4Y7NL

The structure insight into 5-carboxycytosine recognition by rna polymerase ii during transcription elongation.
Total Genus 0
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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
0
sequence length
44
structure length
44
Chain Sequence
LKYICAECSSKLSLSRTDAVRCKDCGHRILLKARTKRLVQFEAR

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 Molecular basis for 5-carboxycytosine recognition by RNA polymerase II elongation complex.
pubmed doi rcsb
molecule tags Transcription/dna/rna
structure length 44
sequence length 44
ec nomenclature
pdb deposition date 2015-02-15

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 4y7nL00
4Y52L 3H3VM 4C3IL 4Y7NL 3I4ML 3S17L 2VUML 4BY1L 3HOZL 4BBRL 2Y0SP 3M4OL 2R7ZL 5C44L 2WAQP 1Y1WL 2PMZP 2E2IL 4C2M1 3S16L 2R93L 3RZDL 4A3KL 3S1NL 3PO3L 3S2HL 2E2JL 5C4JL 1R9TL 5M5YL 3GTPL 2NVYL 2WB1P 5IP9L 4BY7L 3S2DL 4A3CL 2YU9L 3M3YL 2E2HL 2JA8L 3HOVL 1I3QL 3FKIL 3HOWL 3I4NL 3K7AL 1TWCL 4AYBP 4A3EL 3S14L 4A3FL 5M3FL 5M5WL 3HOUL 3S1QL 3RZOL 1WCML 5FJ8L 1I50L 1TWFL 4QIWP 5FLML 3H0GL 3GTJL 5C4XL 3HKZP 2NVXL 3S1RL 3S15L 4X6AL 4A3JL 4A3GL 4C3HL 3CQZL 5IYCL 3HOXL 4A3DL 4A93L 5M5XL 2NVQL 3PO2L 4A3IL 1Y1VL 1SFOL 5IYBL 4A3LL 3GTQL 2JA7L 5IYDL 2NVTL 3GTLL 2B63L 5IP7L 2R92L 3GTML 1I6HL 1K83L 5M3ML 2JA5L 3S1ML 4BXXL 3GTGL 3HOYL 3GTKL 5C3EL 1TWHL 1TWAL 3GTOL 4BBSL 4C3JL 1TWGL 4A3ML 4A3BL 2JA6L
chains in the Genus database with same CATH superfamily
4ME3A 3ZG6A 3P8BA 3H99A 1RB9A 1R0IA 4C3IL 4XXBB 1IROA 3LWOB 4BBRL 1T9PA 2WAQP 3LWQB 5AN9H 3LWRB 1Y1WL 5DM71 2R93L 3SS2A 2EY4E 3KYYA 3LPEB 3PZAA 2WB1P 5MFZA 3KYWA 4AR3A 2BE5D 4V196 5GAGc 3RZTA 3M3YL 2C6AA 2CKAA 1BRFA 4K9FA 5DM61 4POGA 3NFPI 4U671 3J7Y1 5M3FL 5MFPA 3RZOL 1WCML 2M6OA 1VZIA 1S2ZA 2PVXA 2QL0A 1I50L 1OWBA 3LWVB 4QIWP 3H0GL 3HKZP 5K2ME 2ERJA 1YK5A 4X6AL 4A3JL 4A3GL 4C3HL 3CQZL 3HJYB 5MLC3 1CAAA 2L0ZA 1RDVA 2M4VA 4ZN3B 3KYVA 1B71A 2Z3QB 4A3LL 1B13A 1I6HL 3RZ6A 1C09A 5M3ML 4TPUA 4BXXL 2GMGA 2V0FA 1Z92B 5C3EL 3HOYL 2RFKB 1DVBA 1TWHL 1TWAL 1P7PA 2AQCA 2PPTA 4C3JL 4RXNA 1LKMA 4A3BL 1R0JA 1VCXA 1F4LA 1JYBA 2AYJA 3J7Z1 3WWNB 3VPBE 4Y7NL 3I4ML 4ZN1B 5JVG1 2JI2A 3PKJA 1RYTA 2PMZP 2E2IL 4C2M1 3RZDL 1RYQA 2CR8A 5H1Sc 3S2HL 5C4JL 1R9TL 1R0GA 2NVYL 1SMUA 5IP9L 3S2DL 4A3CL 4B8CD 1BE7A 1RDGA 3PIO1 1LTLA 1S24A 3B0AB 1PFWA 2O5JD 3HOVL 1I3QL 1SMMA 3FKIL 2XJPA 2JI3A 4AYBP 1TWCL 2A6ED 3A44A 3S14L 5M5WL 1B2OA 4AR5A 5EIOC 1ZRPA 2PYAA 5C4XL 3FDJA 2RDVA 2XJSA 5GAEc 2NVQL 4A3IL 5IYBL 3MQKB 1OWCA 5IYDL 4YWMA 3PKIA 4AHZA 2B63L 5IP7L 2R92L 3GTGL 2XJRA 1PZXA 1BQ8A 3MSUA 4JAFA 1IRNA 3GTOL 1BQ9A 1WJVA 2J9UB 3IU3I 2XJUA 2H12A 2ERSA 4A3ML 5AI2A 2JA6L 2XJQA 4Y52L 1IW7D 4UY81 4AI1A 3H3VM 2M4YA 2VUML 4BY1L 1CADA 5IY0A 3HOZL 2Y0SP 3M4OL 2A68D 2R7ZL 3JR7A 4G6BA 3S1NL 1PFUA 4A3KL 1NXEA 4AHYA 1FHMA 3PO3L 2KN9A 2DSXA 1E8JA 1NNQA 4BY7L 4AI3A 2CKCA 2B5ID 2YU9L 2V3BB 1YV1A 2HR5A 2E2HL 2PVEA 2XJTA 4POFA 1R0FA 3LWPB 4XGHA 1IU5A 3I4NL 2M6PA 1YUXA 4AI0A 1VZHA 3S1QL 2VL6A 8RXNA 3LNLA 1NXGA 2KKDA 5FLML 3GTJL 4WFN1 1SMWA 3H9BA 4YWLA 4E6YA 1BFYA 3H9CA 1S30A 3HOXL 2HVYC 4A93L 3K35A 5EINC 5GAHc 1PFVA 2ZIXA 1SFOL 2MS3A 6RXNA 3GTQL 2Z3RB 2AUSB 3GTLL 3P2AA 1K83L 2JA5L 3S1ML 3H97A 3KYUA 4JAGA 3QVDA 1T9OA 2V0EA 4BBSL 1FHHA 4JAEA 4AI2A 1LKOA 1IU6A 3PL5A 1YUZA 2APOB 2K2DA 2C6BA 5C44L 2LCQA 3PWFA 1T9QA 3S16L 1LKPA 3MPSA 1R0HA 2E2JL 5M5YL 3GTPL 4AR6A 5JVH1 1QYBA 4LHLA 5MF6A 3KYXA 4AHXA 1YK4A 2JA8L 3HJWB 1H7VA 4AHWA 2A69D 4LHNA 1QCVA 1ODHA 3PIP1 3HOWL 2A6HD 4A3EL 3K7AL 3B08B 4A3FL 1QQTA 3QQCE 3HOUL 3RYGA 5FJ8L 4JADA 1TWFL 1DX8A 4GS7D 5GADc 5RXNA 2NVXL 3S1RL 3S15L 7RXNA 5IYCL 5AI3A 2JI1A 1RWDA 4A3DL 5M5XL 4TVMA 3PO2L 2NYDA 1Y1VL 4AR4A 2JA7L 5MGNA 2NVTL 2XJVA 2PSMC 3GTML 1B2JA 3HAXC 3GTKL 3WWLA 1PFYA 1VZGA 1TWGL 3S17L
chains in the Genus database with same CATH topology
4Y52L 3H3VM 4C3IL 4Y7NL 3I4ML 3S17L 2VUML 4BY1L 3HOZL 4BBRL 2Y0SP 3M4OL 2R7ZL 5C44L 2WAQP 1Y1WL 2PMZP 2E2IL 4C2M1 3S16L 2R93L 3RZDL 4A3KL 3S1NL 3PO3L 3S2HL 2E2JL 5C4JL 1R9TL 5M5YL 3GTPL 2NVYL 2WB1P 5IP9L 4BY7L 3S2DL 4A3CL 2YU9L 3M3YL 2E2HL 2JA8L 3HOVL 1I3QL 3FKIL 3HOWL 3I4NL 3K7AL 1TWCL 4AYBP 4A3EL 3S14L 4A3FL 5M3FL 5M5WL 3HOUL 3S1QL 3RZOL 1WCML 5FJ8L 1I50L 1TWFL 4QIWP 5FLML 3H0GL 3GTJL 5C4XL 3HKZP 2NVXL 3S1RL 3S15L 4X6AL 4A3JL 4A3GL 4C3HL 3CQZL 5IYCL 3HOXL 4A3DL 4A93L 5M5XL 2NVQL 3PO2L 4A3IL 1Y1VL 1SFOL 5IYBL 4A3LL 3GTQL 2JA7L 5IYDL 2NVTL 3GTLL 2B63L 5IP7L 2R92L 3GTML 1I6HL 1K83L 5M3ML 2JA5L 3S1ML 4BXXL 3GTGL 3HOYL 3GTKL 5C3EL 1TWHL 1TWAL 3GTOL 4BBSL 4C3JL 1TWGL 4A3ML 4A3BL 2JA6L
chains in the Genus database with same CATH homology


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