3HOVL

Complete rna polymerase ii elongation complex ii
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
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 3hovL00
4BBRL 5IYCL 4Y52L 4QIWP 3HKZP 3HOYL 3S1ML 2JA6L 2WAQP 5FLML 1I3QL 3HOUL 3RZDL 4A3JL 3PO3L 5C3EL 4A3EL 3HOVL 3GTOL 5C44L 2JA5L 2E2IL 3S1RL 3GTJL 4Y7NL 3FKIL 3K7AL 3GTPL 5M5XL 3PO2L 3GTGL 1Y1VL 5M5WL 4BBSL 4C3HL 2VUML 3S15L 3GTML 3CQZL 1Y1WL 5IP9L 2YU9L 5IYBL 1R9TL 3GTKL 3I4NL 4C3IL 3RZOL 3S14L 3M3YL 2R92L 3S2DL 3HOXL 5IP7L 4A3CL 1TWAL 2Y0SP 4A93L 4A3IL 3H3VM 4A3GL 2R93L 2E2HL 4A3KL 3M4OL 4A3FL 3HOZL 5C4XL 3HOWL 1TWCL 1WCML 4X6AL 2NVYL 4BXXL 1I50L 3S16L 5M5YL 2NVQL 4AYBP 5M3FL 4C3JL 1TWFL 5FJ8L 2R7ZL 1K83L 3S2HL 2PMZP 5M3ML 1I6HL 4A3LL 2B63L 2JA8L 4A3ML 3H0GL 1TWHL 3GTLL 2NVXL 4BY1L 1TWGL 4C2M1 2NVTL 2JA7L 2WB1P 3I4ML 5C4JL 5IYDL 1SFOL 4BY7L 3S1NL 3S1QL 3S17L 2E2JL 3GTQL 4A3DL 4A3BL
chains in the Genus database with same CATH superfamily
4BBRL 5IYCL 2A6HD 3MSUA 1DVBA 5EINC 1BE7A 3QVDA 2PSMC 3HOVL 3J7Y1 3GTOL 2JA5L 2E2IL 3GTJL 1BFYA 4U671 1PFVA 5MFZA 1QCVA 3PO2L 1SMMA 3GTGL 1VZHA 5M5WL 1P7PA 4C3HL 1IW7D 1PFUA 2VUML 5DM71 1C09A 3LPEB 5IP9L 2YU9L 3GTKL 3I4NL 3PIO1 3RZOL 3S14L 1R0FA 5K2ME 5JVG1 4JAFA 6RXNA 3S2DL 3B0AB 2JI2A 4JADA 5GAGc 1VCXA 4A93L 3RZTA 4ME3A 2C6AA 1SMUA 3H97A 3HOZL 4YWLA 3HOWL 1S24A 1WCML 1LKPA 5MGNA 4BXXL 5GADc 2XJUA 1BQ9A 2KKDA 4ZN3B 3NFPI 3S2HL 3WWLA 1OWCA 4G6BA 5JVH1 5MLC3 1TWHL 3K35A 2NVXL 3ZG6A 4XGHA 2XJPA 1T9QA 2JA7L 3I4ML 2JI1A 5IYDL 3LWOB 2HR5A 1LTLA 3LWPB 3LWVB 1LKOA 4UY81 2CR8A 3HKZP 1QYBA 2M4VA 5H1Sc 1IU6A 2CKCA 3S1ML 1F4LA 3HJYB 4AR5A 5AN9H 2PVEA 2V0FA 1PFWA 4A3EL 5C44L 4GS7D 2JI3A 1RDVA 3WWNB 1H7VA 2MS3A 1S30A 2A68D 3KYXA 1FHMA 1PZXA 3KYWA 3S15L 3CQZL 1R9TL 4AI1A 4AHWA 2DSXA 1IU5A 3FDJA 3HAXC 2GMGA 4A3IL 1B2JA 1BRFA 3LWRB 3H3VM 1FHHA 5GAHc 4AR6A 4A3KL 4A3FL 4POFA 1TWCL 2ERSA 4JAEA 1NXGA 1I50L 2AQCA 2NVQL 1TWFL 2R7ZL 1K83L 1NXEA 5IY0A 1I6HL 5EIOC 3GTLL 8RXNA 4C2M1 2NVTL 5C4JL 3S1NL 2E2JL 2Z3QB 2Z3RB 4AHZA 4A3DL 2XJSA 2M6PA 1R0GA 4V196 1ODHA 2V3BB 2EY4E 4QIWP 3JR7A 3HOYL 4AR4A 3J7Z1 3H9BA 2WAQP 2KN9A 1I3QL 2RDVA 4E6YA 2XJQA 3RZDL 3LWQB 2AYJA 4RXNA 2ZIXA 3S1RL 4LHNA 1B71A 3GTPL 5M5XL 2PYAA 1IRNA 2O5JD 1Y1VL 1YK4A 3PWFA 3LNLA 2CKAA 3PKJA 5IYBL 3P8BA 5GAEc 2LCQA 3HOXL 2NYDA 1VZGA 5IP7L 3RYGA 4TPUA 2Y0SP 2PVXA 3B08B 4AI0A 1LKMA 2V0EA 1ZRPA 2XJVA 1S2ZA 4A3GL 1SMWA 5DM61 2R93L 3QQCE 1R0HA 5C4XL 3IU3I 2L0ZA 2VL6A 2NVYL 3PZAA 1T9PA 1OWBA 4XXBB 2A6ED 2J9UB 4ZN1B 5M3FL 4C3JL 1YK5A 5FJ8L 4AHYA 1QQTA 2APOB 1BQ8A 4WFN1 1R0JA 3MQKB 3H99A 2C6BA 1R0IA 5AI3A 7RXNA 4JAGA 4BY1L 2BE5D 2WB1P 3VPBE 1RYTA 1Z92B 1SFOL 5AI2A 3KYVA 4BY7L 4B8CD 3GTQL 1RB9A 4TVMA 5MFPA 4Y52L 4K9FA 1CAAA 1B13A 1B2OA 2JA6L 5FLML 2M6OA 3KYYA 1RYQA 5RXNA 3HOUL 5MF6A 4A3JL 1T9OA 3PO3L 5C3EL 1E8JA 2M4YA 4Y7NL 3RZ6A 3FKIL 3HJWB 3K7AL 3H9CA 3PKIA 1WJVA 2XJTA 4BBSL 1YV1A 1YUZA 1NNQA 3GTML 3MPSA 1Y1WL 1VZIA 3A44A 2ERJA 4LHLA 3SS2A 4C3IL 3M3YL 2XJRA 2R92L 2K2DA 4A3CL 1TWAL 1YUXA 2QL0A 2AUSB 2B5ID 2E2HL 3M4OL 4AHXA 1PFYA 2HVYC 1IROA 4X6AL 2RFKB 2H12A 3S16L 5M5YL 1CADA 4AYBP 4AR3A 1DX8A 4AI3A 4POGA 2PMZP 3PL5A 5M3ML 4A3LL 2B63L 2JA8L 4A3ML 3H0GL 1RDGA 1RWDA 3KYUA 4YWMA 1JYBA 1TWGL 4AI2A 2A69D 3S1QL 3PIP1 2PPTA 3S17L 3P2AA 4A3BL
chains in the Genus database with same CATH topology
4BBRL 5IYCL 4Y52L 4QIWP 3HKZP 3HOYL 3S1ML 2JA6L 2WAQP 5FLML 1I3QL 3HOUL 3RZDL 4A3JL 3PO3L 5C3EL 4A3EL 3HOVL 3GTOL 5C44L 2JA5L 2E2IL 3S1RL 3GTJL 4Y7NL 3FKIL 3K7AL 3GTPL 5M5XL 3PO2L 3GTGL 1Y1VL 5M5WL 4BBSL 4C3HL 2VUML 3S15L 3GTML 3CQZL 1Y1WL 5IP9L 2YU9L 5IYBL 1R9TL 3GTKL 3I4NL 4C3IL 3RZOL 3S14L 3M3YL 2R92L 3S2DL 3HOXL 5IP7L 4A3CL 1TWAL 2Y0SP 4A93L 4A3IL 3H3VM 4A3GL 2R93L 2E2HL 4A3KL 3M4OL 4A3FL 3HOZL 5C4XL 3HOWL 1TWCL 1WCML 4X6AL 2NVYL 4BXXL 1I50L 3S16L 5M5YL 2NVQL 4AYBP 5M3FL 4C3JL 1TWFL 5FJ8L 2R7ZL 1K83L 3S2HL 2PMZP 5M3ML 1I6HL 4A3LL 2B63L 2JA8L 4A3ML 3H0GL 1TWHL 3GTLL 2NVXL 4BY1L 1TWGL 4C2M1 2NVTL 2JA7L 2WB1P 3I4ML 5C4JL 5IYDL 1SFOL 4BY7L 3S1NL 3S1QL 3S17L 2E2JL 3GTQL 4A3DL 4A3BL
chains in the Genus database with same CATH homology


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