3K7AL

Crystal structure of an rna polymerase ii-tfiib complex
Total Genus 1
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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
1
sequence length
46
structure length
46
Chain Sequence
ATLKYICAECSSKLSLSRTDAVRCKDCGHRILLKARTKRLVQFEAR
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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.

Chord Diagram
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molecule keywords DNA-directed RNA polymerase II subunit RPB1
publication title Structure of an RNA polymerase II-TFIIB complex and the transcription initiation mechanism.
pubmed doi rcsb
source organism Saccharomyces cerevisiae
molecule tags Transcription
total genus 1
structure length 46
sequence length 46
ec nomenclature
pdb deposition date 2009-10-12

pfam database annotations

chain Pfam Accession Code Pfam Family Identifier Pfam Description
L PF03604 DNA_RNApol_7kD DNA directed RNA polymerase, 7 kDa subunit
Image from the rcsb pdb (www.rcsb.org)
cath code
ClassArchitectureTopologyHomologyDomain
2.20.28.30 Mainly Beta Single Sheet Rubrerythrin, domain 2 RNA polymerase ii, chain L 3k7aL00
1K83L 3HOUL 3S1ML 4C3IL 3GTGL 5FLML 4A3EL 3M4OL 4BY7L 3S2HL 2JA5L 5M5XL 2JA8L 2WB1P 4C3HL 5C4XL 3GTOL 4A3LL 3PO2L 5FJ8L 5C3EL 3S1NL 3H3VM 2Y0SP 4X6AL 1TWFL 5M5YL 1I6HL 4A3FL 3GTLL 1WCML 3K7AL 5IYBL 2NVYL 4C3JL 4A3KL 4A93L 5IP7L 2NVXL 4A3CL 3I4ML 4A3IL 3S1RL 3S15L 3HOXL 3M3YL 1I50L 1I3QL 3GTML 2YU9L 3GTJL 4Y7NL 4Y52L 2R7ZL 5C4JL 2JA6L 2NVTL 4A3JL 3GTPL 3CQZL 4AYBP 1TWAL 3HOVL 5M3FL 3PO3L 3S1QL 5IYCL 4BXXL 5C44L 4BBSL 3S14L 2NVQL 2E2HL 4BBRL 3S16L 2E2IL 1SFOL 2E2JL 2JA7L 4A3DL 1Y1VL 3H0GL 3S2DL 4QIWP 5IP9L 4BY1L 2PMZP 2R93L 2VUML 3HKZP 4A3BL 3S17L 3HOYL 3I4NL 3RZOL 3GTQL 5M3ML 4A3GL 3HOWL 2R92L 3HOZL 4C2M1 3FKIL 1TWCL 3GTKL 3RZDL 1Y1WL 1TWGL 2WAQP 1R9TL 5M5WL 1TWHL 5IYDL 2B63L 4A3ML
chains in the Genus database with same CATH superfamily
3J7Y1 5FLML 4JAFA 4POGA 1T9PA 5IY0A 4C3HL 2DSXA 1LKPA 3JR7A 4ZN1B 1PFVA 4X6AL 5M5YL 4A3FL 2CKAA 1OWCA 2NVYL 3H9CA 4A3KL 3LPEB 1LTLA 3I4ML 4V196 1S2ZA 3P8BA 4GS7D 1I3QL 1YK5A 5EIOC 5MGNA 4Y52L 5C4JL 2QL0A 5DM71 3PWFA 3GTPL 2A69D 1TWAL 2KKDA 2V0FA 5M3FL 4TVMA 2XJQA 3S1QL 5RXNA 2B5ID 2ZIXA 4BXXL 3PL5A 3S14L 1VZGA 2M4VA 3VPBE 4BBRL 3RZTA 2A68D 4WFN1 3KYYA 1RYTA 1Y1VL 1T9QA 4YWLA 2R93L 1OWBA 2PSMC 3HKZP 3IU3I 3S17L 3RZOL 3HOWL 1B71A 2XJPA 2HR5A 1TWCL 2PVEA 2C6AA 2M6PA 4XGHA 2JI2A 1BQ9A 1PFUA 4AR3A 3PKJA 2M6OA 5IYDL 2KN9A 4A3ML 1Z92B 1IROA 4UY81 1B2JA 1H7VA 3KYXA 4A3EL 5AI2A 3PIP1 3M4OL 4BY7L 4A3LL 2O5JD 3SS2A 4JADA 1F4LA 4AHYA 3RZ6A 3H3VM 5K2ME 1WCML 1JYBA 3K7AL 1P7PA 4A93L 1NNQA 4JAEA 2EY4E 1R0GA 1RB9A 3H99A 3S15L 1B2OA 3M3YL 1RDGA 4AHWA 4Y7NL 2CR8A 2JI3A 1CAAA 2R7ZL 4K9FA 1SMMA 2ERJA 2NVTL 4A3JL 5AI3A 2AQCA 3CQZL 4AHXA 4AYBP 4B8CD 3HOVL 1VCXA 1PFWA 1VZIA 6RXNA 2MS3A 4G6BA 3WWNB 2NVQL 1FHHA 3H97A 2AUSB 4AI1A 2JA7L 3S2DL 1ODHA 2Z3RB 2NYDA 5MFZA 4BY1L 2PMZP 3WWLA 3LWPB 1YK4A 1RWDA 3HOYL 2AYJA 2JI1A 5MLC3 4C2M1 1WJVA 4JAGA 1R0HA 1R9TL 5M5WL 4AI0A 2XJTA 4LHLA 2XJVA 2ERSA 8RXNA 3HOUL 4POFA 2H12A 1E8JA 1ZRPA 5GAEc 1QQTA 3HJWB 3A44A 2RDVA 3S2HL 5M5XL 2JA8L 2PYAA 5C4XL 3PO2L 2K2DA 1IU5A 3PIO1 3KYUA 5C3EL 3S1NL 5GAHc 5GADc 3GTLL 5IYBL 2A6ED 2NVXL 4A3CL 5DM61 4A3IL 2XJSA 1T9OA 3HJYB 1QCVA 2YU9L 2LCQA 4RXNA 2JA6L 2XJRA 3LWRB 1CADA 1RYQA 4ME3A 1NXGA 4AI2A 2A6HD 1QYBA 4BBSL 1LKMA 2VL6A 1B13A 2V3BB 1BQ8A 1BE7A 2E2HL 4AR6A 3ZG6A 2L0ZA 1SFOL 3LWVB 3QVDA 5IP9L 2VUML 1R0JA 3H9BA 3I4NL 2HVYC 5M3ML 4A3GL 1IW7D 3GTKL 3J7Z1 3RZDL 3B08B 1Y1WL 1TWGL 2WAQP 5JVG1 4E6YA 3HAXC 1R0IA 2B63L 3B0AB 1K83L 1BRFA 3S1ML 4C3IL 3GTGL 3LNLA 1S30A 3MPSA 3RYGA 5H1Sc 1NXEA 1S24A 2JA5L 2WB1P 3PZAA 1VZHA 1IRNA 2Z3QB 3GTOL 2J9UB 4TPUA 5FJ8L 1PFYA 4AI3A 2Y0SP 1TWFL 1PZXA 1I6HL 4C3JL 4AHZA 5IP7L 2PVXA 1BFYA 3S1RL 2BE5D 3HOXL 3NFPI 1I50L 3GTML 3GTJL 3K35A 3QQCE 1SMUA 1LKOA 2GMGA 3LWQB 1R0FA 3PKIA 5MF6A 3PO3L 4XXBB 1YV1A 5IYCL 3KYWA 1FHMA 5C44L 4AR5A 4YWMA 3FDJA 1DX8A 4LHNA 5JVH1 3MSUA 3S16L 2APOB 2E2IL 2E2JL 1SMWA 5EINC 4A3DL 3H0GL 4QIWP 3KYVA 2C6BA 5GAGc 4A3BL 1DVBA 2M4YA 5MFPA 5AN9H 3GTQL 2PPTA 2R92L 3HOZL 3FKIL 1C09A 1YUXA 2CKCA 1IU6A 1RDVA 3MQKB 7RXNA 4ZN3B 3P2AA 4AR4A 4U671 2V0EA 3LWOB 1TWHL 2RFKB 2XJUA 1YUZA
chains in the Genus database with same CATH topology
1K83L 3HOUL 3S1ML 4C3IL 3GTGL 5FLML 4A3EL 3M4OL 4BY7L 3S2HL 2JA5L 5M5XL 2JA8L 2WB1P 4C3HL 5C4XL 3GTOL 4A3LL 3PO2L 5FJ8L 5C3EL 3S1NL 3H3VM 2Y0SP 4X6AL 1TWFL 5M5YL 1I6HL 4A3FL 3GTLL 1WCML 3K7AL 5IYBL 2NVYL 4C3JL 4A3KL 4A93L 5IP7L 2NVXL 4A3CL 3I4ML 4A3IL 3S1RL 3S15L 3HOXL 3M3YL 1I50L 1I3QL 3GTML 2YU9L 3GTJL 4Y7NL 4Y52L 2R7ZL 5C4JL 2JA6L 2NVTL 4A3JL 3GTPL 3CQZL 4AYBP 1TWAL 3HOVL 5M3FL 3PO3L 3S1QL 5IYCL 4BXXL 5C44L 4BBSL 3S14L 2NVQL 2E2HL 4BBRL 3S16L 2E2IL 1SFOL 2E2JL 2JA7L 4A3DL 1Y1VL 3H0GL 3S2DL 4QIWP 5IP9L 4BY1L 2PMZP 2R93L 2VUML 3HKZP 4A3BL 3S17L 3HOYL 3I4NL 3RZOL 3GTQL 5M3ML 4A3GL 3HOWL 2R92L 3HOZL 4C2M1 3FKIL 1TWCL 3GTKL 3RZDL 1Y1WL 1TWGL 2WAQP 1R9TL 5M5WL 1TWHL 5IYDL 2B63L 4A3ML
chains in the Genus database with same CATH homology


 
#chains in the Genus database with same CATH superfamily
 1K83 L;  3HOU L;  3S1M L;  4C3I L;  3GTG L;  5FLM L;  4A3E L;  3M4O L;  4BY7 L;  3S2H L;  2JA5 L;  5M5X L;  2JA8 L;  2WB1 P;  4C3H L;  5C4X L;  3GTO L;  4A3L L;  3PO2 L;  5FJ8 L;  5C3E L;  3S1N L;  3H3V M;  2Y0S P;  4X6A L;  1TWF L;  5M5Y L;  1I6H L;  4A3F L;  3GTL L;  1WCM L;  3K7A L;  5IYB L;  2NVY L;  4C3J L;  4A3K L;  4A93 L;  5IP7 L;  2NVX L;  4A3C L;  3I4M L;  4A3I L;  3S1R L;  3S15 L;  3HOX L;  3M3Y L;  1I50 L;  1I3Q L;  3GTM L;  2YU9 L;  3GTJ L;  4Y7N L;  4Y52 L;  2R7Z L;  5C4J L;  2JA6 L;  2NVT L;  4A3J L;  3GTP L;  3CQZ L;  4AYB P;  1TWA L;  3HOV L;  5M3F L;  3PO3 L;  3S1Q L;  5IYC L;  4BXX L;  5C44 L;  4BBS L;  3S14 L;  2NVQ L;  2E2H L;  4BBR L;  3S16 L;  2E2I L;  1SFO L;  2E2J L;  2JA7 L;  4A3D L;  1Y1V L;  3H0G L;  3S2D L;  4QIW P;  5IP9 L;  4BY1 L;  2PMZ P;  2R93 L;  2VUM L;  3HKZ P;  4A3B L;  3S17 L;  3HOY L;  3I4N L;  3RZO L;  3GTQ L;  5M3M L;  4A3G L;  3HOW L;  2R92 L;  3HOZ L;  4C2M 1;  3FKI L;  1TWC L;  3GTK L;  3RZD L;  1Y1W L;  1TWG L;  2WAQ P;  1R9T L;  5M5W L;  1TWH L;  5IYD L;  2B63 L;  4A3M L; 
#chains in the Genus database with same CATH topology
 3J7Y 1;  5FLM L;  4JAF A;  4POG A;  1T9P A;  5IY0 A;  4C3H L;  2DSX A;  1LKP A;  3JR7 A;  4ZN1 B;  1PFV A;  4X6A L;  5M5Y L;  4A3F L;  2CKA A;  1OWC A;  2NVY L;  3H9C A;  4A3K L;  3LPE B;  1LTL A;  3I4M L;  4V19 6;  1S2Z A;  3P8B A;  4GS7 D;  1I3Q L;  1YK5 A;  5EIO C;  5MGN A;  4Y52 L;  5C4J L;  2QL0 A;  5DM7 1;  3PWF A;  3GTP L;  2A69 D;  1TWA L;  2KKD A;  2V0F A;  5M3F L;  4TVM A;  2XJQ A;  3S1Q L;  5RXN A;  2B5I D;  2ZIX A;  4BXX L;  3PL5 A;  3S14 L;  1VZG A;  2M4V A;  3VPB E;  4BBR L;  3RZT A;  2A68 D;  4WFN 1;  3KYY A;  1RYT A;  1Y1V L;  1T9Q A;  4YWL A;  2R93 L;  1OWB A;  2PSM C;  3HKZ P;  3IU3 I;  3S17 L;  3RZO L;  3HOW L;  1B71 A;  2XJP A;  2HR5 A;  1TWC L;  2PVE A;  2C6A A;  2M6P A;  4XGH A;  2JI2 A;  1BQ9 A;  1PFU A;  4AR3 A;  3PKJ A;  2M6O A;  5IYD L;  2KN9 A;  4A3M L;  1Z92 B;  1IRO A;  4UY8 1;  1B2J A;  1H7V A;  3KYX A;  4A3E L;  5AI2 A;  3PIP 1;  3M4O L;  4BY7 L;  4A3L L;  2O5J D;  3SS2 A;  4JAD A;  1F4L A;  4AHY A;  3RZ6 A;  3H3V M;  5K2M E;  1WCM L;  1JYB A;  3K7A L;  1P7P A;  4A93 L;  1NNQ A;  4JAE A;  2EY4 E;  1R0G A;  1RB9 A;  3H99 A;  3S15 L;  1B2O A;  3M3Y L;  1RDG A;  4AHW A;  4Y7N L;  2CR8 A;  2JI3 A;  1CAA A;  2R7Z L;  4K9F A;  1SMM A;  2ERJ A;  2NVT L;  4A3J L;  5AI3 A;  2AQC A;  3CQZ L;  4AHX A;  4AYB P;  4B8C D;  3HOV L;  1VCX A;  1PFW A;  1VZI A;  6RXN A;  2MS3 A;  4G6B A;  3WWN B;  2NVQ L;  1FHH A;  3H97 A;  2AUS B;  4AI1 A;  2JA7 L;  3S2D L;  1ODH A;  2Z3R B;  2NYD A;  5MFZ A;  4BY1 L;  2PMZ P;  3WWL A;  3LWP B;  1YK4 A;  1RWD A;  3HOY L;  2AYJ A;  2JI1 A;  5MLC 3;  4C2M 1;  1WJV A;  4JAG A;  1R0H A;  1R9T L;  5M5W L;  4AI0 A;  2XJT A;  4LHL A;  2XJV A;  2ERS A;  8RXN A;  3HOU L;  4POF A;  2H12 A;  1E8J A;  1ZRP A;  5GAE c;  1QQT A;  3HJW B;  3A44 A;  2RDV A;  3S2H L;  5M5X L;  2JA8 L;  2PYA A;  5C4X L;  3PO2 L;  2K2D A;  1IU5 A;  3PIO 1;  3KYU A;  5C3E L;  3S1N L;  5GAH c;  5GAD c;  3GTL L;  5IYB L;  2A6E D;  2NVX L;  4A3C L;  5DM6 1;  4A3I L;  2XJS A;  1T9O A;  3HJY B;  1QCV A;  2YU9 L;  2LCQ A;  4RXN A;  2JA6 L;  2XJR A;  3LWR B;  1CAD A;  1RYQ A;  4ME3 A;  1NXG A;  4AI2 A;  2A6H D;  1QYB A;  4BBS L;  1LKM A;  2VL6 A;  1B13 A;  2V3B B;  1BQ8 A;  1BE7 A;  2E2H L;  4AR6 A;  3ZG6 A;  2L0Z A;  1SFO L;  3LWV B;  3QVD A;  5IP9 L;  2VUM L;  1R0J A;  3H9B A;  3I4N L;  2HVY C;  5M3M L;  4A3G L;  1IW7 D;  3GTK L;  3J7Z 1;  3RZD L;  3B08 B;  1Y1W L;  1TWG L;  2WAQ P;  5JVG 1;  4E6Y A;  3HAX C;  1R0I A;  2B63 L;  3B0A B;  1K83 L;  1BRF A;  3S1M L;  4C3I L;  3GTG L;  3LNL A;  1S30 A;  3MPS A;  3RYG A;  5H1S c;  1NXE A;  1S24 A;  2JA5 L;  2WB1 P;  3PZA A;  1VZH A;  1IRN A;  2Z3Q B;  3GTO L;  2J9U B;  4TPU A;  5FJ8 L;  1PFY A;  4AI3 A;  2Y0S P;  1TWF L;  1PZX A;  1I6H L;  4C3J L;  4AHZ A;  5IP7 L;  2PVX A;  1BFY A;  3S1R L;  2BE5 D;  3HOX L;  3NFP I;  1I50 L;  3GTM L;  3GTJ L;  3K35 A;  3QQC E;  1SMU A;  1LKO A;  2GMG A;  3LWQ B;  1R0F A;  3PKI A;  5MF6 A;  3PO3 L;  4XXB B;  1YV1 A;  5IYC L;  3KYW A;  1FHM A;  5C44 L;  4AR5 A;  4YWM A;  3FDJ A;  1DX8 A;  4LHN A;  5JVH 1;  3MSU A;  3S16 L;  2APO B;  2E2I L;  2E2J L;  1SMW A;  5EIN C;  4A3D L;  3H0G L;  4QIW P;  3KYV A;  2C6B A;  5GAG c;  4A3B L;  1DVB A;  2M4Y A;  5MFP A;  5AN9 H;  3GTQ L;  2PPT A;  2R92 L;  3HOZ L;  3FKI L;  1C09 A;  1YUX A;  2CKC A;  1IU6 A;  1RDV A;  3MQK B;  7RXN A;  4ZN3 B;  3P2A A;  4AR4 A;  4U67 1;  2V0E A;  3LWO B;  1TWH L;  2RFK B;  2XJU A;  1YUZ A; 
#chains in the Genus database with same CATH homology
 1K83 L;  3HOU L;  3S1M L;  4C3I L;  3GTG L;  5FLM L;  4A3E L;  3M4O L;  4BY7 L;  3S2H L;  2JA5 L;  5M5X L;  2JA8 L;  2WB1 P;  4C3H L;  5C4X L;  3GTO L;  4A3L L;  3PO2 L;  5FJ8 L;  5C3E L;  3S1N L;  3H3V M;  2Y0S P;  4X6A L;  1TWF L;  5M5Y L;  1I6H L;  4A3F L;  3GTL L;  1WCM L;  3K7A L;  5IYB L;  2NVY L;  4C3J L;  4A3K L;  4A93 L;  5IP7 L;  2NVX L;  4A3C L;  3I4M L;  4A3I L;  3S1R L;  3S15 L;  3HOX L;  3M3Y L;  1I50 L;  1I3Q L;  3GTM L;  2YU9 L;  3GTJ L;  4Y7N L;  4Y52 L;  2R7Z L;  5C4J L;  2JA6 L;  2NVT L;  4A3J L;  3GTP L;  3CQZ L;  4AYB P;  1TWA L;  3HOV L;  5M3F L;  3PO3 L;  3S1Q L;  5IYC L;  4BXX L;  5C44 L;  4BBS L;  3S14 L;  2NVQ L;  2E2H L;  4BBR L;  3S16 L;  2E2I L;  1SFO L;  2E2J L;  2JA7 L;  4A3D L;  1Y1V L;  3H0G L;  3S2D L;  4QIW P;  5IP9 L;  4BY1 L;  2PMZ P;  2R93 L;  2VUM L;  3HKZ P;  4A3B L;  3S17 L;  3HOY L;  3I4N L;  3RZO L;  3GTQ L;  5M3M L;  4A3G L;  3HOW L;  2R92 L;  3HOZ L;  4C2M 1;  3FKI L;  1TWC L;  3GTK L;  3RZD L;  1Y1W L;  1TWG L;  2WAQ P;  1R9T L;  5M5W L;  1TWH L;  5IYD L;  2B63 L;  4A3M L; 
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similar chains in the Genus database (?% sequence similarity)
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similar chains in the pdb database (?% sequence similarity)

 
#similar chains in the Genus database (?% sequence similarity)
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#similar chains, but unknotted
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#similar chains in the pdb database (?% sequence similarity)
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