4BXXL

Arrested rna polymerase ii-bye1 complex
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 keywords DNA-DIRECTED RNA POLYMERASE II SUBUNIT RPB1
publication title Structures of RNA Polymerase II Complexes with Bye1, a Chromatin-Binding Phf3/Dido1 Homologue
pubmed doi rcsb
source organism Saccharomyces cerevisiae
molecule tags Transcription
total genus 1
structure length 46
sequence length 46
ec nomenclature
pdb deposition date 2013-07-16

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 4bxxL00
1Y1WL 3H3VM 3PO3L 3GTML 3K7AL 5IYCL 3HOVL 4A3IL 4A3JL 2YU9L 5M5WL 3S15L 5M3ML 3S14L 3I4NL 3HOXL 3HOUL 2Y0SP 1Y1VL 4AYBP 5M5XL 3HOZL 1TWFL 2NVYL 4BXXL 4A3BL 3HKZP 1WCML 2JA6L 3RZOL 4BBSL 3S1RL 4A3ML 4Y52L 4BBRL 5IP7L 3CQZL 3S17L 5M5YL 2JA7L 4Y7NL 5FLML 5C3EL 2E2IL 2R92L 4X6AL 2WB1P 4A93L 5IP9L 3M4OL 2R93L 3GTGL 4A3CL 3S16L 3GTLL 3S2HL 4QIWP 2VUML 3M3YL 4A3KL 2NVXL 3HOWL 3HOYL 4C2M1 5IYDL 5C4XL 3S2DL 5C44L 5C4JL 2JA5L 4A3EL 4A3LL 5M3FL 2JA8L 3GTKL 3RZDL 4BY1L 1K83L 3GTPL 3S1NL 2E2JL 2E2HL 3PO2L 3I4ML 4BY7L 5FJ8L 1I3QL 4A3FL 2B63L 2NVTL 3GTOL 3GTQL 2PMZP 4C3HL 1TWAL 2NVQL 1TWGL 2R7ZL 4C3JL 4A3DL 1SFOL 1I50L 1R9TL 1TWCL 4A3GL 3S1QL 3H0GL 2WAQP 4C3IL 3GTJL 3S1ML 1TWHL 3FKIL 5IYBL 1I6HL
chains in the Genus database with same CATH superfamily
3H3VM 3PO3L 1YV1A 2XJTA 3LWQB 1S2ZA 4ZN1B 1RDGA 5JVH1 2Z3QB 2CR8A 2Y0SP 1F4LA 5M5XL 1QYBA 2NVYL 3KYYA 2JI3A 1WCML 3S1RL 1S30A 1RB9A 4ZN3B 2C6AA 1R0HA 2M4VA 3H97A 4AHXA 4X6AL 3B0AB 3A44A 5IP9L 3P2AA 3PIP1 4QIWP 2VUML 3M3YL 2NVXL 2MS3A 5GADc 4C2M1 5IYDL 1RYTA 2PVEA 5EIOC 2XJRA 2JA5L 4AI0A 1WJVA 3PWFA 2JA8L 4BY1L 1IRNA 1K83L 2E2HL 2B5ID 3PL5A 5AN9H 3I4ML 4TVMA 4AI1A 3GTOL 2HR5A 5MF6A 4POFA 2PMZP 4C3HL 2NVQL 1IROA 1IU6A 1TWGL 4A3DL 4AR3A 1I50L 2PYAA 1TWCL 2CKAA 2Z3RB 4YWMA 2L0ZA 2HVYC 2PSMC 2H12A 1IW7D 4K9FA 4JAFA 5IYCL 3HOVL 4XXBB 2YU9L 3S15L 2M6OA 1BQ9A 2XJVA 5K2ME 2QL0A 2PVXA 1LKMA 3H9CA 3RZOL 1VZHA 1DX8A 1ZRPA 3S17L 4JAEA 5M5YL 3J7Y1 1BRFA 2E2IL 2R92L 3FDJA 3J7Z1 3KYXA 3M4OL 2R93L 5GAEc 3S16L 3RYGA 5JVG1 4POGA 4A3KL 3RZ6A 1B13A 2XJPA 1E8JA 3VPBE 1R0IA 3HOYL 1BE7A 2AUSB 3LWVB 2EY4E 6RXNA 5C44L 4AR4A 5C4JL 1VCXA 3QVDA 4XGHA 3H9BA 4G6BA 2V0EA 1PFYA 2NYDA 4V196 3HJWB 5MLC3 3HJYB 1CAAA 3PO2L 1I3QL 2GMGA 4A3FL 2B63L 2JI1A 1CADA 3LWRB 4WFN1 4GS7D 1R9TL 4A3GL 5DM61 1QQTA 2BE5D 4C3IL 3GTJL 1TWHL 5IYBL 3GTML 3K7AL 3LNLA 1B2JA 1SMMA 1DVBA 4A3IL 5M5WL 2C6BA 3S14L 2M4YA 2O5JD 2ZIXA 3HOXL 1Y1VL 3WWLA 4AYBP 1SMWA 1P7PA 2J9UB 1PZXA 5MFPA 1TWFL 3PIO1 4BXXL 3HKZP 2JA6L 5H1Sc 4A3ML 4Y52L 2V0FA 4BBRL 1RDVA 3CQZL 3ZG6A 2JA7L 1OWBA 2RDVA 3KYVA 3LPEB 5FLML 2PPTA 2XJSA 3WWNB 3GTGL 2VL6A 2KKDA 5GAGc 1PFVA 3KYWA 3HOWL 2XJQA 3MQKB 8RXNA 3PZAA 4AHYA 4AR6A 4E6YA 3MPSA 5MFZA 5C4XL 3S2DL 2XJUA 3MSUA 4A3EL 3GTKL 5IY0A 2APOB 3S1NL 2V3BB 4AHZA 3SS2A 1LKOA 5RXNA 2ERJA 5FJ8L 1R0FA 3QQCE 1ODHA 1C09A 3JR7A 4UY81 1OWCA 2DSXA 3PKIA 1NNQA 1R0GA 2A6ED 2R7ZL 4C3JL 1RYQA 1T9PA 1SFOL 3K35A 3LWOB 3P8BA 3IU3I 3S1QL 3H0GL 2WAQP 3LWPB 3S1ML 1I6HL 1YK4A 3KYUA 1PFUA 1Y1WL 2A6HD 4TPUA 4A3JL 2LCQA 5M3ML 3I4NL 3HOUL 1YUZA 3NFPI 1S24A 3HOZL 2RFKB 2M6PA 4A3BL 4LHNA 4BBSL 3H99A 1VZGA 5IP7L 5AI2A 2A69D 4Y7NL 1NXGA 1LTLA 1T9QA 5C3EL 2WB1P 4AI2A 1QCVA 4A93L 1YUXA 4A3CL 1IU5A 3GTLL 3RZTA 3S2HL 1H7VA 1FHHA 1T9OA 5MGNA 1B2OA 1LKPA 1BFYA 2K2DA 2A68D 1BQ8A 4RXNA 5AI3A 1JYBA 4A3LL 1SMUA 2KN9A 1VZIA 5M3FL 7RXNA 4LHLA 3RZDL 4YWLA 5GAHc 4AHWA 2JI2A 1PFWA 4B8CD 5EINC 3GTPL 4U671 2E2JL 3HAXC 4AR5A 4BY7L 2CKCA 2ERSA 3B08B 3PKJA 4JAGA 2NVTL 1B71A 4JADA 3GTQL 4ME3A 1FHMA 2AQCA 1TWAL 1NXEA 2AYJA 1RWDA 1Z92B 1R0JA 5DM71 3FKIL 1YK5A 4AI3A
chains in the Genus database with same CATH topology
1Y1WL 3H3VM 3PO3L 3GTML 3K7AL 5IYCL 3HOVL 4A3IL 4A3JL 2YU9L 5M5WL 3S15L 5M3ML 3S14L 3I4NL 3HOXL 3HOUL 2Y0SP 1Y1VL 4AYBP 5M5XL 3HOZL 1TWFL 2NVYL 4BXXL 4A3BL 3HKZP 1WCML 2JA6L 3RZOL 4BBSL 3S1RL 4A3ML 4Y52L 4BBRL 5IP7L 3CQZL 3S17L 5M5YL 2JA7L 4Y7NL 5FLML 5C3EL 2E2IL 2R92L 4X6AL 2WB1P 4A93L 5IP9L 3M4OL 2R93L 3GTGL 4A3CL 3S16L 3GTLL 3S2HL 4QIWP 2VUML 3M3YL 4A3KL 2NVXL 3HOWL 3HOYL 4C2M1 5IYDL 5C4XL 3S2DL 5C44L 5C4JL 2JA5L 4A3EL 4A3LL 5M3FL 2JA8L 3GTKL 3RZDL 4BY1L 1K83L 3GTPL 3S1NL 2E2JL 2E2HL 3PO2L 3I4ML 4BY7L 5FJ8L 1I3QL 4A3FL 2B63L 2NVTL 3GTOL 3GTQL 2PMZP 4C3HL 1TWAL 2NVQL 1TWGL 2R7ZL 4C3JL 4A3DL 1SFOL 1I50L 1R9TL 1TWCL 4A3GL 3S1QL 3H0GL 2WAQP 4C3IL 3GTJL 3S1ML 1TWHL 3FKIL 5IYBL 1I6HL
chains in the Genus database with same CATH homology


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