3HOYL

Complete rna polymerase ii elongation complex vi
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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publication title Structural basis of transcription: mismatch-specific fidelity mechanisms and paused RNA polymerase II with frayed RNA.
pubmed doi rcsb
molecule keywords DNA-directed RNA polymerase II subunit RPB1
molecule tags Transcription,transferase/dna/rna hybrid
total genus 1
structure length 46
sequence length 46
ec nomenclature
pdb deposition date 2009-06-03

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 3hoyL00
1TWHL 4QIWP 2PMZP 3H3VM 5FJ8L 1TWGL 3GTQL 5M3ML 1Y1VL 5M3FL 3K7AL 1TWFL 2JA5L 4BY7L 3I4ML 3H0GL 3HKZP 4BXXL 1R9TL 2E2JL 5IYBL 1I6HL 5C4XL 4C3HL 5C4JL 2JA7L 3GTKL 5IYCL 3S1RL 1I50L 3S1NL 3GTPL 3HOWL 4A3BL 1I3QL 3S15L 3I4NL 3GTML 4X6AL 4A3IL 3S14L 4A3JL 3S16L 3GTLL 3GTOL 1SFOL 2NVXL 2NVYL 3S17L 3S1QL 3M4OL 1TWCL 3S2DL 3RZDL 5FLML 3GTJL 3FKIL 3S2HL 4A3DL 4A3ML 2E2HL 4C2M1 2WAQP 5IP9L 3HOXL 5M5WL 5IP7L 4BBRL 2E2IL 3RZOL 3M3YL 4BBSL 3S1ML 2NVTL 4Y52L 1K83L 4A3KL 2R92L 2JA8L 3GTGL 5C44L 2JA6L 4C3JL 5M5XL 4A3GL 3HOYL 2WB1P 3HOVL 4A3EL 2NVQL 3CQZL 1WCML 4A3CL 5C3EL 5M5YL 3PO3L 3PO2L 1Y1WL 4A3FL 4A93L 4C3IL 4AYBP 3HOUL 4Y7NL 2VUML 2R93L 5IYDL 2R7ZL 3HOZL 4BY1L 2Y0SP 4A3LL 2B63L 1TWAL 2YU9L
chains in the Genus database with same CATH superfamily
5EINC 4XGHA 3VPBE 2XJTA 2C6AA 4POFA 2RDVA 4GS7D 1Y1VL 5M3FL 5JVG1 3K7AL 1PFWA 1TWFL 4BY7L 3I4ML 5MGNA 2ERJA 3H0GL 3HKZP 4YWLA 1ZRPA 1R9TL 1I6HL 5C4XL 4AR3A 4C3HL 2JA7L 5IYCL 4LHNA 1I50L 3S1NL 1C09A 3PKJA 4UY81 1IU5A 2LCQA 3GTML 4X6AL 1YV1A 4U671 3PL5A 2PVXA 1VZGA 1NXGA 5FLML 3J7Z1 3GTJL 3K35A 4A3DL 2O5JD 2A68D 1YUXA 1CADA 2WAQP 3HOXL 1LKPA 1OWBA 1FHHA 2E2IL 3RZOL 3M3YL 3S1ML 3RZ6A 4Y52L 3KYUA 1RDGA 2JA8L 2JA6L 4C3JL 4ME3A 2AUSB 5GAGc 2JI2A 4TPUA 2WB1P 3B0AB 3WWLA 1WCML 3HAXC 3HJYB 2V0FA 3PO2L 3LPEB 1WJVA 4G6BA 1S30A 3KYXA 5DM61 1PFVA 2VUML 2R93L 1LKOA 2MS3A 5H1Sc 5IYDL 2Y0SP 4A3LL 2XJUA 1S2ZA 2B63L 2V3BB 2XJRA 2JI3A 6RXNA 7RXNA 4QIWP 1ODHA 1B2OA 4AHYA 3H3VM 5FJ8L 3JR7A 2ERSA 4BXXL 1S24A 5RXNA 3QQCE 3PIO1 1CAAA 2XJQA 4JADA 3H9CA 2PVEA 3B08B 5MLC3 3H97A 3PWFA 4RXNA 4A3IL 3S14L 3LWQB 1SMWA 2VL6A 4YWMA 1SFOL 2NVYL 4B8CD 2PPTA 3MPSA 3M4OL 4ZN1B 3S2DL 3RZDL 1BFYA 2C6BA 5AN9H 2A69D 3LWOB 2M4VA 1VZHA 2E2HL 1PZXA 5IP9L 2XJPA 1R0GA 1R0JA 1RB9A 4BBSL 2GMGA 1FHMA 2HVYC 1DVBA 3LWRB 1YUZA 2CKAA 1Z92B 4AHZA 5IY0A 2KKDA 4A3GL 1IROA 3HOVL 4A3EL 3H99A 3CQZL 4A3CL 5JVH1 5K2ME 1T9PA 3RYGA 2A6HD 4A3FL 3WWNB 2R7ZL 3HOZL 4AI3A 1QYBA 4V196 2YU9L 5GADc 1SMMA 1B13A 2Z3QB 2PMZP 1E8JA 3LWPB 1TWGL 3GTQL 2V0EA 1R0IA 5C4JL 3S1RL 3HOWL 3H9BA 4A3BL 1I3QL 3I4NL 2PYAA 2CR8A 4AI1A 3KYWA 4A3JL 2KN9A 3GTLL 4TVMA 1R0HA 2NVXL 1F4LA 3PIP1 3S17L 1OWCA 1BQ8A 2M6OA 2CKCA 2EY4E 3FKIL 3S2HL 3LNLA 4A3ML 4C2M1 4AI2A 5M5WL 4K9FA 2M6PA 3KYYA 2NVTL 1K83L 4ZN3B 1RDVA 2A6ED 2JI1A 2R92L 3PKIA 3GTGL 3SS2A 2ZIXA 5C44L 5MFPA 4AR5A 2NVQL 3HJWB 2M4YA 3MSUA 5MFZA 5DM71 3PO3L 4AR6A 3IU3I 1RYTA 1T9QA 1Y1WL 3QVDA 1R0FA 2H12A 5AI3A 5GAEc 4Y7NL 3NFPI 1LTLA 2B5ID 2Z3RB 2QL0A 1IRNA 1TWAL 1NXEA 1IU6A 8RXNA 2NYDA 1TWHL 4AI0A 1VCXA 4LHLA 4XXBB 5M3ML 1RWDA 1BRFA 2JA5L 2BE5D 2PSMC 2E2JL 5IYBL 3P8BA 1P7PA 3GTKL 4JAFA 4AR4A 1IW7D 3GTPL 3S15L 4AHWA 3FDJA 1PFUA 2DSXA 1YK5A 3J7Y1 1B71A 1JYBA 3S16L 3GTOL 3S1QL 5EIOC 1SMUA 1TWCL 2K2DA 1RYQA 1LKMA 2L0ZA 2XJSA 2HR5A 3PZAA 4JAEA 1DX8A 2XJVA 5IP7L 4BBRL 2APOB 1BQ9A 4POGA 1QCVA 5AI2A 2AQCA 4E6YA 3MQKB 3ZG6A 4A3KL 1BE7A 5GAHc 5M5XL 1VZIA 2AYJA 4JAGA 3HOYL 4WFN1 1H7VA 1YK4A 1PFYA 4AHXA 5C3EL 5M5YL 5MF6A 3KYVA 3RZTA 4A93L 4C3IL 4AYBP 1QQTA 3HOUL 2RFKB 1T9OA 1NNQA 4BY1L 3P2AA 3A44A 1B2JA 3LWVB 2J9UB
chains in the Genus database with same CATH topology
1TWHL 4QIWP 2PMZP 3H3VM 5FJ8L 1TWGL 3GTQL 5M3ML 1Y1VL 5M3FL 3K7AL 1TWFL 2JA5L 4BY7L 3I4ML 3H0GL 3HKZP 4BXXL 1R9TL 2E2JL 5IYBL 1I6HL 5C4XL 4C3HL 5C4JL 2JA7L 3GTKL 5IYCL 3S1RL 1I50L 3S1NL 3GTPL 3HOWL 4A3BL 1I3QL 3S15L 3I4NL 3GTML 4X6AL 4A3IL 3S14L 4A3JL 3S16L 3GTLL 3GTOL 1SFOL 2NVXL 2NVYL 3S17L 3S1QL 3M4OL 1TWCL 3S2DL 3RZDL 5FLML 3GTJL 3FKIL 3S2HL 4A3DL 4A3ML 2E2HL 4C2M1 2WAQP 5IP9L 3HOXL 5M5WL 5IP7L 4BBRL 2E2IL 3RZOL 3M3YL 4BBSL 3S1ML 2NVTL 4Y52L 1K83L 4A3KL 2R92L 2JA8L 3GTGL 5C44L 2JA6L 4C3JL 5M5XL 4A3GL 3HOYL 2WB1P 3HOVL 4A3EL 2NVQL 3CQZL 1WCML 4A3CL 5C3EL 5M5YL 3PO3L 3PO2L 1Y1WL 4A3FL 4A93L 4C3IL 4AYBP 3HOUL 4Y7NL 2VUML 2R93L 5IYDL 2R7ZL 3HOZL 4BY1L 2Y0SP 4A3LL 2B63L 1TWAL 2YU9L
chains in the Genus database with same CATH homology


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