3GTML

Co-complex of backtracked rna polymerase ii with tfiis
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
b'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 subunit RPB1
publication title Structural basis of transcription: backtracked RNA polymerase II at 3.4 angstrom resolution.
pubmed doi rcsb
source organism Saccharomyces cerevisiae
molecule tags Transcription, transferase/dna-rna hybrid
total genus 1
structure length 46
sequence length 46
ec nomenclature
pdb deposition date 2009-03-27

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 3gtmL00
3RZDL 2E2HL 2NVQL 3I4NL 4A3ML 3HOYL 2PMZP 2NVYL 1I50L 3HOZL 1TWFL 2VUML 2JA6L 3GTLL 4A3GL 4BXXL 4Y7NL 3S16L 3GTJL 4BY1L 3K7AL 5C44L 4A3DL 5C4JL 3S1QL 5IP9L 1R9TL 3GTQL 3GTKL 1Y1VL 3HOVL 4X6AL 4Y52L 5M5YL 4C3IL 3M4OL 3HOUL 3S2HL 5IYBL 5M3FL 4A3IL 2NVTL 4A3CL 1I3QL 5M5XL 4A3EL 4A3LL 4BBRL 4A3FL 3GTGL 1SFOL 2R92L 2E2JL 3PO3L 3S1RL 2R7ZL 2JA8L 3S17L 2B63L 5IYDL 4A3JL 4A3KL 5M5WL 2Y0SP 5C4XL 4QIWP 3HOXL 3S14L 2WB1P 3H0GL 1TWHL 4C2M1 1WCML 3FKIL 2JA5L 2E2IL 2NVXL 2R93L 5FJ8L 4A3BL 5IP7L 1TWAL 3S1ML 3GTML 3PO2L 4A93L 1Y1WL 3S15L 3GTOL 5C3EL 2WAQP 5M3ML 5IYCL 5FLML 3S1NL 3CQZL 1K83L 1I6HL 3GTPL 3M3YL 3I4ML 4BY7L 3HOWL 1TWGL 3HKZP 3S2DL 4C3JL 2YU9L 1TWCL 2JA7L 4AYBP 4C3HL 3H3VM 4BBSL 3RZOL
chains in the Genus database with same CATH superfamily
3RZDL 2V0EA 2NVQL 2BE5D 2NVYL 4JADA 4B8CD 2AYJA 3HJYB 1SMUA 2VUML 2XJVA 3PKIA 4BXXL 4Y7NL 1RDVA 3S16L 4BY1L 1DVBA 5C44L 1VZGA 4X6AL 4Y52L 1OWCA 4K9FA 3HOUL 2M6PA 5MFZA 3LWRB 2CKCA 1OWBA 1BE7A 2DSXA 4A3CL 4A3LL 4A3FL 4JAFA 2C6AA 2A69D 3PKJA 5GAGc 3PO3L 3S1RL 2R7ZL 2JA8L 3S17L 4WFN1 2B63L 5C4XL 3MSUA 4AR5A 1YK4A 1C09A 1IROA 1PFWA 2R93L 3P2AA 3RZTA 4XXBB 3JR7A 1Y1WL 4ZN1B 5M3ML 2PVXA 3CQZL 1I6HL 3GTPL 3M3YL 3I4ML 4AHWA 2PYAA 4C3JL 1TWCL 1ODHA 3PIO1 4C3HL 5H1Sc 3H3VM 4BBSL 3RZOL 3ZG6A 2E2HL 2A6HD 4YWLA 1R0JA 2Z3RB 2B5ID 1T9QA 4A3ML 3HOYL 2PMZP 5JVH1 2QL0A 3HOZL 4AI1A 5EINC 5MGNA 3VPBE 3K7AL 4A3DL 5C4JL 1Y1VL 2M4VA 1SMMA 4C3IL 3M4OL 2XJRA 1WJVA 1QYBA 3S2HL 5IYBL 3KYYA 1CADA 1IU5A 3A44A 2CKAA 3KYVA 2R92L 1H7VA 2M6OA 2APOB 3H9CA 2V3BB 4AR4A 1Z92B 1YUZA 1FHMA 1B2JA 5IYDL 1NXEA 5M5WL 4QIWP 3HOXL 2WB1P 2XJUA 2KKDA 1WCML 2ERJA 3HJWB 2RDVA 2NYDA 5IY0A 3MQKB 3IU3I 1DX8A 3S1ML 2XJSA 1FHHA 2XJQA 3GTOL 2WAQP 2L0ZA 5AI2A 4AHXA 3LWPB 4BY7L 3HOWL 1TWGL 3KYWA 3B0AB 1T9OA 3LWQB 3S2DL 1BRFA 2JA7L 1VCXA 1JYBA 2PVEA 1RYQA 3LNLA 4XGHA 3HAXC 4YWMA 2PSMC 3PZAA 1B71A 3I4NL 5AN9H 2A68D 2K2DA 1I50L 4JAGA 3FDJA 1TWFL 2M4YA 2H12A 3GTLL 3H97A 3LPEB 2RFKB 6RXNA 4LHLA 2CR8A 4AR6A 5DM61 4U671 1PZXA 2GMGA 4GS7D 5JVG1 5GAEc 2HR5A 3RZ6A 5IP9L 1R9TL 3GTQL 3S1QL 3HOVL 3SS2A 2ERSA 5M5YL 1RB9A 1RYTA 2XJTA 1PFUA 5M3FL 4A3IL 2NVTL 1I3QL 5M5XL 5EIOC 4BBRL 4AI2A 1SFOL 4ZN3B 1PFVA 3J7Z1 2E2JL 2Z3QB 3RYGA 2JI2A 4A3JL 1BQ8A 5GAHc 2ZIXA 1ZRPA 1SMWA 5K2ME 1R0GA 1E8JA 1BFYA 2JA5L 2LCQA 2E2IL 5IP7L 1TWAL 4G6BA 3LWVB 4A93L 2O5JD 2AUSB 3PWFA 1RWDA 1NXGA 5IYCL 5FLML 3LWOB 4AI0A 1YUXA 1RDGA 4LHNA 4TPUA 3J7Y1 2HVYC 2AQCA 4AYBP 1P7PA 8RXNA 2V0FA 4AHYA 1QCVA 4TVMA 4UY81 1LTLA 1PFYA 2JA6L 5AI3A 4A3GL 3GTJL 2MS3A 3GTKL 5MF6A 3PL5A 1R0HA 1T9PA 3QQCE 2JI3A 1CAAA 3H99A 4AHZA 4AI3A 1LKPA 1R0FA 4A3EL 3P8BA 3GTGL 5DM71 1NNQA 1F4LA 3KYUA 4POGA 1BQ9A 4ME3A 1QQTA 1LKOA 5GADc 4A3KL 2Y0SP 4POFA 7RXNA 3S14L 3H0GL 3K35A 1TWHL 4RXNA 1S30A 4C2M1 3FKIL 2NVXL 5FJ8L 4A3BL 1LKMA 3MPSA 3GTML 3PO2L 1B2OA 1IW7D 5MLC3 2A6ED 3H9BA 2EY4E 3PIP1 1YV1A 1S24A 3S15L 5C3EL 2KN9A 3WWNB 4AR3A 2J9UB 3QVDA 3S1NL 1S2ZA 1IU6A 2XJPA 2PPTA 3WWLA 1K83L 4V196 2VL6A 4JAEA 3KYXA 5MFPA 3B08B 1IRNA 3HKZP 1YK5A 2YU9L 1R0IA 1VZIA 1VZHA 4E6YA 5RXNA 2JI1A 2C6BA 3NFPI 1B13A
chains in the Genus database with same CATH topology
3RZDL 2E2HL 2NVQL 3I4NL 4A3ML 3HOYL 2PMZP 2NVYL 1I50L 3HOZL 1TWFL 2VUML 2JA6L 3GTLL 4A3GL 4BXXL 4Y7NL 3S16L 3GTJL 4BY1L 3K7AL 5C44L 4A3DL 5C4JL 3S1QL 5IP9L 1R9TL 3GTQL 3GTKL 1Y1VL 3HOVL 4X6AL 4Y52L 5M5YL 4C3IL 3M4OL 3HOUL 3S2HL 5IYBL 5M3FL 4A3IL 2NVTL 4A3CL 1I3QL 5M5XL 4A3EL 4A3LL 4BBRL 4A3FL 3GTGL 1SFOL 2R92L 2E2JL 3PO3L 3S1RL 2R7ZL 2JA8L 3S17L 2B63L 5IYDL 4A3JL 4A3KL 5M5WL 2Y0SP 5C4XL 4QIWP 3HOXL 3S14L 2WB1P 3H0GL 1TWHL 4C2M1 1WCML 3FKIL 2JA5L 2E2IL 2NVXL 2R93L 5FJ8L 4A3BL 5IP7L 1TWAL 3S1ML 3GTML 3PO2L 4A93L 1Y1WL 3S15L 3GTOL 5C3EL 2WAQP 5M3ML 5IYCL 5FLML 3S1NL 3CQZL 1K83L 1I6HL 3GTPL 3M3YL 3I4ML 4BY7L 3HOWL 1TWGL 3HKZP 3S2DL 4C3JL 2YU9L 1TWCL 2JA7L 4AYBP 4C3HL 3H3VM 4BBSL 3RZOL
chains in the Genus database with same CATH homology


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