3GTQL

Backtracked rna polymerase ii complex induced by damage
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 subunit RPB1
publication title Structural basis of transcription: backtracked RNA polymerase II at 3.4 angstrom resolution.
pubmed doi rcsb
molecule tags Transcription, transferase/dna-rna hybrid
total genus 1
structure length 46
sequence length 46
ec nomenclature
pdb deposition date 2009-03-27

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 3gtqL00
4A3CL 5M5XL 3GTML 4A3IL 3M4OL 3S14L 3RZDL 1TWAL 1SFOL 3HOUL 4A3BL 1TWCL 1Y1WL 3CQZL 2E2IL 3I4ML 4QIWP 4Y52L 2NVYL 5IYBL 4BBSL 3S1RL 5FJ8L 3GTPL 2Y0SP 2PMZP 4A3JL 3HKZP 4BY7L 3S17L 4A93L 4A3LL 2NVQL 2E2HL 2YU9L 3M3YL 4A3ML 3GTJL 4AYBP 3S1QL 5C4JL 5M3FL 1I6HL 3FKIL 5M3ML 5M5WL 5IYDL 3HOVL 4A3KL 2R92L 4C3IL 4A3EL 3PO2L 3H3VM 1Y1VL 3K7AL 4C2M1 3S15L 4A3FL 2NVXL 3S1ML 3S2DL 2B63L 5C44L 5IP9L 3GTQL 4X6AL 3HOWL 1TWHL 5IP7L 3HOYL 3S1NL 2WB1P 1TWGL 3S16L 2JA5L 5IYCL 2R93L 5C3EL 3HOXL 5C4XL 1WCML 4C3HL 3GTLL 1I3QL 2JA8L 3GTKL 4A3DL 2R7ZL 3PO3L 4A3GL 3GTOL 2JA6L 5M5YL 2JA7L 2NVTL 4Y7NL 4BBRL 4BY1L 3I4NL 1I50L 1K83L 4C3JL 4BXXL 5FLML 1R9TL 1TWFL 3H0GL 3RZOL 2WAQP 2VUML 3S2HL 2E2JL 3HOZL 3GTGL
chains in the Genus database with same CATH superfamily
1YK4A 3M4OL 4GS7D 1C09A 3H99A 1Y1WL 3LWPB 1B2OA 3CQZL 3LNLA 4JAFA 2QL0A 2NVYL 2C6AA 3S1RL 2PVEA 5FJ8L 2Y0SP 3RYGA 2XJQA 1P7PA 1QCVA 5MGNA 2YU9L 5GAHc 4ME3A 2M4VA 1Z92B 1PFYA 1YK5A 3FDJA 7RXNA 4C3IL 2XJTA 1VCXA 4B8CD 3RZTA 3K7AL 1DX8A 3LWOB 1WJVA 2K2DA 2RDVA 1YV1A 3PIP1 1VZIA 2ERJA 5IP9L 3GTQL 1LKMA 4E6YA 1E8JA 5H1Sc 3HOWL 1TWHL 5IP7L 1PZXA 1OWCA 2A69D 5AI2A 3S1NL 1TWGL 5GAGc 5JVH1 3VPBE 3MQKB 1F4LA 3SS2A 1IU6A 1I3QL 4AR4A 4ZN1B 1SMWA 2XJRA 3PO3L 5M5YL 3PKJA 3PZAA 1RDGA 2NVTL 2LCQA 4Y7NL 3K35A 2CKCA 3MPSA 4C3JL 5FLML 1VZGA 3S2HL 1IU5A 5M5XL 5JVG1 3RZDL 5DM61 3MSUA 3HOUL 3KYUA 4AHZA 2APOB 2M4YA 1RB9A 3IU3I 2V3BB 3QVDA 3GTPL 3S17L 2CR8A 4A93L 4A3LL 2NVQL 1PFWA 2A6HD 2Z3QB 3PL5A 4A3ML 3S1QL 5C4JL 4AHXA 2JI1A 3FKIL 3B0AB 2EY4E 5M3ML 4U671 1B71A 4AR5A 3KYYA 1R0IA 3JR7A 2R92L 1PFVA 1IROA 4A3EL 3H3VM 2PVXA 3J7Z1 5AI3A 1T9PA 1S30A 3RZ6A 4POFA 5EINC 5AN9H 4C2M1 3S15L 4A3FL 1YUXA 3S2DL 8RXNA 2B63L 4X6AL 3QQCE 2V0FA 4AR3A 4G6BA 1NXEA 3P2AA 2VL6A 1BFYA 4TVMA 2PPTA 1OWBA 1SMMA 5GAEc 3WWNB 1WCML 1DVBA 4JADA 2XJUA 4XGHA 2JA8L 4A3DL 2JI2A 2V0EA 1LTLA 1FHHA 1PFUA 4BBRL 3HAXC 1T9QA 3J7Y1 4BY1L 1I50L 2PYAA 1RYQA 1IRNA 1CAAA 3RZOL 1B13A 2E2JL 2J9UB 1BQ8A 4A3CL 1ODHA 3S14L 1TWAL 1H7VA 4RXNA 1R0GA 2H12A 3B08B 2E2IL 3NFPI 4Y52L 1CADA 4A3JL 4BY7L 5MF6A 3LWRB 3H97A 5MFZA 3GTJL 4AI2A 2M6PA 4LHNA 4AHYA 1R0JA 2MS3A 5K2ME 3A44A 5M3FL 4JAEA 1I6HL 2HR5A 5IYDL 3HOVL 2XJPA 4AI0A 2RFKB 1S24A 1RYTA 2AQCA 2JI3A 1Y1VL 3H9CA 1JYBA 3LPEB 1LKPA 4POGA 2GMGA 3KYVA 1R0FA 1QQTA 2AUSB 4ZN3B 2C6BA 1ZRPA 2WB1P 2KKDA 5RXNA 5EIOC 2JA5L 3WWLA 5IYCL 2DSXA 1YUZA 4UY81 1IW7D 5C4XL 2XJSA 2Z3RB 2PSMC 4C3HL 3GTLL 5DM71 1BRFA 2CKAA 3KYXA 3GTKL 2R7ZL 3PWFA 1RWDA 4A3GL 3PIO1 2JA6L 2JA7L 5MLC3 4WFN1 2A68D 3LWVB 4BXXL 4YWLA 1R9TL 3H0GL 5GADc 2VUML 4AI3A 3HOZL 3GTGL 3GTML 1LKOA 4A3IL 4XXBB 1SFOL 1FHMA 4A3BL 1TWCL 3HJYB 3I4ML 4QIWP 5IYBL 4BBSL 5IY0A 4JAGA 3P8BA 2HVYC 2PMZP 3HKZP 3H9BA 3LWQB 2AYJA 2E2HL 3M3YL 4AYBP 2BE5D 1RDVA 2ZIXA 4K9FA 4AI1A 6RXNA 2B5ID 1T9OA 5M5WL 2NYDA 4A3KL 1BQ9A 3PO2L 1B2JA 4AHWA 3HJWB 2NVXL 1NNQA 1BE7A 4AR6A 3S1ML 1S2ZA 5MFPA 1R0HA 5C44L 1QYBA 2XJVA 2O5JD 3HOYL 3KYWA 2KN9A 3S16L 2R93L 5C3EL 3PKIA 3HOXL 1VZHA 4YWMA 3GTOL 2A6ED 1NXGA 2M6OA 2L0ZA 3ZG6A 1SMUA 3I4NL 4TPUA 1K83L 4V196 1TWFL 2WAQP 4LHLA 2ERSA
chains in the Genus database with same CATH topology
4A3CL 5M5XL 3GTML 4A3IL 3M4OL 3S14L 3RZDL 1TWAL 1SFOL 3HOUL 4A3BL 1TWCL 1Y1WL 3CQZL 2E2IL 3I4ML 4QIWP 4Y52L 2NVYL 5IYBL 4BBSL 3S1RL 5FJ8L 3GTPL 2Y0SP 2PMZP 4A3JL 3HKZP 4BY7L 3S17L 4A93L 4A3LL 2NVQL 2E2HL 2YU9L 3M3YL 4A3ML 3GTJL 4AYBP 3S1QL 5C4JL 5M3FL 1I6HL 3FKIL 5M3ML 5M5WL 5IYDL 3HOVL 4A3KL 2R92L 4C3IL 4A3EL 3PO2L 3H3VM 1Y1VL 3K7AL 4C2M1 3S15L 4A3FL 2NVXL 3S1ML 3S2DL 2B63L 5C44L 5IP9L 3GTQL 4X6AL 3HOWL 1TWHL 5IP7L 3HOYL 3S1NL 2WB1P 1TWGL 3S16L 2JA5L 5IYCL 2R93L 5C3EL 3HOXL 5C4XL 1WCML 4C3HL 3GTLL 1I3QL 2JA8L 3GTKL 4A3DL 2R7ZL 3PO3L 4A3GL 3GTOL 2JA6L 5M5YL 2JA7L 2NVTL 4Y7NL 4BBRL 4BY1L 3I4NL 1I50L 1K83L 4C3JL 4BXXL 5FLML 1R9TL 1TWFL 3H0GL 3RZOL 2WAQP 2VUML 3S2HL 2E2JL 3HOZL 3GTGL
chains in the Genus database with same CATH homology


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