1TWFL

Rna polymerase ii complexed with utp at 2.3 a resolution
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 largest subunit
publication title Structural basis of transcription: nucleotide selection by rotation in the RNA polymerase II active center.
pubmed doi rcsb
molecule tags Transcription
total genus 1
structure length 46
sequence length 46
ec nomenclature
pdb deposition date 2004-06-30

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 1twfL00
1Y1VL 3PO3L 4A3JL 4A3DL 2JA7L 2E2JL 5C4JL 3H3VM 5M5WL 3H0GL 2Y0SP 3CQZL 3GTML 3S2HL 1SFOL 3M4OL 3S14L 1I6HL 3GTQL 3GTKL 4C3IL 4BBRL 2JA6L 3GTOL 2PMZP 4A3IL 3HOWL 3S17L 3S2DL 4A3ML 4A3CL 3S15L 3HOZL 3I4NL 4X6AL 2R92L 1TWFL 4A93L 5M5YL 4AYBP 3S1NL 1Y1WL 2NVTL 1TWHL 3HOYL 5IYBL 5IP9L 5C3EL 5IP7L 1TWGL 3S16L 3FKIL 3S1QL 3RZDL 3GTLL 4BBSL 2WB1P 2VUML 1I3QL 1WCML 3I4ML 1R9TL 2WAQP 4QIWP 4Y52L 3HOXL 3K7AL 1TWCL 5M3FL 3PO2L 3GTJL 4C3JL 4BXXL 3GTPL 4A3GL 4BY7L 2E2IL 4A3LL 2YU9L 4C3HL 3S1RL 3RZOL 5FJ8L 5M3ML 2R7ZL 2E2HL 4A3FL 1TWAL 4C2M1 5C4XL 3GTGL 3M3YL 2B63L 5M5XL 2R93L 4A3EL 4A3KL 1K83L 1I50L 5C44L 2NVQL 4BY1L 3HOVL 4Y7NL 5IYCL 4A3BL 3S1ML 2NVYL 2JA5L 3HKZP 2NVXL 5FLML 3HOUL 5IYDL 2JA8L
chains in the Genus database with same CATH superfamily
1LTLA 1Y1VL 3LNLA 1PZXA 5C4JL 1S30A 5M5WL 3RYGA 3GTML 4LHNA 4WFN1 1RYTA 1I6HL 5MF6A 4C3IL 4AHWA 2JA6L 1RDVA 1B13A 1PFUA 4UY81 1R0GA 5GADc 4G6BA 3JR7A 5MLC3 2XJTA 2A6ED 2V3BB 1PFVA 2O5JD 2HVYC 1B2JA 2R92L 5JVG1 4A93L 4U671 4AI0A 1P7PA 2CR8A 2ERSA 1VZHA 2PYAA 2V0FA 1NXEA 1PFYA 1CADA 3GTLL 3LPEB 7RXNA 2VUML 1WCML 2RDVA 3I4ML 1R9TL 3H99A 1BFYA 3KYWA 3PO2L 3QVDA 1BRFA 4BXXL 2QL0A 4E6YA 1B71A 1ZRPA 4JAFA 2YU9L 2XJUA 2NYDA 2E2HL 5MFZA 6RXNA 3GTGL 3VPBE 2EY4E 5MFPA 1BQ8A 1IRNA 2B63L 1RWDA 2R93L 4A3EL 1OWBA 2PVEA 4AHZA 4A3KL 2NVQL 1YK5A 4B8CD 5IYCL 1LKOA 1C09A 5K2ME 3J7Z1 3KYXA 5FLML 3P2AA 1S24A 3PIO1 3PL5A 3PO3L 2JA7L 4RXNA 2Y0SP 2BE5D 3CQZL 2XJQA 2Z3RB 3S2HL 1SFOL 1NXGA 2ERJA 2PMZP 3LWQB 4ME3A 4A3IL 3HOWL 3S17L 1R0FA 3S2DL 2MS3A 1OWCA 1RDGA 3LWOB 3HOZL 4X6AL 1T9QA 5DM61 2JI3A 2PPTA 5AI3A 2APOB 2AYJA 4AYBP 3RZTA 5GAEc 1BQ9A 1DVBA 3WWLA 1NNQA 5IYBL 5C3EL 5JVH1 2XJPA 4AR4A 3KYVA 1T9OA 1SMWA 3B0AB 5AI2A 4QIWP 4Y52L 3K7AL 1YK4A 1DX8A 4LHLA 4AR5A 1SMMA 2HR5A 4A3GL 2A68D 1R0HA 5H1Sc 4V196 3MSUA 3H97A 4A3LL 3S1RL 2J9UB 5M3ML 4POFA 3PKJA 1TWAL 5C4XL 3H9BA 5M5XL 4AR6A 2ZIXA 3P8BA 1I50L 5C44L 3LWRB 4A3BL 2JA5L 1SMUA 2VL6A 4YWMA 2LCQA 5IYDL 4A3JL 2RFKB 3H3VM 3H0GL 3IU3I 2M4VA 3M4OL 3S14L 4AI1A 4TVMA 5EINC 3LWVB 4BBRL 1QQTA 1B2OA 3J7Y1 1IROA 4A3ML 4A3CL 3ZG6A 3QQCE 4AI3A 2XJSA 3I4NL 3PWFA 4AR3A 1IU6A 3PKIA 1JYBA 1VCXA 1R0IA 3S1NL 4JAEA 3MPSA 2NVTL 1TWHL 3HOYL 2V0EA 5IP7L 1R0JA 2JI2A 1TWGL 3FKIL 3RZDL 5MGNA 2WAQP 2K2DA 5M3FL 3HJYB 3GTJL 3NFPI 1FHMA 2L0ZA 4C3JL 4AI2A 2AQCA 2E2IL 1QYBA 1CAAA 3LWPB 3B08B 2KKDA 4K9FA 5FJ8L 1WJVA 1YUXA 2R7ZL 4XXBB 3PZAA 4A3FL 5GAHc 2H12A 4C2M1 1VZGA 4ZN1B 4BY1L 3HOVL 2Z3QB 4Y7NL 4TPUA 2GMGA 5GAGc 5IY0A 4A3DL 2E2JL 4YWLA 2CKCA 4GS7D 3SS2A 3GTQL 4POGA 3GTKL 1YV1A 1IW7D 1BE7A 2DSXA 1FHHA 3GTOL 4JADA 3KYUA 2CKAA 3K35A 3HJWB 2C6BA 2C6AA 3S15L 1TWFL 5M5YL 1H7VA 3A44A 1LKMA 1Y1WL 2M6PA 2PVXA 8RXNA 2M6OA 4AHYA 5IP9L 1Z92B 3FDJA 1S2ZA 3WWNB 3S16L 2M4YA 3S1QL 1IU5A 4BBSL 2WB1P 1I3QL 1ODHA 3PIP1 2B5ID 3RZ6A 5DM71 2XJRA 3HOXL 3MQKB 1RYQA 2AUSB 1TWCL 1E8JA 5EIOC 1T9PA 3HAXC 3GTPL 4BY7L 1YUZA 1QCVA 4C3HL 3RZOL 4AHXA 5AN9H 1VZIA 2PSMC 2JI1A 3KYYA 4XGHA 3M3YL 2XJVA 4ZN3B 2KN9A 1K83L 1LKPA 2A69D 5RXNA 3S1ML 1RB9A 1F4LA 2NVYL 2A6HD 1PFWA 3HKZP 2NVXL 3HOUL 4JAGA 3H9CA 2JA8L
chains in the Genus database with same CATH topology
1Y1VL 3PO3L 4A3JL 4A3DL 2JA7L 2E2JL 5C4JL 3H3VM 5M5WL 3H0GL 2Y0SP 3CQZL 3GTML 3S2HL 1SFOL 3M4OL 3S14L 1I6HL 3GTQL 3GTKL 4C3IL 4BBRL 2JA6L 3GTOL 2PMZP 4A3IL 3HOWL 3S17L 3S2DL 4A3ML 4A3CL 3S15L 3HOZL 3I4NL 4X6AL 2R92L 1TWFL 4A93L 5M5YL 4AYBP 3S1NL 1Y1WL 2NVTL 1TWHL 3HOYL 5IYBL 5IP9L 5C3EL 5IP7L 1TWGL 3S16L 3FKIL 3S1QL 3RZDL 3GTLL 4BBSL 2WB1P 2VUML 1I3QL 1WCML 3I4ML 1R9TL 2WAQP 4QIWP 4Y52L 3HOXL 3K7AL 1TWCL 5M3FL 3PO2L 3GTJL 4C3JL 4BXXL 3GTPL 4A3GL 4BY7L 2E2IL 4A3LL 2YU9L 4C3HL 3S1RL 3RZOL 5FJ8L 5M3ML 2R7ZL 2E2HL 4A3FL 1TWAL 4C2M1 5C4XL 3GTGL 3M3YL 2B63L 5M5XL 2R93L 4A3EL 4A3KL 1K83L 1I50L 5C44L 2NVQL 4BY1L 3HOVL 4Y7NL 5IYCL 4A3BL 3S1ML 2NVYL 2JA5L 3HKZP 2NVXL 5FLML 3HOUL 5IYDL 2JA8L
chains in the Genus database with same CATH homology


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