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

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


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