3HOUL

Complete rna polymerase ii elongation complex i with a t-u mismatch
Total Genus 2
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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
2
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 2
structure length 46
sequence length 46
chains with identical sequence X
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 3houL00
2E2JL 2NVXL 3S16L 3S1NL 3GTQL 2R7ZL 3HOXL 4QIWP 3HOWL 1K83L 4BY7L 3S2DL 2WAQP 2E2HL 1R9TL 1WCML 5C4XL 1Y1WL 4A3ML 3S15L 5C4JL 4AYBP 1TWAL 4C3HL 2E2IL 3GTJL 5C44L 1Y1VL 4BXXL 2JA5L 2Y0SP 4C3JL 5M3FL 1I3QL 5IYBL 5IP9L 3S1ML 3H3VM 2R93L 2R92L 3RZDL 3S2HL 1TWHL 5FLML 3CQZL 3S1RL 4BY1L 3GTGL 4A3JL 4A3CL 3HOVL 3HKZP 2JA8L 4Y52L 2NVTL 5IYCL 5IYDL 5C3EL 5IP7L 4C2M1 3K7AL 4Y7NL 1I50L 3I4NL 4A3EL 4BBRL 2NVYL 4A3GL 2YU9L 3HOYL 2WB1P 5M5WL 3HOUL 1TWCL 3RZOL 4A93L 3M4OL 3H0GL 3GTML 1TWGL 5M5YL 4A3KL 3M3YL 2NVQL 4C3IL 3GTLL 4A3FL 3GTKL 3FKIL 2PMZP 3GTOL 3I4ML 3S14L 4BBSL 5M5XL 1SFOL 1TWFL 3PO3L 2VUML 4A3DL 3PO2L 3HOZL 5FJ8L 3S17L 2B63L 5M3ML 4A3BL 3GTPL 4A3LL 3S1QL 4X6AL 2JA6L 2JA7L 4A3IL 1I6HL
chains in the Genus database with same CATH superfamily
2E2JL 3S1NL 3S16L 1YK4A 1PFUA 2JI3A 3HOWL 1QYBA 4BY7L 5MFZA 4AHWA 3HJYB 1CADA 1RWDA 5MFPA 3PIO1 2E2IL 3MSUA 3RZ6A 2A6ED 4ME3A 5C44L 3MPSA 3H99A 2JA5L 4C3JL 1YK5A 5IYBL 7RXNA 5IY0A 2PYAA 4AHXA 2R92L 2XJSA 3B0AB 1NXEA 2VL6A 2CKAA 2XJPA 3CQZL 3S1RL 4A3CL 2AYJA 3HOVL 3HKZP 2JA8L 1S2ZA 2NVTL 2RFKB 1B2JA 5IYDL 6RXNA 3LWRB 4G6BA 5IP7L 5AI3A 3J7Y1 4C2M1 1B13A 5AN9H 3WWNB 3I4NL 2B5ID 1RYTA 4BBRL 4POFA 2M6PA 4A3GL 3SS2A 4JAGA 2WB1P 2ERJA 3M4OL 2V0EA 1VCXA 5DM71 4B8CD 2XJQA 2A68D 1H7VA 4C3IL 3GTLL 2JI2A 3FKIL 3I4ML 3KYVA 1WJVA 4BBSL 1SFOL 1TWFL 5GAEc 3PO2L 4K9FA 3HOZL 2O5JD 5FJ8L 2KN9A 4U671 5DM61 5M3ML 1BRFA 2GMGA 3GTPL 1BFYA 4X6AL 1RDGA 2JA7L 3IU3I 1S24A 5MGNA 1I6HL 1R0JA 1PZXA 2AQCA 2XJRA 3NFPI 3GTQL 2R7ZL 2H12A 5MLC3 4QIWP 3A44A 3S2DL 2WAQP 2E2HL 8RXNA 1JYBA 1R9TL 1WCML 5C4XL 3KYXA 4XXBB 4AYBP 1VZHA 1TWAL 4C3HL 2JI1A 1Y1VL 1BQ9A 1IRNA 2Y0SP 1IU5A 5GAHc 3PKIA 3PIP1 5H1Sc 5RXNA 2HR5A 3RZDL 1R0GA 1TWHL 5FLML 3H9BA 4BY1L 2C6AA 4A3JL 1DX8A 5IYCL 1RB9A 3FDJA 2Z3QB 4AR4A 2APOB 1SMUA 3H9CA 2NVYL 5AI2A 2L0ZA 3LWQB 1SMWA 1YUXA 1NXGA 1LKPA 4WFN1 3HOUL 2J9UB 3RZOL 3K35A 3KYWA 1TWGL 4A3KL 3M3YL 3PZAA 3HAXC 1Z92B 1OWBA 3GTOL 5K2ME 1ZRPA 1LTLA 3S14L 5M5XL 4AHZA 2QL0A 1BE7A 1F4LA 1VZGA 1YV1A 4LHLA 4ZN3B 2A6HD 3KYYA 2Z3RB 2NVXL 2DSXA 1IROA 4AI1A 3QQCE 2HVYC 4AR5A 3HOXL 3ZG6A 4UY81 2PPTA 3PL5A 1B2OA 5JVH1 3LNLA 3S15L 5C4JL 1R0FA 3GTJL 1PFVA 2EY4E 4AR3A 2K2DA 4BXXL 2RDVA 5M3FL 1I3QL 2M4YA 2V3BB 4ZN1B 4AHYA 5IP9L 1IU6A 3H3VM 4V196 2V0FA 1PFWA 2MS3A 4E6YA 2AUSB 1QQTA 1ODHA 1SMMA 3MQKB 4Y7NL 2NYDA 4RXNA 2CKCA 2ZIXA 3J7Z1 2YU9L 1FHHA 5EINC 2XJVA 3HJWB 5M5WL 1TWCL 4A93L 4AR6A 3H0GL 3LPEB 3GTML 4GS7D 1S30A 3RYGA 2BE5D 4A3FL 3GTKL 5EIOC 2PMZP 3LWOB 1OWCA 4AI3A 3PO3L 2VUML 4A3DL 1PFYA 4POGA 4A3BL 3QVDA 3S1QL 3LWVB 2JA6L 4A3IL 3JR7A 1VZIA 5GADc 4YWMA 3VPBE 1K83L 3KYUA 1R0HA 1DVBA 3RZTA 1Y1WL 1B71A 2PSMC 4A3ML 1BQ8A 4JAFA 2M4VA 1LKOA 1RYQA 4JAEA 5GAGc 1FHMA 3WWLA 1E8JA 3H97A 1CAAA 2PVXA 2LCQA 1QCVA 4YWLA 1IW7D 2PVEA 3S1ML 4JADA 2R93L 3S2HL 2M6OA 4LHNA 1C09A 2A69D 3GTGL 2ERSA 4XGHA 4Y52L 1LKMA 4TVMA 4AI0A 5C3EL 3PWFA 3K7AL 1P7PA 1I50L 3PKJA 4A3EL 2XJUA 5MF6A 4TPUA 3HOYL 1T9OA 1RDVA 1YUZA 5M5YL 3B08B 2C6BA 3P8BA 2NVQL 1T9QA 4AI2A 1T9PA 5JVG1 3P2AA 2CR8A 2KKDA 3LWPB 3S17L 2B63L 4A3LL 2XJTA 1R0IA 1NNQA
chains in the Genus database with same CATH topology
2E2JL 2NVXL 3S16L 3S1NL 3GTQL 2R7ZL 3HOXL 4QIWP 3HOWL 1K83L 4BY7L 3S2DL 2WAQP 2E2HL 1R9TL 1WCML 5C4XL 1Y1WL 4A3ML 3S15L 5C4JL 4AYBP 1TWAL 4C3HL 2E2IL 3GTJL 5C44L 1Y1VL 4BXXL 2JA5L 2Y0SP 4C3JL 5M3FL 1I3QL 5IYBL 5IP9L 3S1ML 3H3VM 2R93L 2R92L 3RZDL 3S2HL 1TWHL 5FLML 3CQZL 3S1RL 4BY1L 3GTGL 4A3JL 4A3CL 3HOVL 3HKZP 2JA8L 4Y52L 2NVTL 5IYCL 5IYDL 5C3EL 5IP7L 4C2M1 3K7AL 4Y7NL 1I50L 3I4NL 4A3EL 4BBRL 2NVYL 4A3GL 2YU9L 3HOYL 2WB1P 5M5WL 3HOUL 1TWCL 3RZOL 4A93L 3M4OL 3H0GL 3GTML 1TWGL 5M5YL 4A3KL 3M3YL 2NVQL 4C3IL 3GTLL 4A3FL 3GTKL 3FKIL 2PMZP 3GTOL 3I4ML 3S14L 4BBSL 5M5XL 1SFOL 1TWFL 3PO3L 2VUML 4A3DL 3PO2L 3HOZL 5FJ8L 3S17L 2B63L 5M3ML 4A3BL 3GTPL 4A3LL 3S1QL 4X6AL 2JA6L 2JA7L 4A3IL 1I6HL
chains in the Genus database with same CATH homology


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