1I3QL

Rna polymerase ii crystal form i at 3.1 a resolution
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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publication title Structural basis of transcription: RNA polymerase II at 2.8 angstrom resolution.
pubmed doi rcsb
molecule tags Transcription
molecule keywords DNA-DIRECTED RNA POLYMERASE II LARGEST SUBUNIT
structure length 46
sequence length 46
ec nomenclature
pdb deposition date 2001-02-15

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 1i3qL00
3H0GL 3RZDL 3GTQL 2NVTL 3S2HL 1WCML 4A3EL 5IYDL 2WAQP 3GTJL 2R92L 2JA5L 1K83L 5M5XL 4C2M1 3I4NL 5M3ML 2B63L 1I6HL 2R7ZL 1TWAL 3GTLL 3GTPL 5IYBL 3HOYL 4A3FL 2PMZP 3S14L 4BXXL 3PO2L 5C44L 2JA7L 4C3JL 5FJ8L 2NVQL 4AYBP 2E2IL 3S2DL 3S1NL 2Y0SP 5M3FL 3M3YL 3S16L 5C4JL 5C4XL 4BBSL 4BY7L 1TWFL 2NVYL 3HOZL 5M5YL 1Y1VL 4Y52L 3HOWL 3S1RL 5C3EL 4BBRL 4A3DL 5IP7L 3RZOL 3GTOL 2YU9L 4A3JL 1SFOL 3GTML 4A3ML 3HOVL 2E2JL 3S17L 3S1ML 4A3LL 3FKIL 4A93L 2WB1P 4A3GL 1TWCL 5FLML 4A3IL 1TWGL 3CQZL 2JA8L 4X6AL 1R9TL 2E2HL 4A3KL 5IYCL 4QIWP 3HKZP 2VUML 3PO3L 2NVXL 1TWHL 4BY1L 1Y1WL 3GTKL 3S1QL 2JA6L 3I4ML 2R93L 4C3HL 3M4OL 5IP9L 3HOUL 3H3VM 3GTGL 5M5WL 1I50L 3S15L 4A3CL 1I3QL 4C3IL 3HOXL 3K7AL 4Y7NL 4A3BL
chains in the Genus database with same CATH superfamily
3H0GL 4U671 1QCVA 1WCML 7RXNA 5IYDL 4B8CD 2WAQP 5MFZA 2CR8A 2GMGA 2R92L 1K83L 5MFPA 4C2M1 1I6HL 1TWAL 2CKCA 3GTPL 2PSMC 3HOYL 1CAAA 1QQTA 3FDJA 4LHLA 1S2ZA 2L0ZA 4AYBP 3S2DL 3LWRB 4AR4A 2RDVA 3B0AB 3P8BA 3PIO1 5RXNA 3PL5A 1R0GA 1Y1VL 3S1RL 2JI1A 2ERJA 3LWPB 1BE7A 3GTOL 1E8JA 2LCQA 2V0EA 4A3JL 5AI2A 2AYJA 3RZ6A 8RXNA 2XJUA 3MPSA 1R0JA 5GAEc 3S1ML 2WB1P 1S24A 3CQZL 3KYYA 1YUXA 1YK5A 2H12A 5IYCL 1R0HA 5GAGc 3PO3L 2C6AA 1TWHL 1Y1WL 3GTKL 2JA6L 3I4ML 2HVYC 2M6PA 3LPEB 4C3HL 1IU6A 3HOUL 1B71A 3H3VM 2XJPA 2KN9A 2C6BA 4AI3A 5EIOC 4RXNA 2PVXA 5H1Sc 2JA5L 2PPTA 3K35A 2J9UB 5M3ML 3WWLA 4AI2A 2R7ZL 2XJQA 1WJVA 4AHWA 2APOB 2A6HD 3KYVA 1YK4A 4A3FL 2PMZP 1ZRPA 3S14L 4BXXL 3PO2L 2JA7L 2Z3QB 3H9BA 2NVQL 3S1NL 5M3FL 4XXBB 1B2OA 3S16L 5C4XL 1RYQA 4BY7L 3WWNB 1H7VA 1SMMA 1ODHA 4XGHA 3RZOL 1SMUA 5MLC3 3IU3I 5K2ME 5DM61 3HOVL 1JYBA 4A3LL 3FKIL 3VPBE 1TWCL 5FLML 4A3IL 1TWGL 1NNQA 4X6AL 1R9TL 2A69D 4AR6A 5JVH1 3LWOB 5GADc 4ZN1B 3HKZP 2K2DA 1FHMA 1PZXA 1LKPA 1IU5A 2JI2A 4UY81 4TPUA 1F4LA 1OWCA 2KKDA 3MQKB 3KYUA 5IP9L 4POGA 1IROA 5M5WL 1I50L 3S15L 4A3CL 3H99A 1YV1A 1LTLA 4AHXA 1RDVA 1PFUA 3KYXA 3RZDL 3PWFA 2NVTL 1T9OA 2NYDA 3PKIA 2QL0A 3J7Y1 2XJRA 1DVBA 5M5XL 3B08B 2XJVA 2V0FA 3GTLL 3LWVB 1CADA 5IYBL 5GAHc 4JAFA 2JI3A 3MSUA 3PZAA 2PYAA 4ME3A 4JAEA 5C44L 1FHHA 1VZGA 1PFWA 5FJ8L 2Y0SP 1BQ8A 3H9CA 5DM71 3M3YL 1BQ9A 1T9PA 5C4JL 1C09A 2RFKB 4AR3A 4BBSL 1TWFL 4ZN3B 1RYTA 5M5YL 4Y52L 5JVG1 3HOWL 2CKAA 3JR7A 4BBRL 5EINC 5IP7L 2M6OA 3NFPI 4GS7D 1SFOL 2A68D 4K9FA 3H97A 4A3ML 2E2JL 2EY4E 3S17L 4YWLA 1RWDA 1SMWA 3HAXC 1S30A 2HR5A 2JA8L 2E2HL 2AUSB 4QIWP 4AR5A 5IY0A 4POFA 1P7PA 3S1QL 1VZHA 2R93L 5MF6A 1YUZA 3HJYB 3M4OL 1VZIA 4AI0A 6RXNA 1OWBA 3RZTA 4YWMA 1BFYA 2A6ED 4C3IL 3HOXL 2ZIXA 4Y7NL 5AI3A 3RYGA 3QQCE 1IW7D 3P2AA 3GTQL 1IRNA 3S2HL 4A3EL 1B2JA 4AHZA 3GTJL 4TVMA 1BRFA 3I4NL 2V3BB 2B63L 2AQCA 1Z92B 2MS3A 3A44A 1QYBA 2Z3RB 4C3JL 3KYWA 2E2IL 4AI1A 2B5ID 2XJTA 1B13A 4V196 3QVDA 2BE5D 2M4VA 2NVYL 3HOZL 5C3EL 1DX8A 4A3DL 2DSXA 5MGNA 1VCXA 1LKMA 1PFYA 2YU9L 3GTML 1NXEA 4LHNA 1NXGA 4A93L 4A3GL 4AHYA 1R0IA 2ERSA 2XJSA 4A3KL 1R0FA 3LWQB 2VUML 1PFVA 4JAGA 2VL6A 4E6YA 4JADA 2NVXL 4BY1L 3SS2A 1LKOA 1RDGA 1T9QA 3HJWB 3GTGL 2M4YA 3PKJA 1I3QL 3ZG6A 5AN9H 2O5JD 1RB9A 2PVEA 4G6BA 4WFN1 3K7AL 3LNLA 3J7Z1 4A3BL 3PIP1
chains in the Genus database with same CATH topology
3H0GL 3RZDL 3GTQL 2NVTL 3S2HL 1WCML 4A3EL 5IYDL 2WAQP 3GTJL 2R92L 2JA5L 1K83L 5M5XL 4C2M1 3I4NL 5M3ML 2B63L 1I6HL 2R7ZL 1TWAL 3GTLL 3GTPL 5IYBL 3HOYL 4A3FL 2PMZP 3S14L 4BXXL 3PO2L 5C44L 2JA7L 4C3JL 5FJ8L 2NVQL 4AYBP 2E2IL 3S2DL 3S1NL 2Y0SP 5M3FL 3M3YL 3S16L 5C4JL 5C4XL 4BBSL 4BY7L 1TWFL 2NVYL 3HOZL 5M5YL 1Y1VL 4Y52L 3HOWL 3S1RL 5C3EL 4BBRL 4A3DL 5IP7L 3RZOL 3GTOL 2YU9L 4A3JL 1SFOL 3GTML 4A3ML 3HOVL 2E2JL 3S17L 3S1ML 4A3LL 3FKIL 4A93L 2WB1P 4A3GL 1TWCL 5FLML 4A3IL 1TWGL 3CQZL 2JA8L 4X6AL 1R9TL 2E2HL 4A3KL 5IYCL 4QIWP 3HKZP 2VUML 3PO3L 2NVXL 1TWHL 4BY1L 1Y1WL 3GTKL 3S1QL 2JA6L 3I4ML 2R93L 4C3HL 3M4OL 5IP9L 3HOUL 3H3VM 3GTGL 5M5WL 1I50L 3S15L 4A3CL 1I3QL 4C3IL 3HOXL 3K7AL 4Y7NL 4A3BL
chains in the Genus database with same CATH homology


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