4BBRL

Structure of rna polymerase ii-tfiib complex
Total Genus 4
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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
4
sequence length
44
structure length
44
Chain Sequence
LKYICAECSSKLSLSRTDAVRCKDCGHRILLKARTKRLVQFEAR
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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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publication title Structure and Function of the Initially Transcribing RNA Polymerase II-TFIIB Complex
pubmed doi rcsb
molecule tags Transcription
source organism Saccharomyces cerevisiae
molecule keywords DNA-DIRECTED RNA POLYMERASE II SUBUNIT RPB1
total genus 4
structure length 44
sequence length 44
ec nomenclature
pdb deposition date 2012-09-27

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 4bbrL00
1I6HL 2E2IL 3RZOL 4A3EL 1Y1VL 5C4JL 3GTKL 4C3JL 4A3KL 5M5XL 1Y1WL 2JA6L 3S1NL 4A93L 2R7ZL 4C2M1 3H3VM 4A3GL 3S2DL 3S1ML 3GTPL 4X6AL 4QIWP 2E2JL 2JA7L 4BBRL 5M5YL 3S15L 3S16L 3PO2L 3PO3L 3GTLL 5IP7L 4A3IL 5FJ8L 1I3QL 5IYBL 3M3YL 3HOUL 3S14L 5M5WL 2NVXL 4A3LL 5C44L 2WB1P 3HOYL 5C3EL 2B63L 1TWGL 2VUML 2JA8L 2WAQP 4Y7NL 4A3FL 3GTML 3GTOL 1TWHL 2NVYL 5IP9L 3GTGL 3HKZP 3S1RL 3H0GL 2PMZP 4A3DL 1I50L 3I4NL 3I4ML 3FKIL 3M4OL 3K7AL 5FLML 4BY7L 3S1QL 3HOWL 3HOZL 3HOVL 4A3JL 4A3CL 1SFOL 1TWAL 2Y0SP 4Y52L 3GTJL 2NVQL 2YU9L 2E2HL 4A3ML 1TWFL 4A3BL 2R93L 3S17L 5IYDL 2JA5L 4BY1L 4BXXL 4AYBP 2NVTL 3HOXL 2R92L 1WCML 3RZDL 3GTQL 5M3FL 4C3HL 3S2HL 4BBSL 5IYCL 5C4XL 1R9TL 5M3ML 3CQZL 1TWCL 4C3IL 1K83L
chains in the Genus database with same CATH superfamily
2LCQA 1PFVA 3FDJA 5EIOC 1BRFA 1LKPA 3B08B 3P8BA 4V196 2RDVA 1R0IA 1NXGA 2XJQA 3S1ML 4QIWP 2E2JL 1SMUA 3RYGA 3RZTA 1S30A 3PWFA 4AI3A 4JAGA 1NNQA 3PO3L 2C6AA 5IYBL 5JVG1 5EINC 1T9QA 5M5WL 1Z92B 2A6HD 1PZXA 5K2ME 2AQCA 4XXBB 5GAHc 4B8CD 2VUML 2ERSA 1QQTA 1PFWA 4AR3A 2DSXA 3GTGL 1H7VA 2O5JD 3S1RL 3LWVB 2PMZP 3LPEB 3I4NL 3K7AL 5FLML 3HOWL 2H12A 3PKJA 1B2JA 4AHXA 2E2HL 3H99A 1TWFL 2XJUA 6RXNA 1OWCA 1LKMA 2R93L 3VPBE 5IYDL 2Z3QB 1CADA 4BY1L 3JR7A 1SMMA 4WFN1 1VZGA 4TVMA 1BE7A 4K9FA 1FHHA 5RXNA 3S2HL 1R0HA 5C4XL 1R9TL 5M3ML 4TPUA 3MPSA 3LWPB 4C3IL 1PFUA 1IU6A 3RZOL 2AUSB 1Y1VL 3GTKL 3KYUA 4C3JL 1Y1WL 3K35A 2R7ZL 1VZIA 3WWNB 4A3GL 3S2DL 4YWLA 4JAFA 2M4YA 2JA7L 2JI2A 3S15L 5MFZA 3H9BA 3MQKB 2CKCA 1FHMA 5IP7L 4A3IL 2XJPA 3GTLL 3QVDA 1DX8A 2M4VA 3B0AB 1RDVA 2NVXL 5AN9H 4E6YA 2A68D 3H9CA 2KKDA 2C6BA 1R0FA 3HOYL 2NYDA 5GAGc 4POGA 2JA8L 4Y7NL 3MSUA 4U671 3GTML 3GTOL 4LHLA 1VZHA 2NVYL 5IP9L 1IROA 1PFYA 2PVEA 5DM71 1CAAA 3I4ML 3S1QL 4XGHA 2XJSA 2HR5A 3GTJL 1SMWA 3NFPI 4G6BA 1RB9A 1LKOA 1R0GA 3PIO1 4UY81 2JI1A 2JA5L 1BQ9A 3H97A 3RZDL 3GTQL 5IYCL 4JADA 2RFKB 1P7PA 2M6OA 2A69D 2L0ZA 1I6HL 3PKIA 5IY0A 3PL5A 3KYXA 5M5XL 2JA6L 4A93L 2CKAA 2K2DA 1DVBA 5MF6A 3GTPL 3LWOB 4X6AL 1OWBA 4AHYA 5M5YL 2EY4E 3PO2L 1BQ8A 1C09A 3ZG6A 3PIP1 3S14L 4LHNA 2M6PA 1QYBA 3A44A 4A3LL 5C44L 4GS7D 1B13A 1RYTA 5C3EL 1S2ZA 2B63L 1TWGL 3HAXC 1RDGA 2WAQP 4RXNA 4ME3A 4A3FL 2AYJA 1YV1A 3PZAA 1YK5A 3HKZP 1E8JA 1IRNA 7RXNA 4AI0A 1T9PA 4A3DL 1I50L 2MS3A 3HJWB 3WWLA 4ZN3B 4AI1A 4ZN1B 2PPTA 4AR5A 2GMGA 4A3JL 5AI3A 4AHZA 1TWAL 2Y0SP 4Y52L 1ZRPA 2ERJA 1B2OA 1IU5A 4A3BL 3S17L 2XJTA 1YUXA 4AYBP 3HOXL 2V0EA 1WCML 3CQZL 3QQCE 1TWCL 1IW7D 3LWRB 1WJVA 1K83L 2E2IL 2XJRA 4A3EL 5C4JL 2ZIXA 4JAEA 8RXNA 5MGNA 4A3KL 3J7Y1 3S1NL 2XJVA 2A6ED 3SS2A 4C2M1 1ODHA 3H3VM 2V3BB 4AHWA 4BBRL 1BFYA 4AR6A 4AI2A 5MLC3 3LNLA 1YUZA 3S16L 5MFPA 1R0JA 5FJ8L 1I3QL 3M3YL 3HOUL 2CR8A 4POFA 2PYAA 3HJYB 1B71A 5H1Sc 4YWMA 2JI3A 2WB1P 2BE5D 3P2AA 2PVXA 2J9UB 5GADc 3J7Z1 1QCVA 1VCXA 1F4LA 1TWHL 3LWQB 4AR4A 2HVYC 3H0GL 3KYYA 1LTLA 3FKIL 3M4OL 4BY7L 1RWDA 3HOZL 1YK4A 3KYWA 3HOVL 1S24A 4A3CL 5DM61 1SFOL 5JVH1 2V0FA 2NVQL 2YU9L 4A3ML 2B5ID 5AI2A 2KN9A 5GAEc 4BXXL 2APOB 1NXEA 3IU3I 2NVTL 1JYBA 2R92L 4BBSL 5M3FL 4C3HL 3RZ6A 3KYVA 2PSMC 1RYQA 1T9OA 2VL6A 2Z3RB 2QL0A
chains in the Genus database with same CATH topology
1I6HL 2E2IL 3RZOL 4A3EL 1Y1VL 5C4JL 3GTKL 4C3JL 4A3KL 5M5XL 1Y1WL 2JA6L 3S1NL 4A93L 2R7ZL 4C2M1 3H3VM 4A3GL 3S2DL 3S1ML 3GTPL 4X6AL 4QIWP 2E2JL 2JA7L 4BBRL 5M5YL 3S15L 3S16L 3PO2L 3PO3L 3GTLL 5IP7L 4A3IL 5FJ8L 1I3QL 5IYBL 3M3YL 3HOUL 3S14L 5M5WL 2NVXL 4A3LL 5C44L 2WB1P 3HOYL 5C3EL 2B63L 1TWGL 2VUML 2JA8L 2WAQP 4Y7NL 4A3FL 3GTML 3GTOL 1TWHL 2NVYL 5IP9L 3GTGL 3HKZP 3S1RL 3H0GL 2PMZP 4A3DL 1I50L 3I4NL 3I4ML 3FKIL 3M4OL 3K7AL 5FLML 4BY7L 3S1QL 3HOWL 3HOZL 3HOVL 4A3JL 4A3CL 1SFOL 1TWAL 2Y0SP 4Y52L 3GTJL 2NVQL 2YU9L 2E2HL 4A3ML 1TWFL 4A3BL 2R93L 3S17L 5IYDL 2JA5L 4BY1L 4BXXL 4AYBP 2NVTL 3HOXL 2R92L 1WCML 3RZDL 3GTQL 5M3FL 4C3HL 3S2HL 4BBSL 5IYCL 5C4XL 1R9TL 5M3ML 3CQZL 1TWCL 4C3IL 1K83L
chains in the Genus database with same CATH homology


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