1Y1WL

Complete rna polymerase ii elongation complex
Total Genus 0
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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
0
sequence length
46
structure length
46
Chain Sequence
ATLKYICAECSSKLSLSRTDAVRCKDCGHRILLKARTKRLVQFEAR

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,transferase/dna-rna hybrid
molecule keywords 5'-D(P*AP*GP*TP*AP*CP*TP*TP*AP*CP*GP*CP*CP*TP*GP*GP*TP*CP*AP
publication title Complete RNA Polymerase II Elongation Complex Structure and Its Interactions with NTP and TFIIS
pubmed doi rcsb
structure length 46
sequence length 46
ec nomenclature
pdb deposition date 2004-11-19

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 1y1wL00
3S2DL 3M3YL 3GTML 5FLML 1I3QL 1I6HL 3GTQL 1TWCL 4A3ML 4C3JL 3HOZL 3S1QL 2WB1P 1TWAL 3M4OL 5C44L 2R7ZL 5M3FL 1TWHL 3S1RL 3S15L 1K83L 1TWGL 4A3IL 3H3VM 3RZDL 2NVYL 5IYDL 2VUML 5M5WL 4A3GL 5IYBL 2JA7L 4A3DL 4C3HL 1Y1VL 4A3FL 5IYCL 3I4NL 3S16L 3GTKL 3HOUL 2PMZP 5M5YL 4A3EL 5C4XL 3FKIL 2NVXL 4C2M1 2JA6L 3GTPL 2E2JL 4C3IL 4QIWP 3S17L 2R93L 5C3EL 3HKZP 4A93L 4BY7L 3HOYL 4A3BL 3GTLL 4A3JL 1WCML 4BXXL 3CQZL 3GTOL 2NVTL 3PO3L 3PO2L 4BBRL 2E2IL 3S2HL 2NVQL 5C4JL 3S1NL 3K7AL 2WAQP 5IP9L 4BBSL 4X6AL 1Y1WL 2E2HL 2R92L 2JA8L 5M3ML 3GTJL 5FJ8L 2YU9L 3GTGL 3HOWL 4A3KL 1SFOL 4AYBP 2B63L 4BY1L 5M5XL 1I50L 3I4ML 4Y52L 4Y7NL 3S1ML 2Y0SP 1R9TL 3HOXL 1TWFL 2JA5L 3HOVL 4A3LL 5IP7L 4A3CL 3H0GL 3RZOL 3S14L
chains in the Genus database with same CATH superfamily
3S2DL 5DM61 1QCVA 2NYDA 1CADA 3GTQL 1B2OA 3HOZL 2ERJA 2WB1P 1OWCA 1YV1A 2A6ED 3M4OL 2CR8A 1FHHA 2JA7L 3PIP1 1Y1VL 4A3FL 2PVEA 3HOUL 1BFYA 4YWMA 4AR3A 4A3EL 2O5JD 3KYWA 3PKJA 4JADA 5MLC3 2PVXA 4A93L 4B8CD 3HOYL 3SS2A 1YK4A 2A69D 3PZAA 4AHWA 3PIO1 3JR7A 1F4LA 4BXXL 3CQZL 2RFKB 3PO2L 3LWQB 4V196 1T9OA 2KN9A 4POGA 3LWOB 2GMGA 1R0FA 2QL0A 4X6AL 1QQTA 2E2HL 2DSXA 5AI3A 3GTJL 5IY0A 1CAAA 2A6HD 3KYVA 3HOWL 3NFPI 3WWLA 1IRNA 2XJTA 1BE7A 2HR5A 3RZTA 4Y7NL 1Z92B 2J9UB 5GADc 1ZRPA 4TVMA 3LPEB 2PYAA 1R9TL 2XJRA 4YWLA 1TWFL 5GAHc 1LKPA 1OWBA 3J7Y1 4A3CL 6RXNA 4AI1A 3GTML 3KYXA 4C3JL 5DM71 2V0EA 1RYTA 1B71A 5EIOC 3P2AA 1VZHA 3S1RL 3S15L 1TWGL 4A3IL 1VCXA 3H3VM 2LCQA 1RDGA 2NVYL 2VUML 4LHLA 5IYBL 4A3DL 1IU6A 4AI2A 8RXNA 5IYCL 2A68D 2ZIXA 1RWDA 5M5YL 3FKIL 4JAGA 2C6AA 3GTPL 2E2JL 4QIWP 2K2DA 2APOB 5EINC 2AYJA 4A3JL 4JAFA 2H12A 3H97A 4ZN3B 2JI3A 3S2HL 1ODHA 1QYBA 1BQ8A 5C4JL 4ZN1B 3S1NL 3K7AL 2WAQP 3H9BA 2M6PA 2JA8L 1JYBA 2CKCA 1RB9A 1R0IA 2YU9L 3GTGL 3VPBE 5AI2A 1E8JA 3I4ML 4Y52L 3S1ML 3H99A 2JA5L 3HJWB 3B0AB 1S2ZA 3RZOL 1SMUA 2BE5D 5FLML 4JAEA 1PFWA 4A3ML 3S1QL 1T9QA 4AHYA 1YUXA 5MGNA 4XXBB 3PKIA 4AHZA 2ERSA 5C44L 2R7ZL 3HAXC 2XJVA 1K83L 5GAGc 4AR6A 2XJSA 5IYDL 2AQCA 3LWPB 4A3GL 1C09A 3QVDA 1DX8A 4C3HL 3I4NL 2XJUA 4E6YA 4POFA 5K2ME 2M6OA 4WFN1 5C4XL 2PPTA 4U671 4C2M1 4C3IL 3S17L 1IROA 3FDJA 4BY7L 4A3BL 3A44A 1WCML 1BRFA 3P8BA 1SMWA 3GTOL 2PSMC 2M4YA 2V0FA 2NVTL 2B5ID 1IU5A 1PZXA 4BBRL 2E2IL 1P7PA 2NVQL 2Z3QB 2KKDA 4AR4A 5JVG1 4BBSL 1PFYA 1B13A 1Y1WL 4RXNA 2EY4E 5MF6A 5FJ8L 3PWFA 1PFUA 4A3KL 3LWRB 1SFOL 4BY1L 4K9FA 5M5XL 3LWVB 3MQKB 1I50L 1NXGA 3J7Z1 3MPSA 3RYGA 1RYQA 2Y0SP 3HOXL 1H7VA 1WJVA 4A3LL 3IU3I 4XGHA 3HJYB 3H0GL 1IW7D 3M3YL 1T9PA 1S30A 2L0ZA 1I3QL 3QQCE 1I6HL 5GAEc 1TWCL 2M4VA 2XJQA 2V3BB 5JVH1 4ME3A 3ZG6A 5AN9H 3PL5A 1TWAL 3KYUA 5MFPA 5M3FL 5MFZA 1TWHL 4LHNA 1BQ9A 4AHXA 3RZDL 2XJPA 5M5WL 7RXNA 3S16L 1B2JA 5H1Sc 3GTKL 1R0HA 2PMZP 2NVXL 2MS3A 2RDVA 2JA6L 3RZ6A 1VZGA 3H9CA 2R93L 2AUSB 4G6BA 5C3EL 3HKZP 2JI2A 1YUZA 4GS7D 3GTLL 3KYYA 2HVYC 5RXNA 1NNQA 1LKMA 3PO3L 5IP9L 4TPUA 1RDVA 3K35A 2R92L 2VL6A 2Z3RB 5M3ML 1LTLA 3LNLA 2C6BA 4AI3A 1LKOA 3MSUA 1PFVA 4AYBP 2B63L 1DVBA 1YK5A 3B08B 2JI1A 3HOVL 4AI0A 1R0JA 1R0GA 4AR5A 1NXEA 2CKAA 5IP7L 1VZIA 4UY81 3WWNB 1SMMA 1FHMA 3S14L 1S24A
chains in the Genus database with same CATH topology
3S2DL 3M3YL 3GTML 5FLML 1I3QL 1I6HL 3GTQL 1TWCL 4A3ML 4C3JL 3HOZL 3S1QL 2WB1P 1TWAL 3M4OL 5C44L 2R7ZL 5M3FL 1TWHL 3S1RL 3S15L 1K83L 1TWGL 4A3IL 3H3VM 3RZDL 2NVYL 5IYDL 2VUML 5M5WL 4A3GL 5IYBL 2JA7L 4A3DL 4C3HL 1Y1VL 4A3FL 5IYCL 3I4NL 3S16L 3GTKL 3HOUL 2PMZP 5M5YL 4A3EL 5C4XL 3FKIL 2NVXL 4C2M1 2JA6L 3GTPL 2E2JL 4C3IL 4QIWP 3S17L 2R93L 5C3EL 3HKZP 4A93L 4BY7L 3HOYL 4A3BL 3GTLL 4A3JL 1WCML 4BXXL 3CQZL 3GTOL 2NVTL 3PO3L 3PO2L 4BBRL 2E2IL 3S2HL 2NVQL 5C4JL 3S1NL 3K7AL 2WAQP 5IP9L 4BBSL 4X6AL 1Y1WL 2E2HL 2R92L 2JA8L 5M3ML 3GTJL 5FJ8L 2YU9L 3GTGL 3HOWL 4A3KL 1SFOL 4AYBP 2B63L 4BY1L 5M5XL 1I50L 3I4ML 4Y52L 4Y7NL 3S1ML 2Y0SP 1R9TL 3HOXL 1TWFL 2JA5L 3HOVL 4A3LL 5IP7L 4A3CL 3H0GL 3RZOL 3S14L
chains in the Genus database with same CATH homology


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