4BY1L

Elongating rna polymerase ii-bye1 tld complex soaked with ampcpp
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
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 3
structure length 46
sequence length 46
ec nomenclature
pdb deposition date 2013-07-17

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 4by1L00
1SFOL 4A93L 2WB1P 3S14L 1TWAL 4C3IL 4A3ML 4A3IL 2R93L 2NVTL 4X6AL 3S15L 3M4OL 3S1RL 5M5WL 1K83L 4BBRL 4A3KL 2NVQL 3GTPL 5M5YL 3I4NL 5IYDL 5IYBL 4C3HL 4A3DL 3S2HL 4BBSL 5C3EL 4A3BL 3HOWL 4A3GL 3GTGL 1TWFL 2Y0SP 3RZOL 1TWHL 5C4JL 3K7AL 4AYBP 2E2JL 2JA6L 3CQZL 3GTML 1WCML 1Y1VL 4C2M1 2E2IL 1I50L 3HOXL 2JA5L 2YU9L 3RZDL 3HOZL 3GTKL 3S1ML 5M3FL 4BY1L 3M3YL 3GTOL 3GTJL 5C44L 2B63L 3GTQL 3S1NL 2PMZP 3H0GL 5C4XL 2E2HL 2VUML 3PO3L 3S1QL 3FKIL 3GTLL 3S16L 5IP7L 3HOYL 4C3JL 4A3EL 1R9TL 5FLML 2NVXL 3S2DL 5FJ8L 2NVYL 1I6HL 4BXXL 3H3VM 2JA8L 2WAQP 4QIWP 3HOVL 3PO2L 5M5XL 4A3JL 3HOUL 2R92L 5M3ML 3I4ML 4A3FL 3S17L 4A3CL 1Y1WL 2JA7L 4BY7L 1I3QL 1TWCL 5IYCL 2R7ZL 5IP9L 3HKZP 1TWGL 4A3LL 4Y7NL 4Y52L
chains in the Genus database with same CATH superfamily
1YUZA 1R0JA 1QYBA 1CADA 2R93L 1QQTA 2GMGA 1RDGA 3RZ6A 2A68D 1K83L 4AR4A 4JAFA 2V0FA 2EY4E 5IYBL 1PFYA 3HJWB 3QQCE 1PZXA 3P2AA 2KKDA 2CKAA 3P8BA 5C3EL 4A3BL 3HOWL 3GTGL 2XJTA 2C6AA 2M6PA 1LTLA 1E8JA 1WCML 3B0AB 3HOXL 2HVYC 2PYAA 3GTKL 1QCVA 1SMWA 5JVH1 4V196 3FDJA 2O5JD 3GTOL 3GTJL 5C44L 2B63L 3S1NL 2Z3QB 5MFPA 2ERSA 4G6BA 2VUML 3PO3L 1B71A 1BE7A 1R0IA 1YK4A 1RWDA 1DX8A 3H9BA 3PKIA 5FLML 1BQ8A 2RFKB 5K2ME 2WAQP 3PO2L 4AHZA 3HOUL 4TVMA 3MQKB 4AI3A 1Y1WL 3WWLA 1TWCL 2APOB 5IYCL 5IY0A 1NXGA 3LWPB 3ZG6A 2R7ZL 4RXNA 1YV1A 4Y7NL 4A3LL 3RYGA 1S30A 2WB1P 5MGNA 1YK5A 1T9OA 1LKOA 3PIP1 1JYBA 2BE5D 2J9UB 4BBRL 2XJSA 3GTPL 5IYDL 3NFPI 2JI2A 8RXNA 4A3DL 4B8CD 2CR8A 1RYQA 1TWHL 4K9FA 2HR5A 2Z3RB 4AYBP 2E2JL 3CQZL 3GTML 1VZHA 1Y1VL 4C2M1 2LCQA 2NYDA 2E2IL 2JI3A 1R0GA 2XJPA 4YWMA 2PPTA 7RXNA 2CKCA 5DM61 1NXEA 4JAEA 4GS7D 5EIOC 2XJVA 2M4YA 4ME3A 3H0GL 5H1Sc 4YWLA 1VZGA 2M6OA 5GADc 3PZAA 4AHYA 3GTLL 3S16L 4C3JL 4LHNA 2AQCA 1F4LA 4A3EL 4XGHA 1R9TL 1CAAA 2ZIXA 1I6HL 4BXXL 3H3VM 2JA8L 3HOVL 1ODHA 2AUSB 5M5XL 6RXNA 3MSUA 1FHHA 2XJRA 3I4ML 5MLC3 1T9QA 1RYTA 1S2ZA 2JA7L 1C09A 5GAGc 3LWVB 4POFA 1BQ9A 1YUXA 2PVXA 4AHWA 2XJQA 1TWGL 3LPEB 4Y52L 3J7Y1 3J7Z1 3VPBE 3S14L 2C6BA 4A3ML 1BRFA 3LWOB 2V3BB 2NVTL 2DSXA 4X6AL 1IU6A 3LWQB 3S15L 1RDVA 3S1RL 4A3KL 2NVQL 5M5YL 3I4NL 2A6HD 4C3HL 2MS3A 4BBSL 3KYYA 4A3GL 1TWFL 2V0EA 3RZOL 4JADA 3K35A 4POGA 5C4JL 1SMUA 3A44A 2JA6L 1B2OA 1S24A 2JA5L 1BFYA 2YU9L 3IU3I 3KYVA 1H7VA 4AI0A 1IW7D 3S1ML 5M3FL 4AR6A 5EINC 2VL6A 1R0HA 1P7PA 3M3YL 3GTQL 3QVDA 1B2JA 5C4XL 3HAXC 5DM71 4AR5A 2A6ED 3S1QL 1NNQA 4UY81 3MPSA 3HOYL 5AI3A 3SS2A 5GAHc 1SMMA 3S2DL 2NVYL 1OWCA 2PVEA 5RXNA 3LNLA 1DVBA 5AI2A 5M3ML 3KYXA 3HJYB 2ERJA 3S17L 4A3CL 4AI1A 4AR3A 5IP9L 1WJVA 3HKZP 4AI2A 4LHLA 1SFOL 2QL0A 4A93L 2K2DA 3RZTA 4ZN1B 1T9PA 2L0ZA 1R0FA 5MFZA 1TWAL 4C3IL 3H97A 4A3IL 3B08B 4ZN3B 2KN9A 3M4OL 5M5WL 1VCXA 5GAEc 1LKPA 2A69D 1IRNA 4TPUA 1VZIA 3PL5A 1Z92B 2JI1A 1PFVA 3S2HL 4JAGA 4E6YA 2Y0SP 3PWFA 2H12A 3K7AL 2AYJA 4WFN1 2RDVA 3PIO1 1I50L 5AN9H 3RZDL 3HOZL 4XXBB 3WWNB 3LWRB 1RB9A 3JR7A 4BY1L 4U671 2PMZP 1ZRPA 2E2HL 1OWBA 3PKJA 1IROA 2PSMC 3FKIL 5IP7L 2NVXL 5FJ8L 2XJUA 4QIWP 2B5ID 2M4VA 4A3JL 5MF6A 1LKMA 2R92L 3H99A 1PFUA 4A3FL 3H9CA 4AHXA 3KYWA 1B13A 1IU5A 1FHMA 1PFWA 4BY7L 1I3QL 3KYUA 5JVG1
chains in the Genus database with same CATH topology
1SFOL 4A93L 2WB1P 3S14L 1TWAL 4C3IL 4A3ML 4A3IL 2R93L 2NVTL 4X6AL 3S15L 3M4OL 3S1RL 5M5WL 1K83L 4BBRL 4A3KL 2NVQL 3GTPL 5M5YL 3I4NL 5IYDL 5IYBL 4C3HL 4A3DL 3S2HL 4BBSL 5C3EL 4A3BL 3HOWL 4A3GL 3GTGL 1TWFL 2Y0SP 3RZOL 1TWHL 5C4JL 3K7AL 4AYBP 2E2JL 2JA6L 3CQZL 3GTML 1WCML 1Y1VL 4C2M1 2E2IL 1I50L 3HOXL 2JA5L 2YU9L 3RZDL 3HOZL 3GTKL 3S1ML 5M3FL 4BY1L 3M3YL 3GTOL 3GTJL 5C44L 2B63L 3GTQL 3S1NL 2PMZP 3H0GL 5C4XL 2E2HL 2VUML 3PO3L 3S1QL 3FKIL 3GTLL 3S16L 5IP7L 3HOYL 4C3JL 4A3EL 1R9TL 5FLML 2NVXL 3S2DL 5FJ8L 2NVYL 1I6HL 4BXXL 3H3VM 2JA8L 2WAQP 4QIWP 3HOVL 3PO2L 5M5XL 4A3JL 3HOUL 2R92L 5M3ML 3I4ML 4A3FL 3S17L 4A3CL 1Y1WL 2JA7L 4BY7L 1I3QL 1TWCL 5IYCL 2R7ZL 5IP9L 3HKZP 1TWGL 4A3LL 4Y7NL 4Y52L
chains in the Genus database with same CATH homology


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