2JA8L

Cpd lesion containing rna polymerase ii elongation complex d
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 tags Transferase
molecule keywords DNA-DIRECTED RNA POLYMERASE II LARGEST SUBUNIT
publication title Cpd Damage Recognition by Transcribing RNA Polymerase II.
pubmed doi rcsb
total genus 1
structure length 46
sequence length 46
ec nomenclature
pdb deposition date 2006-11-23

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 2ja8L00
1I6HL 2E2JL 5M3FL 4X6AL 3FKIL 4A3JL 4C3HL 4BY7L 3CQZL 2JA6L 3S17L 1R9TL 3S14L 4C2M1 2NVXL 4A93L 4A3BL 2Y0SP 5C4XL 5FJ8L 3I4ML 3H0GL 2E2HL 4Y52L 1Y1WL 3HOYL 5M5YL 3PO3L 3HOUL 2WB1P 4A3DL 4BY1L 3K7AL 4A3KL 4Y7NL 4C3JL 3I4NL 2PMZP 2NVYL 2B63L 3HOZL 4A3FL 3HOVL 2NVTL 2R92L 3M4OL 3S2DL 4C3IL 3HKZP 1Y1VL 5FLML 1WCML 2NVQL 2JA8L 4A3GL 3GTKL 2E2IL 5IP9L 3S16L 3GTQL 3S1RL 1I50L 2JA5L 4BXXL 5IYBL 4BBRL 5C4JL 3S1QL 4A3ML 3GTJL 1TWCL 5M5XL 5M3ML 5C44L 3S2HL 1TWAL 2JA7L 2R93L 4BBSL 3GTPL 3S1NL 2R7ZL 3RZOL 1SFOL 3GTGL 4A3CL 3GTLL 3PO2L 2YU9L 1K83L 5IYCL 3S1ML 2WAQP 3H3VM 4A3LL 5IYDL 5IP7L 3RZDL 1I3QL 5M5WL 3S15L 4A3IL 3GTML 3M3YL 4A3EL 1TWGL 1TWHL 3HOXL 4AYBP 2VUML 5C3EL 3HOWL 3GTOL 4QIWP 1TWFL
chains in the Genus database with same CATH superfamily
4AI1A 4B8CD 4C3HL 1PFWA 4BY7L 3PZAA 4AI2A 2JA6L 1R9TL 4ZN1B 5C4XL 3QQCE 4AI0A 3H0GL 1R0FA 3PO3L 5MGNA 3PWFA 5AN9H 4A3DL 2PVXA 4BY1L 4A3KL 3KYUA 1ODHA 2AQCA 3HOZL 2B63L 1Z92B 3S2DL 3QVDA 3HKZP 2V3BB 1Y1VL 3HJWB 1WCML 2PYAA 2NVQL 3LPEB 1WJVA 2JI3A 4A3GL 2ZIXA 2AYJA 1RYTA 3S16L 1LKPA 2A69D 5IYBL 2KKDA 4AR5A 4A3ML 1TWCL 2M4VA 2JI1A 1TWAL 1H7VA 1VCXA 2JA7L 3LNLA 5DM61 5GADc 4U671 5JVG1 3S1NL 1YUXA 3RZOL 1SFOL 1T9QA 3GTGL 2QL0A 4A3CL 3P2AA 1JYBA 1C09A 1YK5A 1QCVA 1BE7A 1RWDA 3S1ML 1S24A 3RZDL 1LKMA 3LWOB 4A3EL 2XJTA 2VUML 3HOWL 5AI2A 4AR6A 5M3FL 1B71A 1P7PA 4X6AL 5RXNA 3H9BA 3FKIL 2V0EA 3SS2A 1FHMA 2A68D 2CKAA 3S14L 1B13A 4A3BL 5MLC3 4JAGA 2PVEA 1IROA 5FJ8L 2M6OA 2XJRA 2C6AA 3PIO1 2BE5D 3HOYL 1QYBA 3HOUL 1CAAA 2XJVA 1RDGA 3KYWA 4TPUA 3H9CA 4C3JL 2NVYL 1SMWA 2PMZP 4A3FL 2NVTL 2CR8A 3M4OL 1BQ9A 2HR5A 3GTKL 2AUSB 3WWLA 3GTQL 1I50L 4POGA 3IU3I 2APOB 3GTJL 3B08B 3S2HL 3J7Z1 2R93L 1YK4A 2XJQA 5EINC 2R7ZL 3PO2L 4E6YA 1IW7D 2WAQP 4A3LL 1F4LA 4JAFA 5M5WL 3MQKB 3S15L 7RXNA 2MS3A 3H99A 3PIP1 1SMMA 2CKCA 4AYBP 3MSUA 3JR7A 4QIWP 3WWNB 2XJSA 1TWFL 4AHWA 2E2JL 1PZXA 1NXGA 4A3JL 1R0IA 3RZ6A 4JADA 8RXNA 2O5JD 4A93L 2Y0SP 4XGHA 1R0HA 5AI3A 1IRNA 2ERSA 2E2HL 1RDVA 1LTLA 1Y1WL 1R0JA 3KYVA 5M5YL 4UY81 2HVYC 2PPTA 3HJYB 4ME3A 2WB1P 3B0AB 2XJUA 3RYGA 4Y7NL 1DVBA 3LWVB 1IU6A 2L0ZA 5GAHc 3I4NL 2K2DA 5GAGc 2R92L 1YUZA 4C3IL 2RDVA 4GS7D 4RXNA 1FHHA 3PKJA 5MFPA 1BRFA 2C6BA 4BBRL 5C4JL 4V196 2V0FA 5M5XL 2XJPA 4AR4A 1NNQA 3RZTA 3GTPL 3LWQB 1OWBA 2KN9A 4TVMA 3PKIA 5H1Sc 1K83L 5IYCL 3P8BA 4AHYA 1RB9A 5IYDL 1T9PA 3KYXA 2Z3RB 4LHNA 4YWMA 3MPSA 1TWGL 2VL6A 5DM71 3HOXL 3GTOL 4AR3A 2J9UB 1I6HL 1B2JA 1PFUA 3H97A 1DX8A 5IY0A 2A6HD 1BFYA 3LWPB 4ZN3B 1B2OA 3CQZL 3S17L 1BQ8A 5GAEc 2NYDA 4C2M1 3J7Y1 2NVXL 3I4ML 1R0GA 4Y52L 2B5ID 1NXEA 3A44A 1S2ZA 1VZIA 1RYQA 4LHLA 2JI2A 3VPBE 1VZGA 3K7AL 3K35A 1S30A 2A6ED 2M6PA 1E8JA 3HOVL 3FDJA 4AHZA 1SMUA 2LCQA 1VZHA 2Z3QB 2DSXA 5FLML 5K2ME 2JA8L 4AI3A 2RFKB 3KYYA 2E2IL 5IP9L 1ZRPA 4K9FA 1LKOA 3NFPI 3S1RL 2JA5L 4BXXL 3S1QL 4XXBB 5M3ML 5C44L 4G6BA 6RXNA 5MFZA 2M4YA 4YWLA 3HAXC 2ERJA 4BBSL 1QQTA 5MF6A 1CADA 2PSMC 1PFVA 4JAEA 3LWRB 3GTLL 3PL5A 2YU9L 5EIOC 1OWCA 4POFA 1PFYA 3H3VM 5JVH1 2EY4E 5IP7L 2H12A 1I3QL 1T9OA 4A3IL 3GTML 3M3YL 1TWHL 2GMGA 4AHXA 1YV1A 5C3EL 1IU5A 4WFN1 3ZG6A
chains in the Genus database with same CATH topology
1I6HL 2E2JL 5M3FL 4X6AL 3FKIL 4A3JL 4C3HL 4BY7L 3CQZL 2JA6L 3S17L 1R9TL 3S14L 4C2M1 2NVXL 4A93L 4A3BL 2Y0SP 5C4XL 5FJ8L 3I4ML 3H0GL 2E2HL 4Y52L 1Y1WL 3HOYL 5M5YL 3PO3L 3HOUL 2WB1P 4A3DL 4BY1L 3K7AL 4A3KL 4Y7NL 4C3JL 3I4NL 2PMZP 2NVYL 2B63L 3HOZL 4A3FL 3HOVL 2NVTL 2R92L 3M4OL 3S2DL 4C3IL 3HKZP 1Y1VL 5FLML 1WCML 2NVQL 2JA8L 4A3GL 3GTKL 2E2IL 5IP9L 3S16L 3GTQL 3S1RL 1I50L 2JA5L 4BXXL 5IYBL 4BBRL 5C4JL 3S1QL 4A3ML 3GTJL 1TWCL 5M5XL 5M3ML 5C44L 3S2HL 1TWAL 2JA7L 2R93L 4BBSL 3GTPL 3S1NL 2R7ZL 3RZOL 1SFOL 3GTGL 4A3CL 3GTLL 3PO2L 2YU9L 1K83L 5IYCL 3S1ML 2WAQP 3H3VM 4A3LL 5IYDL 5IP7L 3RZDL 1I3QL 5M5WL 3S15L 4A3IL 3GTML 3M3YL 4A3EL 1TWGL 1TWHL 3HOXL 4AYBP 2VUML 5C3EL 3HOWL 3GTOL 4QIWP 1TWFL
chains in the Genus database with same CATH homology


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