1I6VD

Thermus aquaticus core rna polymerase-rifampicin complex
Total Genus 181
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The genus trace: a function that shows values of genus (vertical axis) for subchains spanned between the first residue, and all other residues (shown on horizontal axis). The number of the latter residue and the genus of a given subchain are shown interactively.

Total Genus
181
sequence length
1234
structure length
1174
Chain Sequence
KEVRKVRIALASPEKIRSWSYGEVEKPETEAKVCERCAVEVTRSIVRRYRMAHIELATPAAHIWFVKDVPSKIATLLDLSATELEQVLYFNKYIVLDPKAAVLDAVPVEKRQLLTDXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXIDARMGAEAIQELLKELDLEKLERELLEEMKHPSRARRAKARKRLEVVRAFLDSGNRPEWMILEAVPVLPPDATSDLNDLYRRLINRNNRLKKLLAQGAPEIIIRNEKRMLQEAVDAVIDNGRRGSPVTNPGSERPLRSLTDILSGKQGRFRQNLLGKRVDYSGRSVIVVGPQLKLHQCGLPKRMALELFKPFLLKKMEEKAFAPNVKAARRMLERQRDIKDEVWDALEEVIHGKVVLLNRAPTLHRLGIQAFQPVLVEGQSIQLHPLVCEAFNADFDGDQMAVHVPLSSFAQAEARIQMLSAHNLLSPASGEPLAKPSRDIILGLYYITQVRKEKKGAGMAFATPEEALAAYERGEVALNAPIVVAGRETSVGRLKFVFANPDEALLAVAHGLLDLQDTVTTRYLGRRLETSPGRILFARIVGEAVGDEKVAQELIQMDVPQEKNSLKDLVYQAFLRLGMEKTARLLDALKYYGFTLSTTSGITIGIDDAVIPEEKQRYLEEADRKLRQIEQAYEMGFLTDRERYDQVIQLWTETTEKVTQAVFNNFEENYPFNPLYVMAQSGARGNPQQIRQLCGMRGLMQKPSGETFEVPVRSSFREGLTVLEYFISSHGARKGGADTALRTADSGYLTRKLVDVAHEIVVREADCGTTNYISVPLFQMDEVTRTLRLRKRSDIESGLYGRVLAREVEALGRRLEEGRYLSLEDVHFLIKAAEAGEVREVPVRSPLTCQTRYGVCQKCYGYDLSMARPVSIGEAVGVVAAESIGEPGTQLTMRTGTDITQGLPRVIELFEARRPKAKAVISEIDGVVRIEEGEDRLSVFVESEGFSKEYKLPKDARLLVKDGDYVEAGQPLTRGAIDPHQLLEAKGPEAVERYLVDEIQKVYRAQGVKLHDKHIEIVVRQMLKYVEVTDPGDSRLLEGQVLEKWDVEALNERLIAVPVAWKPLLMGVTKSALSTKSWLSAASFQNTTHVLTEAAIAGKKDELIGLKENVILGRLIPAGTGSDFVRFTQVVDQRTLKAIE
Loading diagram...

The genus matrix. At position (x,y) a genus value for a subchain spanned between x’th and y’th residue is shown. Values of the genus are represented by color, according to the scale given on the right.

Structure visualization

After clicking on a point (x,y) in the genus matrix above, a subchain from x to y is shown in color.

publication title Structural mechanism for rifampicin inhibition of bacterial rna polymerase.
pubmed doi rcsb
molecule tags Transcription
molecule keywords DNA-DIRECTED RNA POLYMERASE
total genus 181
structure length 1174
sequence length 1234
ec nomenclature ec 2.7.7.6: DNA-directed RNA polymerase.
pdb deposition date 2001-03-05

pfam database annotations

chain Pfam Accession Code Pfam Family Identifier Pfam Description
D PF00623 RNA_pol_Rpb1_2 RNA polymerase Rpb1, domain 2
D PF04983 RNA_pol_Rpb1_3 RNA polymerase Rpb1, domain 3
D PF04998 RNA_pol_Rpb1_5 RNA polymerase Rpb1, domain 5
D PF05000 RNA_pol_Rpb1_4 RNA polymerase Rpb1, domain 4
Image from the rcsb pdb (www.rcsb.org)
cath code
ClassArchitectureTopologyHomologyDomain
1.10.132.30 Mainly Alpha Orthogonal Bundle Topoisomerase I; Chain A, domain 4 Topoisomerase I; Chain A, domain 4 1i6vD03
1.10.274.100 Mainly Alpha Orthogonal Bundle Enzyme I; Chain A, domain 2 Enzyme I; Chain A, domain 2 1i6vD02
3.90.105.30 Alpha Beta Alpha-Beta Complex Molybdopterin biosynthesis moea protein, domain 2 Molybdopterin biosynthesis moea protein, domain 2 1i6vD05
2R93A 1ZYRD 1SFOA 4QIWA 2WAQA 2R7ZA 2PMZA 2B63A 1Y1WA 2VUMA 1TWAA 2BE5D 2A6HD 1HQMD 3FKIA 3GTGA 1Y1VA 1YNND 2E2IA 1SMYD 2Y0SA 3CQZA 2NVYA 1TWCA 3GTKA 1TWHA 2JA7A 3GTOA 2JA6A 1K83A 1WCMA 2A68D 2E2HA 2R92A 2A69D 1I6VD 1TWGA 2CW0D 3GTQA 3H0GA 2NVXA 1IW7D 3GTPA 1TWFA 1R9TA 2JA5A 3GTMA 4C2MA 1I3QA 2A6ED 4AYBA 2YU9A 2O5JD 3HKZA 1YNJD 1I50A 2WB1A 3GTLA 3GTJA
chains in the Genus database with same CATH superfamily
1DD5A 1SEUA 4PD0A 1SFOA 2X0OA 2MQAA 1A35A 1T6PA 4KC6A 1T8IA 2B63A 4FBSA 2FTSA 1T6JA 5IZ2A 4KB2A 4C5UA 1TWAA 1Y1VA 4CQ5A 5G2RA 3P9AA 2Y0SA 5ERRA 2NVYA 1EH1A 3M4AA 1Y698 2Y0NA 4BABA 1WCMA 2A68D 1ZYMA 1TGOA 4NOLA 3LR8A 1EK8A 1I6VD 2NQUA 2NQRA 3K59A 4EJ3A 1IW7D 4KAWX 1R49A 3GTPA 4C2MA 4NOMA 2NQVA 4D3ZA 5ERVA 2LPJA 4U90A 3EZEA 2NQMA 3LHPS 5ERUA 4F3EA 2FU3A 2X0QA 1LPQA 2VK9A 2N1DB 2R7ZA 4Q5VA 1V9MA 3LF9A 4JLRC 4LMOA 1NH3A 1WQGA 1Y1WA 4V2RA 2VUMA 2N3EA 1K4SA 2BE5D 2A6HD 5C9HA 4NWBA 1RRJA 2NRPA 5ERTA 3EZAA 4QCLA 2LTHA 1FC5A 5D8HB 1IS1A 1RR8C 2HROA 1SC7A 4IP9A 1TWCA 2JA6A 1G8LA 3K58A 4KB4A 1K83A 2E2HA 1Y2MA 4C6GA 2R92A 4TK3A 4AN8A 2CW0D 2K3QA 4KDDA 2NQNA 1K4TA 3KYLA 1R9TA 2JA5A 1I3QA 2NQQA 4D3YA 2HWGA 2O5JD 2YIIA 4TK4A 3SJRA 3DU5A 3K5OA 1I50A 4Q5GA 3GTJA 3GTLA 3JSYA 2MX8A 4NOKA 2LPIA 2R93A 4BAAA 2NRSA 4QIWA 1EZAA 5CQGA 4TK1A 2MX9A 4AHCA 1TL8A 2PMZA 3LR6A 2R4GA 4IP8A 1WQFA 4C5RA 1WU2A 2EZCA 1EJ9A 4U91A 3U4QA 1MIUA 3GTGA 5D6GA 1YNND 1SMYD 3WVOA 1EZBA 3CQZA 5ERQA 1TWHA 2JA7A 4GFQA 5MLC9 1TWGA 2NQSA 3DU6A 5JSNB 2NVXA 3K5LA 4FGUA 3GTMA 3LRDA 2EZBA 4FYDA 4C5SA 3EZBA 1ISEA 1YNJD 5G2SA 2WB1A 2FIOA 4L8IA 4CEIA 1ZYRD 3K5MA 2LYIA 2WAQA 2X0PA 1R5ZA 3LR2A 1Q8IA 4V2QA 1A36A 2LKMB 3NZ4A 1A31A 2K3OA 1HQMD 3FKIA 3MAQA 1W27A 1UZ5A 1WQHA 2E2IA 2NQKA 2B9SB 2AQLA 3U44A 2F5JA 2K3NA 2FIPA 3GTOA 2MP0A 2F4QA 4OYDB 1T3EA 2A69D 4H3TA 2EZAA 5ERSA 1GE9A 3H0GA 1TWFA 4O26A 1XI8A 4CEJA 2A6ED 3K5NA 4AYBA 2YU9A 1G8RA 3HKZA 3IAYA 3K57A 4PD1A 4CEHA 2X3LA 2NROA 3GTKA 3GTQA 4FXDA 5JSBB
chains in the Genus database with same CATH topology
1DD5A 1SEUA 4PD0A 1SFOA 2X0OA 2MQAA 1A35A 2FTSA 4KC6A 1T8IA 2B63A 4FBSA 5IZ2A 4KB2A 1TWAA 1Y1VA 5G2RA 3P9AA 2Y0SA 5ERRA 2NVYA 1EH1A 3M4AA 1Y698 2Y0NA 1WCMA 2A68D 1TGOA 4NOLA 3LR8A 1EK8A 1I6VD 2NQUA 2NQRA 3K59A 4EJ3A 1IW7D 4KAWX 1R49A 3GTPA 4C2MA 4NOMA 2NQVA 4D3ZA 5ERVA 2LPJA 4U90A 2NQMA 3LHPS 5ERUA 4F3EA 2FU3A 2X0QA 1LPQA 2VK9A 2N1DB 2R7ZA 4Q5VA 1V9MA 3LF9A 4JLRC 4LMOA 1NH3A 1WQGA 1Y1WA 2VUMA 2N3EA 1K4SA 2BE5D 2A6HD 5C9HA 4NWBA 1RRJA 2NRPA 5ERTA 5D8HB 4QCLA 2LTHA 1FC5A 1IS1A 1RR8C 1SC7A 4IP9A 1TWCA 2JA6A 1G8LA 3K58A 4KB4A 1K83A 2E2HA 2R92A 4TK3A 4AN8A 2CW0D 2K3QA 4KDDA 2NQNA 1K4TA 3KYLA 1R9TA 2JA5A 1I3QA 2NQQA 4D3YA 2O5JD 4TK4A 3SJRA 3DU5A 3K5OA 1I50A 4Q5GA 3GTJA 3GTLA 3JSYA 2MX8A 4NOKA 2LPIA 2R93A 2NRSA 4QIWA 5CQGA 4TK1A 2MX9A 4AHCA 1TL8A 2PMZA 3LR6A 2R4GA 4IP8A 1WQFA 1WU2A 1EJ9A 4U91A 3U4QA 1MIUA 3GTGA 5D6GA 1YNND 1SMYD 3WVOA 3CQZA 5ERQA 1TWHA 2JA7A 4GFQA 5MLC9 1TWGA 2NQSA 3DU6A 5JSNB 2NVXA 3K5LA 4FGUA 3GTMA 3LRDA 4FYDA 1ISEA 1YNJD 5G2SA 2WB1A 2FIOA 4L8IA 4CEIA 1ZYRD 3K5MA 2LYIA 2WAQA 2X0PA 1R5ZA 3LR2A 1Q8IA 1A36A 2LKMB 1A31A 2K3OA 1HQMD 3FKIA 3MAQA 1UZ5A 1WQHA 2E2IA 2NQKA 2B9SB 2AQLA 3U44A 2F5JA 2K3NA 2FIPA 3GTOA 2F4QA 4OYDB 1T3EA 2A69D 4H3TA 5ERSA 1GE9A 3H0GA 1TWFA 4O26A 1XI8A 4CEJA 2A6ED 3K5NA 4AYBA 2YU9A 1G8RA 3HKZA 3IAYA 3K57A 4PD1A 4CEHA 2X3LA 2NROA 3GTKA 3GTQA 4FXDA 5JSBB
chains in the Genus database with same CATH homology


 
#chains in the Genus database with same CATH superfamily
 2R93 A;  1ZYR D;  1SFO A;  4QIW A;  2WAQ A;  2R7Z A;  2PMZ A;  2B63 A;  1Y1W A;  2VUM A;  1TWA A;  2BE5 D;  2A6H D;  1HQM D;  3FKI A;  3GTG A;  1Y1V A;  1YNN D;  2E2I A;  1SMY D;  2Y0S A;  3CQZ A;  2NVY A;  1TWC A;  3GTK A;  1TWH A;  2JA7 A;  3GTO A;  2JA6 A;  1K83 A;  1WCM A;  2A68 D;  2E2H A;  2R92 A;  2A69 D;  1I6V D;  1TWG A;  2CW0 D;  3GTQ A;  3H0G A;  2NVX A;  1IW7 D;  3GTP A;  1TWF A;  1R9T A;  2JA5 A;  3GTM A;  4C2M A;  1I3Q A;  2A6E D;  4AYB A;  2YU9 A;  2O5J D;  3HKZ A;  1YNJ D;  1I50 A;  2WB1 A;  3GTL A;  3GTJ A; 
#chains in the Genus database with same CATH topology
 1DD5 A;  1SEU A;  4PD0 A;  1SFO A;  2X0O A;  2MQA A;  1A35 A;  1T6P A;  4KC6 A;  1T8I A;  2B63 A;  4FBS A;  2FTS A;  1T6J A;  5IZ2 A;  4KB2 A;  4C5U A;  1TWA A;  1Y1V A;  4CQ5 A;  5G2R A;  3P9A A;  2Y0S A;  5ERR A;  2NVY A;  1EH1 A;  3M4A A;  1Y69 8;  2Y0N A;  4BAB A;  1WCM A;  2A68 D;  1ZYM A;  1TGO A;  4NOL A;  3LR8 A;  1EK8 A;  1I6V D;  2NQU A;  2NQR A;  3K59 A;  4EJ3 A;  1IW7 D;  4KAW X;  1R49 A;  3GTP A;  4C2M A;  4NOM A;  2NQV A;  4D3Z A;  5ERV A;  2LPJ A;  4U90 A;  3EZE A;  2NQM A;  3LHP S;  5ERU A;  4F3E A;  2FU3 A;  2X0Q A;  1LPQ A;  2VK9 A;  2N1D B;  2R7Z A;  4Q5V A;  1V9M A;  3LF9 A;  4JLR C;  4LMO A;  1NH3 A;  1WQG A;  1Y1W A;  4V2R A;  2VUM A;  2N3E A;  1K4S A;  2BE5 D;  2A6H D;  5C9H A;  4NWB A;  1RRJ A;  2NRP A;  5ERT A;  3EZA A;  4QCL A;  2LTH A;  1FC5 A;  5D8H B;  1IS1 A;  1RR8 C;  2HRO A;  1SC7 A;  4IP9 A;  1TWC A;  2JA6 A;  1G8L A;  3K58 A;  4KB4 A;  1K83 A;  2E2H A;  1Y2M A;  4C6G A;  2R92 A;  4TK3 A;  4AN8 A;  2CW0 D;  2K3Q A;  4KDD A;  2NQN A;  1K4T A;  3KYL A;  1R9T A;  2JA5 A;  1I3Q A;  2NQQ A;  4D3Y A;  2HWG A;  2O5J D;  2YII A;  4TK4 A;  3SJR A;  3DU5 A;  3K5O A;  1I50 A;  4Q5G A;  3GTJ A;  3GTL A;  3JSY A;  2MX8 A;  4NOK A;  2LPI A;  2R93 A;  4BAA A;  2NRS A;  4QIW A;  1EZA A;  5CQG A;  4TK1 A;  2MX9 A;  4AHC A;  1TL8 A;  2PMZ A;  3LR6 A;  2R4G A;  4IP8 A;  1WQF A;  4C5R A;  1WU2 A;  2EZC A;  1EJ9 A;  4U91 A;  3U4Q A;  1MIU A;  3GTG A;  5D6G A;  1YNN D;  1SMY D;  3WVO A;  1EZB A;  3CQZ A;  5ERQ A;  1TWH A;  2JA7 A;  4GFQ A;  5MLC 9;  1TWG A;  2NQS A;  3DU6 A;  5JSN B;  2NVX A;  3K5L A;  4FGU A;  3GTM A;  3LRD A;  2EZB A;  4FYD A;  4C5S A;  3EZB A;  1ISE A;  1YNJ D;  5G2S A;  2WB1 A;  2FIO A;  4L8I A;  4CEI A;  1ZYR D;  3K5M A;  2LYI A;  2WAQ A;  2X0P A;  1R5Z A;  3LR2 A;  1Q8I A;  4V2Q A;  1A36 A;  2LKM B;  3NZ4 A;  1A31 A;  2K3O A;  1HQM D;  3FKI A;  3MAQ A;  1W27 A;  1UZ5 A;  1WQH A;  2E2I A;  2NQK A;  2B9S B;  2AQL A;  3U44 A;  2F5J A;  2K3N A;  2FIP A;  3GTO A;  2MP0 A;  2F4Q A;  4OYD B;  1T3E A;  2A69 D;  4H3T A;  2EZA A;  5ERS A;  1GE9 A;  3H0G A;  1TWF A;  4O26 A;  1XI8 A;  4CEJ A;  2A6E D;  3K5N A;  4AYB A;  2YU9 A;  1G8R A;  3HKZ A;  3IAY A;  3K57 A;  4PD1 A;  4CEH A;  2X3L A;  2NRO A;  3GTK A;  3GTQ A;  4FXD A;  5JSB B; 
#chains in the Genus database with same CATH homology
 1DD5 A;  1SEU A;  4PD0 A;  1SFO A;  2X0O A;  2MQA A;  1A35 A;  2FTS A;  4KC6 A;  1T8I A;  2B63 A;  4FBS A;  5IZ2 A;  4KB2 A;  1TWA A;  1Y1V A;  5G2R A;  3P9A A;  2Y0S A;  5ERR A;  2NVY A;  1EH1 A;  3M4A A;  1Y69 8;  2Y0N A;  1WCM A;  2A68 D;  1TGO A;  4NOL A;  3LR8 A;  1EK8 A;  1I6V D;  2NQU A;  2NQR A;  3K59 A;  4EJ3 A;  1IW7 D;  4KAW X;  1R49 A;  3GTP A;  4C2M A;  4NOM A;  2NQV A;  4D3Z A;  5ERV A;  2LPJ A;  4U90 A;  2NQM A;  3LHP S;  5ERU A;  4F3E A;  2FU3 A;  2X0Q A;  1LPQ A;  2VK9 A;  2N1D B;  2R7Z A;  4Q5V A;  1V9M A;  3LF9 A;  4JLR C;  4LMO A;  1NH3 A;  1WQG A;  1Y1W A;  2VUM A;  2N3E A;  1K4S A;  2BE5 D;  2A6H D;  5C9H A;  4NWB A;  1RRJ A;  2NRP A;  5ERT A;  5D8H B;  4QCL A;  2LTH A;  1FC5 A;  1IS1 A;  1RR8 C;  1SC7 A;  4IP9 A;  1TWC A;  2JA6 A;  1G8L A;  3K58 A;  4KB4 A;  1K83 A;  2E2H A;  2R92 A;  4TK3 A;  4AN8 A;  2CW0 D;  2K3Q A;  4KDD A;  2NQN A;  1K4T A;  3KYL A;  1R9T A;  2JA5 A;  1I3Q A;  2NQQ A;  4D3Y A;  2O5J D;  4TK4 A;  3SJR A;  3DU5 A;  3K5O A;  1I50 A;  4Q5G A;  3GTJ A;  3GTL A;  3JSY A;  2MX8 A;  4NOK A;  2LPI A;  2R93 A;  2NRS A;  4QIW A;  5CQG A;  4TK1 A;  2MX9 A;  4AHC A;  1TL8 A;  2PMZ A;  3LR6 A;  2R4G A;  4IP8 A;  1WQF A;  1WU2 A;  1EJ9 A;  4U91 A;  3U4Q A;  1MIU A;  3GTG A;  5D6G A;  1YNN D;  1SMY D;  3WVO A;  3CQZ A;  5ERQ A;  1TWH A;  2JA7 A;  4GFQ A;  5MLC 9;  1TWG A;  2NQS A;  3DU6 A;  5JSN B;  2NVX A;  3K5L A;  4FGU A;  3GTM A;  3LRD A;  4FYD A;  1ISE A;  1YNJ D;  5G2S A;  2WB1 A;  2FIO A;  4L8I A;  4CEI A;  1ZYR D;  3K5M A;  2LYI A;  2WAQ A;  2X0P A;  1R5Z A;  3LR2 A;  1Q8I A;  1A36 A;  2LKM B;  1A31 A;  2K3O A;  1HQM D;  3FKI A;  3MAQ A;  1UZ5 A;  1WQH A;  2E2I A;  2NQK A;  2B9S B;  2AQL A;  3U44 A;  2F5J A;  2K3N A;  2FIP A;  3GTO A;  2F4Q A;  4OYD B;  1T3E A;  2A69 D;  4H3T A;  5ERS A;  1GE9 A;  3H0G A;  1TWF A;  4O26 A;  1XI8 A;  4CEJ A;  2A6E D;  3K5N A;  4AYB A;  2YU9 A;  1G8R A;  3HKZ A;  3IAY A;  3K57 A;  4PD1 A;  4CEH A;  2X3L A;  2NRO A;  3GTK A;  3GTQ A;  4FXD A;  5JSB B; 
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similar chains in the Genus database (?% sequence similarity)
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similar chains in the pdb database (?% sequence similarity)

 
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