4X6AL

Crystal structure of yeast rna polymerase ii encountering oxidative cyclopurine dna lesions
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
b'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 Mechanism of RNA polymerase II bypass of oxidative cyclopurine DNA lesions.
pubmed doi rcsb
molecule tags Transcription/dna
total genus 1
structure length 46
sequence length 46
ec nomenclature
pdb deposition date 2014-12-07

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 4x6aL00
1K83L 3M3YL 2R93L 2NVTL 3HOVL 3GTOL 2PMZP 3FKIL 5M3FL 4A3CL 4A3FL 4A3KL 4BBSL 3HOZL 5FLML 2JA8L 3S15L 5FJ8L 4BY1L 4X6AL 5IYBL 3S17L 5M5YL 2WB1P 3S1NL 3GTLL 5IP9L 4A3LL 2E2JL 2VUML 4A3JL 3GTGL 3HKZP 1I3QL 5M3ML 5C4XL 1TWCL 5IYDL 3H0GL 1Y1WL 4A93L 4C2M1 4A3GL 4A3BL 1TWAL 3GTQL 3S16L 3S2DL 4A3ML 1WCML 1R9TL 3RZDL 1SFOL 2JA6L 4Y7NL 3M4OL 1I50L 4Y52L 3GTJL 3S2HL 5M5XL 5C3EL 2B63L 2YU9L 4A3IL 2R7ZL 3S1QL 2NVYL 4BY7L 3GTKL 2R92L 2JA5L 1TWGL 2NVXL 1Y1VL 3S14L 4QIWP 3RZOL 2E2IL 5M5WL 3I4NL 2Y0SP 3HOXL 3GTML 3PO3L 5IYCL 4BBRL 4A3DL 3HOYL 1TWFL 4AYBP 3S1RL 2NVQL 4C3HL 2WAQP 4C3JL 3HOUL 3HOWL 1TWHL 3H3VM 2E2HL 4BXXL 4C3IL 5IP7L 3I4ML 3S1ML 5C4JL 3K7AL 3CQZL 3PO2L 4A3EL 1I6HL 3GTPL 5C44L 2JA7L
chains in the Genus database with same CATH superfamily
2BE5D 2VL6A 1VCXA 1R0FA 2NVTL 2V3BB 2PMZP 3FKIL 5M3FL 3PWFA 1PZXA 3KYUA 3KYYA 1NXGA 1IW7D 2PSMC 1R0IA 4BY1L 1FHMA 4E6YA 8RXNA 1BQ8A 1BRFA 2CKCA 1FHHA 2VUML 5M3ML 1RWDA 1OWCA 1RYQA 1SMMA 3H0GL 5EINC 1S30A 4POGA 1Y1WL 7RXNA 4A93L 1YUZA 3ZG6A 4V196 2AYJA 3VPBE 5RXNA 1VZGA 1BFYA 3RZDL 2APOB 2AQCA 3J7Y1 4Y52L 2GMGA 2XJQA 4ZN3B 2Z3RB 5GADc 3SS2A 1LKPA 3GTKL 1E8JA 2PVXA 2C6AA 2ERSA 2NVXL 3LWVB 3PO3L 5EIOC 1IU6A 1B13A 1NXEA 1TWFL 4TVMA 4YWLA 6RXNA 3PL5A 4C3JL 1BE7A 4WFN1 4JAGA 4K9FA 1C09A 5IP7L 3S1ML 1PFWA 4AHYA 4UY81 3K7AL 4A3EL 1LKOA 3GTPL 2JA7L 5JVH1 2M6OA 2JI3A 2H12A 5MLC3 2CKAA 4BBSL 4XGHA 2JA8L 5MF6A 3HJWB 4X6AL 5GAGc 2V0FA 5IYBL 3S17L 3FDJA 5IP9L 3QVDA 4A3LL 4A3JL 3GTGL 2CR8A 2LCQA 1TWCL 2XJTA 3LWRB 1IRNA 3PZAA 4JAFA 4YWMA 5H1Sc 4A3GL 2XJSA 2KKDA 2RFKB 2M4VA 3S2DL 1WCML 5JVG1 2J9UB 2XJPA 2A6ED 2M4YA 3KYWA 1R9TL 1SFOL 2JA6L 4JADA 5AI2A 3S2HL 2B63L 2YU9L 4A3IL 5K2ME 1ZRPA 3S1QL 3K35A 2NVYL 1PFVA 4BY7L 2R92L 1JYBA 1TWGL 2JI1A 1LTLA 1LKMA 1Y1VL 3S14L 3LWOB 5M5WL 1R0GA 5IYCL 1CAAA 3S1RL 3B0AB 2NVQL 2KN9A 3HOUL 1T9OA 1TWHL 3H3VM 5C4JL 3J7Z1 1S2ZA 1R0JA 1QQTA 1H7VA 1BQ9A 3NFPI 1WJVA 1I6HL 5C44L 1K83L 3LWQB 3M3YL 2R93L 3HAXC 1T9QA 2A68D 3PKJA 3H97A 4ZN1B 3RZTA 3HOVL 3GTOL 1IU5A 4ME3A 4A3CL 4A3FL 3H99A 5AI3A 3HOZL 5GAEc 3S15L 5FJ8L 1RB9A 2ZIXA 2B5ID 5M5YL 4AR3A 1SMUA 1P7PA 4XXBB 2E2JL 4G6BA 3HKZP 1I3QL 2AUSB 2A6HD 1OWBA 1S24A 5C4XL 5IYDL 4AI3A 2NYDA 1TWAL 2EY4E 1ODHA 3P2AA 3GTQL 2M6PA 3S16L 4A3ML 1T9PA 1PFUA 3A44A 3WWLA 3KYXA 1YV1A 4Y7NL 5DM71 1RYTA 1I50L 4RXNA 5MFZA 3GTJL 5M5XL 3MPSA 2R7ZL 1YK4A 3JR7A 1CADA 2JA5L 5MFPA 3HJYB 1QYBA 2A69D 2Z3QB 2E2IL 3RZ6A 3I4NL 2Y0SP 3HOXL 3GTML 4BBRL 3RYGA 2O5JD 3H9CA 4AYBP 1VZHA 2HVYC 2WAQP 1R0HA 3LNLA 3HOWL 4AHXA 2E2HL 4POFA 3I4ML 2DSXA 3P8BA 4U671 3CQZL 5AN9H 5MGNA 2PYAA 1DVBA 4AI1A 4AHZA 1B2OA 2RDVA 5DM61 2PPTA 4A3KL 1YUXA 3WWNB 1RDVA 5FLML 3LWPB 2XJVA 3PIO1 2WB1P 3S1NL 3GTLL 4GS7D 1NNQA 2MS3A 4B8CD 1F4LA 4AR5A 1Z92B 1RDGA 4AI0A 1SMWA 2PVEA 2V0EA 4AR4A 4C2M1 4A3BL 3KYVA 4LHNA 1VZIA 3M4OL 4LHLA 3B08B 4JAEA 5C3EL 1IROA 3IU3I 4AI2A 3PKIA 1B71A 1QCVA 1DX8A 5IY0A 3PIP1 2K2DA 4QIWP 3RZOL 4AHWA 2QL0A 3LPEB 2HR5A 3QQCE 1PFYA 4A3DL 3HOYL 1B2JA 2ERJA 3H9BA 3MQKB 4C3HL 4BXXL 4C3IL 2C6BA 2JI2A 2XJUA 4AR6A 3PO2L 2L0ZA 3MSUA 5GAHc 4TPUA 2XJRA 1YK5A
chains in the Genus database with same CATH topology
1K83L 3M3YL 2R93L 2NVTL 3HOVL 3GTOL 2PMZP 3FKIL 5M3FL 4A3CL 4A3FL 4A3KL 4BBSL 3HOZL 5FLML 2JA8L 3S15L 5FJ8L 4BY1L 4X6AL 5IYBL 3S17L 5M5YL 2WB1P 3S1NL 3GTLL 5IP9L 4A3LL 2E2JL 2VUML 4A3JL 3GTGL 3HKZP 1I3QL 5M3ML 5C4XL 1TWCL 5IYDL 3H0GL 1Y1WL 4A93L 4C2M1 4A3GL 4A3BL 1TWAL 3GTQL 3S16L 3S2DL 4A3ML 1WCML 1R9TL 3RZDL 1SFOL 2JA6L 4Y7NL 3M4OL 1I50L 4Y52L 3GTJL 3S2HL 5M5XL 5C3EL 2B63L 2YU9L 4A3IL 2R7ZL 3S1QL 2NVYL 4BY7L 3GTKL 2R92L 2JA5L 1TWGL 2NVXL 1Y1VL 3S14L 4QIWP 3RZOL 2E2IL 5M5WL 3I4NL 2Y0SP 3HOXL 3GTML 3PO3L 5IYCL 4BBRL 4A3DL 3HOYL 1TWFL 4AYBP 3S1RL 2NVQL 4C3HL 2WAQP 4C3JL 3HOUL 3HOWL 1TWHL 3H3VM 2E2HL 4BXXL 4C3IL 5IP7L 3I4ML 3S1ML 5C4JL 3K7AL 3CQZL 3PO2L 4A3EL 1I6HL 3GTPL 5C44L 2JA7L
chains in the Genus database with same CATH homology


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