4X6AL

Crystal structure of yeast rna polymerase ii encountering oxidative cyclopurine dna lesions
Total Genus 1
Loading diagram...

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
Loading diagram...

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


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

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