3CQZL

Crystal structure of 10 subunit rna polymerase ii in complex with the inhibitor alpha-amanitin
Total Genus 3
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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
3
sequence length
45
structure length
43
Chain Sequence
TLKYICAECSSKLSLSRTDAVRCCGHRILLKARTKRLVQFEAR
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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 The RNA Polymerase II Trigger Loop Functions in Substrate Selection and is Directly Targeted by Alpha-Amanitin.
pubmed doi rcsb
molecule tags Transcription/toxin
total genus 3
structure length 43
sequence length 45
ec nomenclature
pdb deposition date 2008-04-03

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 3cqzL00
4C3IL 1TWFL 3S1ML 5IYCL 4A3FL 1WCML 5M5XL 3S2HL 4BY7L 1TWGL 2R92L 4QIWP 3FKIL 5C44L 4BBSL 2WAQP 2E2JL 3GTPL 1I3QL 3GTLL 5C4JL 3GTGL 3K7AL 3S17L 2B63L 4BXXL 2NVTL 3S1NL 2NVQL 4A3CL 4Y52L 1SFOL 3GTJL 5IYDL 3HOYL 1I6HL 3H3VM 3S16L 2E2IL 1Y1WL 4A3ML 3S1QL 2PMZP 5M5WL 1Y1VL 3PO3L 3HOXL 4BY1L 4A3IL 2JA5L 3HOVL 2VUML 3HOZL 1TWAL 1TWCL 4A3GL 3I4ML 3GTKL 3M3YL 4A3BL 5IP9L 1K83L 3HOWL 2NVYL 5C4XL 2JA6L 3GTML 1R9TL 4Y7NL 2YU9L 4A3DL 3HKZP 4AYBP 4BBRL 4C2M1 4A3EL 3S1RL 2JA7L 3RZDL 2WB1P 5FLML 5FJ8L 5C3EL 5IP7L 1TWHL 3HOUL 4C3JL 3S2DL 3H0GL 3GTQL 3M4OL 5M3ML 2NVXL 3CQZL 2Y0SP 5M3FL 4A93L 4A3JL 4A3KL 2R7ZL 3I4NL 4X6AL 5IYBL 3PO2L 2R93L 1I50L 3S14L 3S15L 5M5YL 4C3HL 3GTOL 4A3LL 2E2HL 2JA8L 3RZOL
chains in the Genus database with same CATH superfamily
2XJSA 3S1ML 1BQ8A 5IYCL 1LKOA 3PL5A 4BY7L 4RXNA 1B2JA 5JVG1 4AI2A 4QIWP 1PZXA 2A68D 3FKIL 4AI0A 3J7Z1 4BBSL 2E2JL 1I3QL 1PFUA 4U671 5C4JL 4LHNA 3PIP1 4ZN3B 3KYYA 4BXXL 5MFPA 5GAEc 1IRNA 4B8CD 1R0JA 4JADA 1IW7D 3HJYB 3RZTA 1LKPA 3SS2A 1F4LA 3MQKB 3H9BA 2DSXA 2E2IL 2V3BB 1NXGA 2AYJA 8RXNA 1Y1VL 4AHXA 4A3IL 7RXNA 5AN9H 3HOVL 4LHLA 3HOZL 1T9PA 3I4ML 2PVEA 3GTKL 1FHMA 4A3BL 5MGNA 1BE7A 5IP9L 3P8BA 5C4XL 3PWFA 3ZG6A 3H99A 3PKJA 4AI3A 1RYQA 4A3DL 2PPTA 3RZDL 2WB1P 2EY4E 5FJ8L 5C3EL 3HOUL 4XXBB 3H0GL 3RZ6A 2Y0SP 4XGHA 5M3FL 2NYDA 4E6YA 3I4NL 2Z3RB 2XJUA 1I50L 2L0ZA 1RYTA 2HVYC 5M5YL 2XJPA 5AI2A 1R0GA 2ERSA 3H97A 3FDJA 3KYXA 3RYGA 4JAEA 4AHYA 5C44L 1LTLA 2WAQP 1RDGA 2O5JD 2NVTL 5MF6A 6RXNA 4YWMA 2NVQL 3QQCE 3KYWA 4TPUA 1SFOL 3GTJL 5IYDL 3KYUA 2KN9A 4AR4A 2XJRA 1NNQA 1IROA 3LWOB 4GS7D 4AHWA 1VZIA 5MLC3 3IU3I 1CADA 3HJWB 2VUML 1TWAL 3QVDA 1YK5A 3M3YL 3P2AA 2LCQA 1ZRPA 1K83L 3PKIA 1R0FA 2NVYL 3J7Y1 1R0HA 4POGA 1R9TL 4K9FA 4JAGA 2VL6A 2RFKB 4C2M1 1B2OA 2JA7L 1CAAA 5FLML 5JVH1 2XJVA 5IP7L 4AI1A 4C3JL 3S2DL 5H1Sc 2APOB 1DVBA 1IU6A 1WJVA 2MS3A 4A3JL 1YUZA 3NFPI 2R93L 1VZHA 3S14L 1YUXA 3S15L 3MPSA 1BRFA 4V196 2Z3QB 1LKMA 1NXEA 5AI3A 3LWVB 4A3LL 2E2HL 4C3IL 1TWFL 3LWRB 1B71A 4A3FL 1RB9A 3K35A 1VCXA 1TWGL 2R92L 2AQCA 1S30A 5RXNA 3H9CA 1YV1A 1RWDA 2RDVA 4UY81 4JAFA 3GTGL 3S17L 1QYBA 2B63L 3S1NL 4Y52L 1H7VA 3LWQB 1I6HL 3PZAA 2CR8A 4A3ML 3S1QL 4AR5A 1YK4A 1QCVA 5M5WL 2V0EA 1S2ZA 3PIO1 3B0AB 4ZN1B 1TWCL 1BFYA 2A69D 3WWLA 3HAXC 1OWBA 4TVMA 5GADc 1FHHA 2PVXA 2C6BA 5DM61 3RZOL 2PSMC 1PFWA 4AR6A 1BQ9A 2JA6L 4Y7NL 3B08B 2YU9L 4BBRL 2A6ED 3S1RL 4YWLA 2PYAA 1TWHL 2GMGA 1JYBA 2NVXL 3CQZL 2M6PA 2XJTA 2R7ZL 3PO2L 2XJQA 5GAHc 4C3HL 3LWPB 1R0IA 2JI1A 2M6OA 2ZIXA 5M3ML 2JA8L 3VPBE 5EIOC 1P7PA 1T9OA 1QQTA 1WCML 2M4YA 3LPEB 2QL0A 5M5XL 5IY0A 3S2HL 1ODHA 1VZGA 2CKCA 1E8JA 2C6AA 3GTPL 3GTLL 1OWCA 1SMUA 2B5ID 4WFN1 3K7AL 2H12A 1T9QA 4POFA 5MFZA 2JI2A 3WWNB 4A3CL 3HOYL 3KYVA 4G6BA 3H3VM 3LNLA 3S16L 5K2ME 1Y1WL 2JI3A 4ME3A 2PMZP 2AUSB 2J9UB 3PO3L 3HOXL 4BY1L 1IU5A 1SMMA 2JA5L 5DM71 2V0FA 1S24A 4A3GL 2ERJA 5EINC 2KKDA 1PFYA 2HR5A 3HOWL 1PFVA 3GTML 1Z92B 3MSUA 4AHZA 1B13A 3HKZP 4AYBP 4A3EL 2CKAA 3JR7A 1SMWA 3GTQL 1DX8A 3A44A 3M4OL 1RDVA 4A93L 2BE5D 4A3KL 4AR3A 4X6AL 5IYBL 2K2DA 1C09A 2A6HD 2M4VA 3GTOL 5GAGc
chains in the Genus database with same CATH topology
4C3IL 1TWFL 3S1ML 5IYCL 4A3FL 1WCML 5M5XL 3S2HL 4BY7L 1TWGL 2R92L 4QIWP 3FKIL 5C44L 4BBSL 2WAQP 2E2JL 3GTPL 1I3QL 3GTLL 5C4JL 3GTGL 3K7AL 3S17L 2B63L 4BXXL 2NVTL 3S1NL 2NVQL 4A3CL 4Y52L 1SFOL 3GTJL 5IYDL 3HOYL 1I6HL 3H3VM 3S16L 2E2IL 1Y1WL 4A3ML 3S1QL 2PMZP 5M5WL 1Y1VL 3PO3L 3HOXL 4BY1L 4A3IL 2JA5L 3HOVL 2VUML 3HOZL 1TWAL 1TWCL 4A3GL 3I4ML 3GTKL 3M3YL 4A3BL 5IP9L 1K83L 3HOWL 2NVYL 5C4XL 2JA6L 3GTML 1R9TL 4Y7NL 2YU9L 4A3DL 3HKZP 4AYBP 4BBRL 4C2M1 4A3EL 3S1RL 2JA7L 3RZDL 2WB1P 5FLML 5FJ8L 5C3EL 5IP7L 1TWHL 3HOUL 4C3JL 3S2DL 3H0GL 3GTQL 3M4OL 5M3ML 2NVXL 3CQZL 2Y0SP 5M3FL 4A93L 4A3JL 4A3KL 2R7ZL 3I4NL 4X6AL 5IYBL 3PO2L 2R93L 1I50L 3S14L 3S15L 5M5YL 4C3HL 3GTOL 4A3LL 2E2HL 2JA8L 3RZOL
chains in the Genus database with same CATH homology


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