3HOZL

Complete rna polymerase ii elongation complex iv with a t-u mismatch and a frayed rna 3'-guanine
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 3hozL00
4A3EL 5IYDL 3S15L 2NVYL 2Y0SP 3HOYL 2PMZP 4A3CL 2B63L 4C2M1 4BY1L 3RZOL 3CQZL 5IYCL 3S17L 4A3BL 3HOWL 4A3LL 3GTQL 3HKZP 3RZDL 2JA6L 3HOUL 2JA7L 3PO3L 3S16L 4C3JL 3I4ML 1WCML 2E2JL 3S1RL 3S2HL 3S1ML 4C3HL 3PO2L 5M3FL 3GTOL 5IP7L 3M4OL 1Y1WL 1TWCL 3GTLL 3HOVL 4A3GL 2R93L 5C4JL 4QIWP 2R7ZL 5M5WL 3M3YL 3GTPL 2WAQP 5IYBL 4C3IL 1SFOL 3H0GL 4A3ML 5FJ8L 4A3JL 4BBRL 4BXXL 4A93L 2VUML 3I4NL 1K83L 1TWAL 1TWGL 3HOXL 5C3EL 3HOZL 2YU9L 4BY7L 5FLML 4A3IL 2JA5L 5C44L 3S2DL 1I6HL 4A3DL 4AYBP 4BBSL 2NVTL 2R92L 4X6AL 3H3VM 2WB1P 3GTJL 2E2IL 1I50L 3FKIL 2NVQL 4A3FL 2E2HL 3K7AL 3S1NL 4A3KL 3GTML 4Y52L 3GTGL 1Y1VL 5M5YL 1TWFL 2JA8L 3S1QL 5IP9L 5M5XL 2NVXL 4Y7NL 1R9TL 1I3QL 3GTKL 5C4XL 3S14L 5M3ML 1TWHL
chains in the Genus database with same CATH superfamily
3S15L 2GMGA 5GADc 3HOYL 2PYAA 3RZOL 3HOWL 4K9FA 4YWMA 1QQTA 5GAGc 3SS2A 3HKZP 2HVYC 1QYBA 2PSMC 1LKPA 3S16L 4C3JL 3I4ML 1WCML 3S2HL 5H1Sc 6RXNA 5M3FL 1YUXA 1C09A 5IP7L 1CADA 1TWCL 4G6BA 3LWPB 3JR7A 5C4JL 2PVEA 4QIWP 4AI1A 1S2ZA 1OWBA 2R7ZL 3M3YL 2AYJA 4C3IL 1NXEA 1SFOL 5FJ8L 1RDVA 1VZGA 2QL0A 4BBRL 2VUML 2XJUA 2CKAA 2CR8A 1RWDA 2YU9L 4AR3A 4V196 1PFYA 2PVXA 2EY4E 1I6HL 3S2DL 1B2JA 1R0GA 4BBSL 2KKDA 3WWLA 1B2OA 1RDGA 5AI2A 3GTJL 2XJRA 4POFA 4A3FL 5GAEc 1VZIA 4Y52L 1CAAA 4AR4A 5IP9L 5M5XL 3J7Y1 3LPEB 3PIP1 1H7VA 2O5JD 5C4XL 1E8JA 1DX8A 3S14L 3QVDA 3HAXC 4GS7D 2R93L 2B5ID 1PFUA 4ME3A 4JAFA 1YV1A 3LWVB 2B63L 4C2M1 1BRFA 1SMMA 4A3LL 1FHMA 3HOUL 3K35A 3LWRB 1IW7D 2E2JL 1JYBA 3S1ML 4JAGA 1YK5A 4C3HL 2H12A 2K2DA 3PO2L 1IRNA 1LKOA 3GTOL 2A69D 2L0ZA 2A68D 1R0JA 2DSXA 4AR5A 4A3GL 3KYVA 1BE7A 5JVH1 4RXNA 2NYDA 1PFVA 1Z92B 1ODHA 1YK4A 3B08B 4WFN1 4JAEA 5M5WL 2WAQP 3PKIA 3H0GL 5MGNA 4A3JL 4BXXL 5K2ME 1TWGL 4AI2A 2XJTA 1R0HA 3HOZL 4BY7L 5FLML 2JA5L 2XJQA 2C6AA 2KN9A 3PKJA 3ZG6A 5RXNA 2BE5D 4TVMA 3FKIL 2M4VA 5MLC3 4AHWA 3IU3I 2V0EA 1NNQA 2E2HL 3K7AL 3S1NL 1LKMA 4E6YA 3NFPI 3GTGL 1Y1VL 2M4YA 2JA8L 4U671 1RYTA 3P2AA 3HJWB 1R9TL 5AI3A 3GTKL 2AQCA 1PFWA 3HJYB 5M3ML 1TWHL 1T9OA 4A3EL 5IYDL 2NVYL 2XJSA 1WJVA 3KYWA 2VL6A 5IYCL 2M6PA 5DM71 2JI3A 4LHNA 3H9CA 3RZDL 2JA6L 3PO3L 3MQKB 1PZXA 3S1RL 2CKCA 5EINC 1ZRPA 7RXNA 1BFYA 3QQCE 3WWNB 4AR6A 4B8CD 4ZN1B 1Y1WL 1S30A 2V0FA 3H9BA 3PL5A 3RYGA 1FHHA 2ERJA 2APOB 5IYBL 4A93L 4YWLA 2RDVA 4AHYA 1SMWA 2PPTA 4A3DL 2A6ED 4AYBP 1B71A 3VPBE 3B0AB 4LHLA 5JVG1 1R0IA 5GAHc 1R0FA 1I50L 2M6OA 3FDJA 2HR5A 5MF6A 2NVQL 2AUSB 1YUZA 2RFKB 4XGHA 3GTML 5IY0A 5EIOC 1SMUA 5M5YL 1IROA 3S1QL 4Y7NL 3LNLA 4TPUA 1S24A 2JI1A 1LTLA 3H97A 2ZIXA 3MSUA 1IU5A 3KYYA 3PZAA 3KYUA 2Y0SP 5MFZA 4A3CL 2PMZP 4BY1L 3CQZL 4AI0A 3S17L 4A3BL 3LWOB 3J7Z1 2JI2A 3GTQL 4AI3A 4AHXA 2JA7L 1BQ9A 1B13A 4UY81 1DVBA 1VZHA 2Z3QB 2V3BB 1RYQA 3M4OL 2ERSA 3GTLL 3HOVL 2J9UB 1T9PA 3A44A 1VCXA 8RXNA 3GTPL 4AHZA 1NXGA 4ZN3B 4A3ML 5AN9H 3RZTA 3PWFA 3I4NL 1K83L 1TWAL 3HOXL 5C3EL 1RB9A 4A3IL 5C44L 2XJPA 5MFPA 4POGA 3KYXA 2C6BA 2NVTL 1BQ8A 2LCQA 2R92L 1T9QA 4X6AL 3H3VM 2WB1P 4XXBB 2E2IL 1F4LA 2Z3RB 3H99A 1QCVA 3PIO1 3MPSA 4JADA 4A3KL 2XJVA 3RZ6A 1IU6A 1TWFL 2MS3A 2NVXL 2A6HD 1OWCA 1I3QL 5DM61 3LWQB 1P7PA 3P8BA
chains in the Genus database with same CATH topology
4A3EL 5IYDL 3S15L 2NVYL 2Y0SP 3HOYL 2PMZP 4A3CL 2B63L 4C2M1 4BY1L 3RZOL 3CQZL 5IYCL 3S17L 4A3BL 3HOWL 4A3LL 3GTQL 3HKZP 3RZDL 2JA6L 3HOUL 2JA7L 3PO3L 3S16L 4C3JL 3I4ML 1WCML 2E2JL 3S1RL 3S2HL 3S1ML 4C3HL 3PO2L 5M3FL 3GTOL 5IP7L 3M4OL 1Y1WL 1TWCL 3GTLL 3HOVL 4A3GL 2R93L 5C4JL 4QIWP 2R7ZL 5M5WL 3M3YL 3GTPL 2WAQP 5IYBL 4C3IL 1SFOL 3H0GL 4A3ML 5FJ8L 4A3JL 4BBRL 4BXXL 4A93L 2VUML 3I4NL 1K83L 1TWAL 1TWGL 3HOXL 5C3EL 3HOZL 2YU9L 4BY7L 5FLML 4A3IL 2JA5L 5C44L 3S2DL 1I6HL 4A3DL 4AYBP 4BBSL 2NVTL 2R92L 4X6AL 3H3VM 2WB1P 3GTJL 2E2IL 1I50L 3FKIL 2NVQL 4A3FL 2E2HL 3K7AL 3S1NL 4A3KL 3GTML 4Y52L 3GTGL 1Y1VL 5M5YL 1TWFL 2JA8L 3S1QL 5IP9L 5M5XL 2NVXL 4Y7NL 1R9TL 1I3QL 3GTKL 5C4XL 3S14L 5M3ML 1TWHL
chains in the Genus database with same CATH homology


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