1TWHL

Rna polymerase ii complexed with 2'datp
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 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
total genus 1
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 1twhL00
4A3CL 3H3VM 3S16L 5C4JL 2JA6L 3HOZL 3H0GL 4C3IL 4AYBP 5IP7L 1TWCL 2JA8L 3HOXL 4QIWP 5C3EL 2JA7L 3S1ML 5IYDL 1SFOL 4A3FL 3GTML 2B63L 2R93L 3HOUL 1I6HL 4A3BL 4BXXL 3GTLL 3HKZP 5M5XL 2E2HL 4BY1L 3S14L 4A3LL 1TWAL 1TWGL 2NVTL 2WAQP 2E2JL 1TWFL 3S17L 3M4OL 4A93L 1R9TL 4BY7L 5IYCL 2PMZP 3HOWL 5IP9L 3PO2L 2YU9L 5M5WL 3I4NL 2JA5L 4A3KL 2NVYL 3GTPL 4C3JL 3S1NL 5FLML 5M3FL 4A3DL 3GTQL 3HOYL 4A3EL 2R92L 3GTOL 1Y1WL 3M3YL 4BBSL 3S2DL 4A3ML 3HOVL 3CQZL 1Y1VL 5C4XL 1K83L 3K7AL 2WB1P 2Y0SP 5FJ8L 3GTGL 1WCML 4Y7NL 2NVQL 3S1QL 3FKIL 3S15L 3RZOL 3GTKL 3PO3L 2E2IL 5IYBL 5M3ML 1I3QL 4A3JL 3RZDL 4A3GL 1I50L 4C3HL 4C2M1 1TWHL 5M5YL 3S1RL 4X6AL 4BBRL 2R7ZL 2NVXL 3S2HL 4A3IL 2VUML 3I4ML 5C44L 4Y52L 3GTJL
chains in the Genus database with same CATH superfamily
1LKMA 5K2ME 2JI2A 2C6BA 5DM71 2JA6L 1CAAA 3H0GL 1BQ8A 4XGHA 5GADc 5JVH1 3VPBE 1BQ9A 3PL5A 5IYDL 1LKOA 3GTML 3HOUL 1BRFA 1I6HL 4BXXL 3K35A 3GTLL 5RXNA 3HKZP 1QQTA 1FHHA 1R0HA 1H7VA 5MF6A 2NVTL 3QQCE 4WFN1 2WAQP 2E2JL 1TWFL 2A68D 1R9TL 3MPSA 1ZRPA 5GAEc 4AHZA 3PZAA 3RZ6A 1ODHA 5AI2A 1OWBA 1T9OA 5IP9L 2YU9L 2V0EA 5M5WL 4A3KL 1OWCA 1IU6A 3WWLA 3GTPL 3JR7A 3HOYL 2XJPA 3LWQB 3M3YL 4YWLA 3HOVL 1PFYA 5C4XL 2M6OA 1K83L 3PIP1 3K7AL 4B8CD 2C6AA 1DX8A 3PO3L 2AUSB 4A3GL 2XJSA 2HVYC 2RDVA 1S30A 5M5YL 3KYYA 4BBRL 5JVG1 3PKJA 2NVXL 3S2HL 2PYAA 3HJYB 4AHWA 1YK4A 3H3VM 3LWPB 5C4JL 5AN9H 4AYBP 4JAEA 1TWCL 2ERJA 1B2OA 1E8JA 1B2JA 4POGA 2ZIXA 1PFWA 1Z92B 4AR4A 2M4YA 3PIO1 2B63L 2R93L 2NYDA 4A3BL 5GAHc 1RB9A 5EIOC 5MFZA 2XJTA 3A44A 2A69D 1TWAL 2M4VA 3S17L 3M4OL 1R0IA 2CKCA 3J7Z1 5IYCL 1T9QA 1CADA 2K2DA 1RWDA 2JA5L 1PZXA 8RXNA 3LWVB 2LCQA 3GTQL 2HR5A 3WWNB 4A3EL 2R92L 3GTOL 4POFA 4BBSL 1IW7D 3PWFA 2L0ZA 1RYTA 1Y1VL 1FHMA 3RZTA 2NVQL 3LWRB 3S15L 5H1Sc 2AYJA 5MFPA 2MS3A 3LNLA 1SMWA 4UY81 4C2M1 4AR3A 3B08B 2R7ZL 1B71A 1F4LA 1WJVA 1VZGA 3I4ML 3MSUA 1YK5A 4A3CL 4AI1A 3HOZL 4TVMA 4C3IL 1IU5A 1BFYA 2H12A 2PPTA 5AI3A 2JA8L 3HOXL 1R0FA 3GTJL 1RDGA 5DM61 5C3EL 3KYUA 5EINC 2V0FA 3S1ML 4GS7D 4A3FL 1SFOL 1SMMA 2XJRA 5M5XL 1S24A 2E2HL 1YUZA 2RFKB 4BY1L 5MGNA 2Z3RB 1YUXA 4A3LL 4YWMA 2CR8A 4V196 2APOB 4A93L 2ERSA 4TPUA 6RXNA 2PMZP 2A6ED 3HOWL 3PO2L 3ZG6A 1PFVA 3I4NL 5MLC3 3NFPI 2NVYL 2Z3QB 4C3JL 1QYBA 4A3DL 2PVXA 5IY0A 2PSMC 1NXEA 1RYQA 7RXNA 1Y1WL 2PVEA 1PFUA 3S2DL 4A3ML 4LHLA 4JADA 2Y0SP 1WCML 1IROA 4JAGA 3FKIL 4AI2A 3RZOL 5IYBL 4ZN3B 1I3QL 4A3JL 1I50L 3P2AA 3S1RL 3H9CA 2QL0A 2M6PA 3KYVA 2XJVA 3HAXC 4ME3A 4G6BA 4XXBB 2GMGA 1QCVA 4Y52L 4AR5A 3PKIA 4JAFA 3S16L 1IRNA 3H9BA 1VZIA 5IP7L 3MQKB 3RYGA 4AI0A 4RXNA 3IU3I 2JA7L 4AI3A 2XJQA 2B5ID 2O5JD 1LTLA 3S14L 1TWGL 2JI1A 1T9PA 4K9FA 2KKDA 2XJUA 4BY7L 4ZN1B 1LKPA 1YV1A 2J9UB 1NNQA 3HJWB 3LPEB 1BE7A 4AR6A 3QVDA 3J7Y1 1P7PA 2VL6A 1R0JA 3S1NL 5FLML 5GAGc 5M3FL 1NXGA 3KYXA 2KN9A 1VZHA 4E6YA 1JYBA 3CQZL 1R0GA 2BE5D 1VCXA 2WB1P 5FJ8L 3GTGL 4Y7NL 4AHXA 3H97A 3S1QL 1S2ZA 3P8BA 3SS2A 2EY4E 3GTKL 2E2IL 1DVBA 1B13A 2AQCA 5M3ML 2A6HD 3B0AB 3KYWA 4AHYA 3RZDL 1SMUA 4C3HL 1TWHL 1C09A 2V3BB 4X6AL 4LHNA 1RDVA 2JI3A 4A3IL 2VUML 3LWOB 2DSXA 2CKAA 3H99A 3FDJA 5C44L 4U671 4QIWP
chains in the Genus database with same CATH topology
4A3CL 3H3VM 3S16L 5C4JL 2JA6L 3HOZL 3H0GL 4C3IL 4AYBP 5IP7L 1TWCL 2JA8L 3HOXL 4QIWP 5C3EL 2JA7L 3S1ML 5IYDL 1SFOL 4A3FL 3GTML 2B63L 2R93L 3HOUL 1I6HL 4A3BL 4BXXL 3GTLL 3HKZP 5M5XL 2E2HL 4BY1L 3S14L 4A3LL 1TWAL 1TWGL 2NVTL 2WAQP 2E2JL 1TWFL 3S17L 3M4OL 4A93L 1R9TL 4BY7L 5IYCL 2PMZP 3HOWL 5IP9L 3PO2L 2YU9L 5M5WL 3I4NL 2JA5L 4A3KL 2NVYL 3GTPL 4C3JL 3S1NL 5FLML 5M3FL 4A3DL 3GTQL 3HOYL 4A3EL 2R92L 3GTOL 1Y1WL 3M3YL 4BBSL 3S2DL 4A3ML 3HOVL 3CQZL 1Y1VL 5C4XL 1K83L 3K7AL 2WB1P 2Y0SP 5FJ8L 3GTGL 1WCML 4Y7NL 2NVQL 3S1QL 3FKIL 3S15L 3RZOL 3GTKL 3PO3L 2E2IL 5IYBL 5M3ML 1I3QL 4A3JL 3RZDL 4A3GL 1I50L 4C3HL 4C2M1 1TWHL 5M5YL 3S1RL 4X6AL 4BBRL 2R7ZL 2NVXL 3S2HL 4A3IL 2VUML 3I4ML 5C44L 4Y52L 3GTJL
chains in the Genus database with same CATH homology


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