1TWAL

Rna polymerase ii complexed with atp
Total Genus 0
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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
0
sequence length
46
structure length
46
Chain Sequence
ATLKYICAECSSKLSLSRTDAVRCKDCGHRILLKARTKRLVQFEAR

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 largest subunit
publication title Structural basis of transcription: nucleotide selection by rotation in the RNA polymerase II active center.
pubmed doi rcsb
molecule tags Transcription
structure length 46
sequence length 46
ec nomenclature
pdb deposition date 2004-06-30

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 1twaL00
2NVYL 1Y1WL 3HOXL 3GTLL 3RZDL 2NVTL 5IP7L 3I4NL 2WAQP 3H0GL 4A93L 4A3FL 2VUML 5M5WL 1TWFL 4BBRL 2JA5L 3CQZL 5FLML 2E2IL 3GTKL 3HOYL 3PO3L 4A3LL 5C44L 2NVQL 3S1QL 3M3YL 2JA7L 1WCML 5M3ML 5M3FL 4A3BL 1I3QL 4BY7L 3GTGL 3GTML 4C3JL 1K83L 4A3ML 5IYCL 2E2JL 1TWHL 1I6HL 2R92L 2WB1P 3HOWL 4C2M1 3RZOL 4X6AL 2R93L 3S17L 4AYBP 3FKIL 3HOVL 2Y0SP 4A3JL 3GTQL 5M5XL 3HKZP 2JA8L 3S2DL 5C4XL 3PO2L 4A3KL 2JA6L 4C3IL 5M5YL 3H3VM 4BBSL 4A3GL 3S1NL 5IYBL 2YU9L 4A3IL 1SFOL 1I50L 4A3EL 4Y7NL 2NVXL 3S1RL 5FJ8L 3GTPL 3HOUL 5C4JL 3S1ML 3M4OL 1TWGL 3K7AL 1TWCL 5IP9L 2B63L 1R9TL 2R7ZL 3GTOL 3I4ML 4BXXL 5C3EL 4A3DL 4C3HL 4QIWP 2PMZP 4BY1L 3S15L 4Y52L 1Y1VL 1TWAL 3S16L 2E2HL 3S14L 5IYDL 3GTJL 4A3CL 3S2HL 3HOZL
chains in the Genus database with same CATH superfamily
1YK4A 3HOXL 1BFYA 2CKCA 1RYTA 2WAQP 2VUML 1C09A 4AR5A 4BBRL 1VZGA 2PVEA 2V3BB 3S1QL 1ZRPA 3H9CA 3RZTA 5M3FL 4BY7L 3GTGL 1K83L 1PFVA 1R0HA 2RDVA 2E2JL 1NXEA 1I6HL 1T9OA 2M6PA 2CR8A 2B5ID 4B8CD 7RXNA 1RWDA 1PFYA 3S17L 1QQTA 3HOVL 3HJYB 1H7VA 2M4YA 3KYXA 4AI3A 5EIOC 5H1Sc 3PO2L 2JA6L 1T9PA 1PFUA 3H3VM 1PFWA 2AYJA 1NNQA 2BE5D 4TPUA 2KKDA 1B71A 2ERSA 4AHWA 1PZXA 4G6BA 4A3EL 3S1RL 1DX8A 5GADc 1RYQA 1R0IA 4K9FA 2V0EA 5AI3A 1Z92B 3K7AL 2RFKB 2R7ZL 1YV1A 1YK5A 4A3DL 2K2DA 2PMZP 3S15L 3S16L 2AUSB 1JYBA 2E2HL 1SMUA 3IU3I 3LWRB 3GTJL 4A3CL 3S2HL 4AR3A 1BQ8A 2A6ED 5JVG1 5GAEc 1T9QA 4ZN3B 1RDVA 3PZAA 1TWFL 4A3LL 2E2IL 3PO3L 2DSXA 4ME3A 2PSMC 1WCML 3LWPB 2XJUA 1WJVA 3QQCE 4JADA 2WB1P 1LKMA 2XJSA 1R0GA 5AN9H 2QL0A 1FHHA 3VPBE 4JAFA 2LCQA 3GTQL 4AHXA 3LWQB 4JAEA 3J7Y1 5M5YL 1QCVA 3S1NL 2PPTA 5RXNA 4RXNA 5GAHc 1VZHA 4Y7NL 2C6AA 4WFN1 1LKOA 2L0ZA 1BRFA 3B08B 3GTPL 1E8JA 5C4JL 4V196 1ODHA 3M4OL 1B13A 1VCXA 3QVDA 1DVBA 1BQ9A 2VL6A 3H99A 2Z3RB 5IP9L 4POFA 1R9TL 2XJVA 3I4ML 2V0FA 2JI2A 2J9UB 5C3EL 3RZ6A 4C3HL 1Y1VL 3K35A 2HVYC 2NVYL 3WWLA 5MF6A 1OWCA 4POGA 3NFPI 3RZDL 2NVTL 1YUXA 2NYDA 3H0GL 3LNLA 4A3FL 4AI1A 3B0AB 2JI3A 3GTKL 2JA5L 3CQZL 5FLML 5C44L 5K2ME 3M3YL 2O5JD 2JA7L 5M3ML 4A3BL 3GTML 2XJQA 4C3JL 4UY81 3HAXC 4A3ML 1R0FA 2R92L 5MGNA 3HOWL 4AR4A 2A68D 8RXNA 1B2JA 3H9BA 2XJPA 1P7PA 2EY4E 3A44A 4X6AL 2C6BA 2A6HD 2H12A 4YWMA 4U671 2Y0SP 4A3JL 2Z3QB 2JA8L 5C4XL 3ZG6A 2M4VA 1SMWA 1IU5A 5JVH1 4BBSL 4A3GL 4A3IL 3PKIA 3LPEB 2APOB 3J7Z1 3MPSA 1RB9A 3MSUA 5MFZA 4LHLA 3S1ML 4LHNA 3LWOB 3MQKB 1R0JA 3PL5A 2B63L 3KYYA 2HR5A 1LTLA 5EINC 3GTOL 1YUZA 2PVXA 4YWLA 1IROA 3SS2A 4Y52L 1NXGA 1TWAL 1CADA 2M6OA 5AI2A 3KYWA 3S14L 2PYAA 2GMGA 3RYGA 1Y1WL 2XJRA 2CKAA 4TVMA 4AHZA 3GTLL 3H97A 5IP7L 3I4NL 1S24A 3WWNB 4A93L 5M5WL 3JR7A 4E6YA 3HOYL 3HJWB 2NVQL 3PIP1 1I3QL 1QYBA 2XJTA 3KYUA 5IYCL 1TWHL 5MLC3 4AI0A 4C2M1 2AQCA 2JI1A 1LKPA 3RZOL 1CAAA 4ZN1B 2R93L 4AYBP 2KN9A 3FKIL 3P2AA 5M5XL 3HKZP 3S2DL 4A3KL 4C3IL 3KYVA 4GS7D 5IY0A 5IYBL 5DM61 2YU9L 3PIO1 4JAGA 3P8BA 2MS3A 4AI2A 1B2OA 4AHYA 1SFOL 1VZIA 1I50L 2NVXL 4AR6A 1F4LA 1S30A 1BE7A 5GAGc 5FJ8L 3HOUL 1IRNA 1TWGL 3LWVB 1IW7D 1RDGA 5DM71 1TWCL 1SMMA 3PKJA 5MFPA 2A69D 1OWBA 4BXXL 3PWFA 2ERJA 4XXBB 4QIWP 4XGHA 4BY1L 6RXNA 2ZIXA 1S2ZA 3FDJA 5IYDL 1IU6A 1FHMA 3HOZL
chains in the Genus database with same CATH topology
2NVYL 1Y1WL 3HOXL 3GTLL 3RZDL 2NVTL 5IP7L 3I4NL 2WAQP 3H0GL 4A93L 4A3FL 2VUML 5M5WL 1TWFL 4BBRL 2JA5L 3CQZL 5FLML 2E2IL 3GTKL 3HOYL 3PO3L 4A3LL 5C44L 2NVQL 3S1QL 3M3YL 2JA7L 1WCML 5M3ML 5M3FL 4A3BL 1I3QL 4BY7L 3GTGL 3GTML 4C3JL 1K83L 4A3ML 5IYCL 2E2JL 1TWHL 1I6HL 2R92L 2WB1P 3HOWL 4C2M1 3RZOL 4X6AL 2R93L 3S17L 4AYBP 3FKIL 3HOVL 2Y0SP 4A3JL 3GTQL 5M5XL 3HKZP 2JA8L 3S2DL 5C4XL 3PO2L 4A3KL 2JA6L 4C3IL 5M5YL 3H3VM 4BBSL 4A3GL 3S1NL 5IYBL 2YU9L 4A3IL 1SFOL 1I50L 4A3EL 4Y7NL 2NVXL 3S1RL 5FJ8L 3GTPL 3HOUL 5C4JL 3S1ML 3M4OL 1TWGL 3K7AL 1TWCL 5IP9L 2B63L 1R9TL 2R7ZL 3GTOL 3I4ML 4BXXL 5C3EL 4A3DL 4C3HL 4QIWP 2PMZP 4BY1L 3S15L 4Y52L 1Y1VL 1TWAL 3S16L 2E2HL 3S14L 5IYDL 3GTJL 4A3CL 3S2HL 3HOZL
chains in the Genus database with same CATH homology


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