1WCML

Complete 12-subunit rna polymerase ii at 3.8 angstrom
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 tags Transcription
source organism Saccharomyces cerevisiae
publication title Structures of Complete RNA Polymerase II and its Subcomplex,Rpb4/7
pubmed doi rcsb
molecule keywords DNA-DIRECTED RNA POLYMERASE II LARGEST SUBUNIT
total genus 1
structure length 46
sequence length 46
ec nomenclature
pdb deposition date 2004-11-17

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 1wcmL00
3GTLL 4A3BL 3GTKL 5C4JL 3PO3L 2R7ZL 1TWAL 3RZDL 4A3DL 4Y52L 1TWFL 1SFOL 2JA8L 3S1ML 5M5YL 3HOYL 4A3IL 3S17L 3S16L 5C44L 4BY7L 3S14L 3GTPL 1TWGL 5IYCL 4A3EL 4Y7NL 4C3JL 2JA6L 3GTQL 3H3VM 4C3HL 5FJ8L 3I4ML 1Y1VL 4A3KL 4A3JL 2NVQL 2R92L 2E2JL 3S1NL 3K7AL 4BY1L 5M5XL 4BXXL 4C3IL 3I4NL 3GTML 4A3CL 2B63L 2E2HL 3HKZP 1I3QL 3GTJL 1I6HL 3M3YL 4QIWP 3S2DL 2NVTL 3HOZL 2R93L 2YU9L 4C2M1 5IYBL 3HOWL 4A3GL 4A3LL 3S1RL 4A3FL 3S1QL 5C3EL 4BBRL 1TWHL 3GTGL 3HOUL 3HOVL 1Y1WL 1WCML 5M3ML 1I50L 1K83L 2JA5L 2JA7L 5M5WL 2PMZP 3RZOL 5FLML 2Y0SP 5IP7L 5IP9L 4X6AL 3PO2L 4BBSL 5M3FL 2NVXL 4AYBP 4A3ML 5IYDL 5C4XL 2WAQP 3HOXL 2NVYL 3H0GL 3M4OL 1TWCL 4A93L 3S15L 3GTOL 1R9TL 3FKIL 2WB1P 3CQZL 2E2IL 3S2HL 2VUML
chains in the Genus database with same CATH superfamily
1RDVA 2PYAA 2R7ZL 1R0HA 2AYJA 1SFOL 1NXGA 3S1ML 1R0IA 5MF6A 5M5YL 3S17L 3P2AA 3S14L 2XJUA 7RXNA 5GAHc 1BFYA 3KYWA 4A3EL 3HAXC 4UY81 5GAEc 2JA6L 3WWLA 2H12A 5FJ8L 4AHZA 3I4ML 1Y1VL 2R92L 5EINC 3WWNB 2E2JL 1IRNA 4E6YA 1T9PA 5EIOC 1VZGA 4A3CL 3LWOB 2HR5A 1IROA 3K35A 1I6HL 5MFPA 2ERJA 1YUZA 2PVEA 2NYDA 4AHXA 2YU9L 4C2M1 4AI0A 4G6BA 1CAAA 3LWRB 1B2OA 3GTGL 2DSXA 4LHNA 2PSMC 4ZN3B 5H1Sc 2JA5L 4RXNA 3KYYA 2JA7L 4JADA 3LNLA 3H9CA 1B71A 1BE7A 4AR4A 1PFWA 4JAFA 5M3FL 4AYBP 4U671 2L0ZA 5C4XL 1OWCA 5MFZA 2A6ED 2APOB 3S15L 1R0JA 1S2ZA 5JVG1 2E2IL 2VUML 3GTLL 1YV1A 5C4JL 2HVYC 4JAEA 3MSUA 3RZ6A 3PZAA 1TWFL 2V0FA 2AQCA 5AI2A 1C09A 2JA8L 2XJVA 6RXNA 2GMGA 3HOYL 2MS3A 4BY7L 5C44L 1YUXA 1P7PA 4B8CD 1OWBA 1TWGL 1YK5A 2V3BB 3LWVB 4AI2A 4A3KL 3RZTA 4JAGA 2XJRA 1VZIA 1SMMA 3S1NL 4YWLA 4POFA 5M5XL 1CADA 4BXXL 3I4NL 3QVDA 2B63L 3HJYB 2M6OA 3KYUA 2CR8A 2J9UB 2KN9A 4QIWP 1IW7D 2R93L 2JI3A 2KKDA 1PFUA 3HOWL 1ODHA 4A3GL 4AR5A 4ZN1B 3S1QL 2XJQA 1LKOA 5RXNA 1K83L 1RDGA 2PVXA 5GAGc 1BQ9A 5IP9L 3PO2L 2M4VA 1QQTA 2C6BA 4LHLA 3HOXL 3H0GL 1TWCL 2Z3RB 4XXBB 1RYTA 4A93L 1R9TL 1T9QA 3B08B 3RZDL 4A3BL 3PKIA 4ME3A 3PO3L 1Z92B 1PZXA 1S30A 4A3DL 4Y52L 4AHYA 2EY4E 2XJTA 4TPUA 5AI3A 4XGHA 3J7Z1 3RYGA 1NXEA 3PIO1 4K9FA 4A3IL 3MQKB 3PKJA 1FHHA 1H7VA 4Y7NL 4C3JL 1BRFA 3KYVA 3H3VM 3P8BA 4C3HL 1BQ8A 3IU3I 4A3JL 2AUSB 4WFN1 2ZIXA 1DVBA 1LKPA 3H99A 3KYXA 3K7AL 4BY1L 4C3IL 3J7Y1 3MPSA 2E2HL 4YWMA 1I3QL 5GADc 1VZHA 4AI3A 1RB9A 1LKMA 3S2DL 2JI2A 2NVTL 3VPBE 1SMWA 5MLC3 5IYBL 5JVH1 8RXNA 1DX8A 3QQCE 4A3LL 3HOVL 4BBRL 2RFKB 1Y1WL 1PFVA 3PL5A 5M3ML 2A6HD 1I50L 2V0EA 1ZRPA 1QYBA 1B13A 5M5WL 3RZOL 5FLML 4BBSL 5DM71 2NVXL 4AI1A 5DM61 3LWQB 3HJWB 2WAQP 3M4OL 2JI1A 3H97A 2XJPA 3H9BA 4POGA 1R0GA 3LWPB 5MGNA 2BE5D 5K2ME 3CQZL 3FDJA 3S2HL 3GTKL 3LPEB 1TWAL 1IU6A 2K2DA 2Z3QB 1LTLA 1SMUA 4AR6A 1QCVA 3S16L 3GTPL 5IYCL 5AN9H 2A69D 4TVMA 3GTQL 3ZG6A 2ERSA 1F4LA 2NVQL 1FHMA 3A44A 4AHWA 1PFYA 1VCXA 1RWDA 2CKAA 1NNQA 3GTML 2C6AA 3HKZP 3GTJL 1IU5A 3M3YL 2RDVA 1B2JA 2O5JD 2B5ID 3PWFA 2LCQA 3HOZL 3B0AB 2PPTA 3JR7A 3PIP1 3S1RL 1JYBA 2M4YA 3NFPI 4A3FL 1R0FA 5C3EL 3HOUL 1TWHL 1S24A 1WCML 2A68D 2CKCA 2VL6A 2PMZP 2XJSA 2Y0SP 5IP7L 4X6AL 4A3ML 5IYDL 1RYQA 2NVYL 1T9OA 1E8JA 1WJVA 2M6PA 2QL0A 5IY0A 1YK4A 3GTOL 4AR3A 3FKIL 2WB1P 4GS7D 3SS2A 4V196
chains in the Genus database with same CATH topology
3GTLL 4A3BL 3GTKL 5C4JL 3PO3L 2R7ZL 1TWAL 3RZDL 4A3DL 4Y52L 1TWFL 1SFOL 2JA8L 3S1ML 5M5YL 3HOYL 4A3IL 3S17L 3S16L 5C44L 4BY7L 3S14L 3GTPL 1TWGL 5IYCL 4A3EL 4Y7NL 4C3JL 2JA6L 3GTQL 3H3VM 4C3HL 5FJ8L 3I4ML 1Y1VL 4A3KL 4A3JL 2NVQL 2R92L 2E2JL 3S1NL 3K7AL 4BY1L 5M5XL 4BXXL 4C3IL 3I4NL 3GTML 4A3CL 2B63L 2E2HL 3HKZP 1I3QL 3GTJL 1I6HL 3M3YL 4QIWP 3S2DL 2NVTL 3HOZL 2R93L 2YU9L 4C2M1 5IYBL 3HOWL 4A3GL 4A3LL 3S1RL 4A3FL 3S1QL 5C3EL 4BBRL 1TWHL 3GTGL 3HOUL 3HOVL 1Y1WL 1WCML 5M3ML 1I50L 1K83L 2JA5L 2JA7L 5M5WL 2PMZP 3RZOL 5FLML 2Y0SP 5IP7L 5IP9L 4X6AL 3PO2L 4BBSL 5M3FL 2NVXL 4AYBP 4A3ML 5IYDL 5C4XL 2WAQP 3HOXL 2NVYL 3H0GL 3M4OL 1TWCL 4A93L 3S15L 3GTOL 1R9TL 3FKIL 2WB1P 3CQZL 2E2IL 3S2HL 2VUML
chains in the Genus database with same CATH homology


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