTK 955 (1207)
T ss_dssp CCTTSBCCTTCEECTTCEEECEECCCC-------------CCBBCCEECCTTCCEEEEEEEEEECSSSCEEEEEEEEEEE
T ss_pred ccccccccccccccCCceeeeeeeccCCchhhhhhccccccccceeEEccCCCCeEEEEEEEeecccccceeeEEEEEEe
Confidence 9999999999999999999999999874331 22222345789999999999999999999999999999999999999
Q ss_pred CCCCcccccccCCCceeEEeeecCCCCCCCCCCCCCcEEeCCCCCCCCCchhhHHHHhhhHHhhhcCCCcccCCCCCccH
Q 000996 936 IPQIGDKFSSRHGQKGTVGMTYTQEDMPWTVEGITPDIIVNPHAIPSRMTIGQLIECIMGKVAAHMGKEGDATPFTDVTV 1015 (1195)
Q Consensus 936 ~~~iGDKf~sRHGqKGvvs~i~~~~dmPf~~~G~~pDiIiNPh~~PSRMtiGql~E~~~gk~~~~~g~~~~~tpF~~~~~ 1015 (1195)
+|+||||||||||||||||+|||+||||||+||++|||||||||||||||||||+|+++||||+++|.+.|+|||++...
T Consensus 956 ~p~iGDKfasRhGqKGv~s~i~p~eDMPf~~dG~~pDiI~NP~g~PSRMtiGql~E~~~gk~~~~~g~~~d~t~F~~~~~ 1035 (1207)
T d1twfb_ 956 IPQIGDKFASRHGQKGTIGITYRREDMPFTAEGIVPDLIINPHAIPSRMTVAHLIECLLSKVAALSGNEGDASPFTDITV 1035 (1207)
T ss_dssp CCCTTCEEECTTSCEEEEEEEECTTTSCEETTSCCCSEEECGGGSTTTTCHHHHHHHHHHHHHHHHCSCEECCSSSSCCH
T ss_pred ccchhhhhhhccCCcceeeeeechhhCCcCCCCCCccEEECCCcCcccCcHHHHHHHHHHHHHHhcCCccccCCCCCccH
Confidence 99999999999999999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred HHHHHHHHHcCCCCCCeEEEeeCCCCceeeeeEeEeeeehhccccccCcccEEeccCCccccccCCCCcccCCCccccch
Q 000996 1016 DNISKALHKCGYQMRGFETMYNGHTGRRLTAMIFLGPTYYQRLKHMVDDKIHSRGRGPVQILTRQPAEGRSRDGGLRFGE 1095 (1195)
Q Consensus 1016 ~~~~~~l~~~g~~~~G~~~l~~G~tG~~~~~~if~G~~yy~rL~Hmv~dK~~~R~~Gp~~~lT~QP~~Gr~~~GG~R~GE 1095 (1195)
+++++.|.++||+++|+|.||||+||++|+++||+|++|||||+|||+||+|||++|||++|||||++||+|+|||||||
T Consensus 1036 ~~~~~~L~~~g~~~~G~e~ly~G~tG~~~~~~i~~G~~yy~rL~HmV~DK~~~Rs~Gp~~~lT~QP~~Gr~~~GG~R~GE 1115 (1207)
T d1twfb_ 1036 EGISKLLREHGYQSRGFEVMYNGHTGKKLMAQIFFGPTYYQRLRHMVDDKIHARARGPMQVLTRQPVEGRSRDGGLRFGE 1115 (1207)
T ss_dssp HHHHHHHHTTTSCTTSEECEECTTTCCBCSSCEEEEEEEEEEBSSCGGGTCEEECCCC----------------CCCCCH
T ss_pred HHHHHHHHHcCCCCCCCEEEECCCCCCCccceEEEehhHhhhhhhhhccccEeeccCCCCccccCCCCccccCCCcceeh
Confidence 99999999999999999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred hhhhHHHhhccHHHHHHhhhcCCCceeeeeccccCccee-eccccCceeeccCCCCCCceeecchHhhHHHHHHHHhCCC
Q 000996 1096 MERDCMIAHGASHFLKERLFDQSDAYRVHVCEHCGLIAI-ANLKKNSFECRGCKNKTDIVQVHIPYACKLLFQELMAMAI 1174 (1195)
Q Consensus 1096 MErd~l~a~Gas~~l~Erl~~~SD~~~~~vC~~cG~~~~-~~~~~~~~~C~~C~~~~~~~~v~iPy~~kll~~EL~sm~i 1174 (1195)
||||||+|||||++|||||+.+||.+.++||..||+++. .+.+...++|+.|+++.++.++.||||||||+|||+||||
T Consensus 1116 ME~dal~a~Gaa~~L~e~l~~~SD~~~~~vc~~cg~~~~~~~~~~~~~~c~~c~~~~~i~~~~iPy~fk~l~~EL~sm~i 1195 (1207)
T d1twfb_ 1116 MERDCMIAHGAASFLKERLMEASDAFRVHICGICGLMTVIAKLNHNQFECKGCDNKIDIYQIHIPYAAKLLFQELMAMNI 1195 (1207)
T ss_dssp HHHHHHHHHTCHHHHHHHHCCSSCCCEEEEESSSCSSCCEEETTTTEEEBTTTTBSSSEEEEECCHHHHHHHHHHHHTTB
T ss_pred HHHHHHHHHhHHHHHHHHhhccCCccceeccccCCceEEEecccccceeecCCCCCCCccccCCCHHHHHHHHHHHHCCC
Confidence 999999999999999999999999999999999999985 3455667899999999999999999999999999999999
Q ss_pred ceEEEeccCC
Q 000996 1175 APRMLTKEDT 1184 (1195)
Q Consensus 1175 ~~~l~~~~~~ 1184 (1195)
++||.+++.-
T Consensus 1196 ~~~l~~~~~~ 1205 (1207)
T d1twfb_ 1196 TPRLYTDRSR 1205 (1207)
T ss_dssp CCEEESCSSC
T ss_pred ceEEEecCcc
Confidence 9999997654
|
| >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 |
|---|