4Y52L

Crystal structure of 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
45
structure length
45
Chain Sequence
TLKYICAECSSKLSLSRTDAVRCKDCGHRILLKARTKRLVQFEAR

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.

publication title Molecular basis for 5-carboxycytosine recognition by RNA polymerase II elongation complex.
pubmed doi rcsb
molecule keywords DNA-directed RNA polymerase II subunit RPB1
molecule tags Transcription/dna/rna
structure length 45
sequence length 45
ec nomenclature
pdb deposition date 2015-02-11

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 4y52L00
5M5WL 3GTKL 3S17L 3S1NL 2JA8L 3RZDL 3HOZL 3GTQL 5M3FL 4C3HL 5M5XL 3GTML 4A3DL 1I3QL 1TWGL 4A3CL 3PO2L 2JA6L 2E2JL 3M4OL 5M3ML 1TWAL 3HOVL 1SFOL 3H0GL 4C3JL 3S15L 2E2IL 5IP9L 3HOUL 4BY1L 4A3IL 3H3VM 3I4ML 2NVXL 3I4NL 5C4XL 4A3KL 5IYDL 4A3BL 1TWCL 2JA7L 4A93L 5M5YL 4A3EL 1K83L 2PMZP 1R9TL 5IYCL 3S16L 4A3ML 4C2M1 4BBRL 2R7ZL 3GTPL 3S1ML 3PO3L 4BXXL 1WCML 3S2DL 2NVYL 3M3YL 3GTLL 3HKZP 3S2HL 4QIWP 2NVTL 3RZOL 3FKIL 4A3FL 2E2HL 1I6HL 4A3JL 4A3GL 3HOWL 2B63L 1I50L 3HOXL 5FLML 5C3EL 3S1RL 3S1QL 2WAQP 5C44L 4BBSL 2R92L 2YU9L 4AYBP 3GTOL 3HOYL 3GTGL 1Y1WL 5C4JL 2VUML 3S14L 5IYBL 5IP7L 4A3LL 1TWFL 2JA5L 5FJ8L 4C3IL 2NVQL 1TWHL 3K7AL 4Y52L 4Y7NL 1Y1VL 2Y0SP 2R93L 4X6AL 4BY7L 3CQZL 2WB1P 3GTJL
chains in the Genus database with same CATH superfamily
2Z3RB 1PFUA 5JVH1 2A6ED 2V0FA 5MFZA 3HOZL 3MSUA 5H1Sc 3GTML 4AI3A 4AI0A 2RDVA 3M4OL 1R0JA 1TWAL 3HOVL 3H0GL 4C3JL 4YWLA 4LHNA 4UY81 3H97A 3LWQB 3HJYB 2AYJA 3LNLA 3HOUL 1VZGA 2QL0A 3FDJA 4LHLA 2NVXL 4B8CD 1ODHA 4A3BL 1R0IA 1LTLA 5IY0A 1JYBA 5EINC 2XJUA 1K83L 2PSMC 1B71A 3LWOB 5MF6A 3S16L 3H99A 3RZ6A 1QCVA 4JAGA 3PO3L 2R7ZL 2A6HD 1WCML 3PWFA 3M3YL 4AHWA 3HKZP 5AI3A 3QVDA 8RXNA 2M6OA 4A3GL 1IW7D 1I50L 1YK5A 5GAEc 5C3EL 2WAQP 1P7PA 2YU9L 2C6AA 1OWBA 5MLC3 3LPEB 1R0FA 1ZRPA 1PFWA 3S14L 2AUSB 1VZIA 1QQTA 5IP7L 3P8BA 1TWFL 4C3IL 1Z92B 4Y52L 1Y1VL 4U671 3LWPB 4BY7L 1DVBA 2ERSA 3GTJL 1S2ZA 5M5WL 2XJVA 3RZDL 5M3FL 4A3DL 1PFVA 1I3QL 4A3CL 4POGA 3PO2L 1NNQA 1VCXA 3H9CA 2E2JL 2PYAA 4K9FA 4JAEA 3MQKB 1RB9A 4AHXA 4JAFA 2B5ID 1BE7A 1R0HA 2H12A 5MGNA 1TWCL 3P2AA 4AR6A 5IYCL 4A3ML 1H7VA 4AR5A 4V196 2M4VA 3PL5A 1RWDA 1B2OA 4BBRL 1S30A 5AI2A 2NVYL 3J7Z1 2NVTL 3RZOL 2XJRA 3FKIL 4A3FL 2M4YA 2M6PA 6RXNA 1FHMA 1YUXA 2MS3A 3IU3I 3QQCE 3HOXL 2K2DA 2ZIXA 4AR4A 4AI1A 5C44L 2CKAA 2HR5A 2XJSA 2XJPA 7RXNA 3PZAA 3PIP1 1RYTA 4TPUA 2APOB 3NFPI 2RFKB 4RXNA 5DM71 2JI2A 3B08B 4AR3A 2CKCA 4ME3A 3LWRB 2KKDA 1YK4A 5MFPA 3WWNB 2AQCA 1IU5A 5EIOC 3H9BA 3CQZL 2WB1P 3LWVB 1LKMA 1BFYA 5GAGc 3RZTA 3GTKL 3S1NL 2JA8L 2O5JD 4C3HL 4YWMA 3WWLA 5M5XL 4AHZA 1TWGL 1B2JA 1LKOA 3PIO1 1PZXA 2EY4E 5RXNA 3MPSA 2PVEA 4WFN1 3S15L 1B13A 1S24A 1WJVA 2E2IL 5IP9L 1T9PA 3H3VM 3I4ML 2XJTA 5C4XL 3PKJA 5IYDL 3KYWA 4A93L 3HAXC 3A44A 4XXBB 4POFA 4E6YA 5M5YL 4ZN3B 2JI1A 3KYVA 5DM61 5K2ME 1SMUA 3GTPL 3S1ML 4BXXL 3S2DL 3S2HL 4XGHA 4QIWP 2E2HL 1T9OA 3KYXA 4A3JL 1NXEA 2B63L 1C09A 2HVYC 2R92L 1FHHA 1RDGA 4AYBP 1DX8A 2V0EA 2J9UB 3RYGA 3GTOL 1Y1WL 5C4JL 1LKPA 2XJQA 2VUML 2CR8A 5GAHc 5IYBL 4ZN1B 1E8JA 2NVQL 1SMMA 1IRNA 4GS7D 1TWHL 1IU6A 2Y0SP 2R93L 2PVXA 1T9QA 2DSXA 4X6AL 1F4LA 1VZHA 1IROA 1QYBA 2KN9A 3S17L 2V3BB 2A68D 3GTQL 1BRFA 1SMWA 4AI2A 3JR7A 4AHYA 2GMGA 4JADA 2JA6L 3PKIA 5M3ML 3B0AB 1SFOL 1OWCA 2JI3A 1YUZA 2Z3QB 4BY1L 4A3IL 1YV1A 2BE5D 3I4NL 4A3KL 2JA7L 5AN9H 1BQ9A 1RDVA 3ZG6A 4A3EL 4TVMA 2PMZP 4G6BA 2NYDA 1R9TL 3VPBE 4C2M1 1BQ8A 1RYQA 1NXGA 3GTLL 3KYYA 2LCQA 3SS2A 1I6HL 2A69D 3J7Y1 3HOWL 1R0GA 5FLML 3S1RL 3S1QL 2L0ZA 4BBSL 2VL6A 1CADA 5GADc 3HOYL 3KYUA 3GTGL 2ERJA 5JVG1 2PPTA 4A3LL 1PFYA 2JA5L 5FJ8L 3HJWB 3K7AL 4Y7NL 2C6BA 1CAAA 3K35A
chains in the Genus database with same CATH topology
5M5WL 3GTKL 3S17L 3S1NL 2JA8L 3RZDL 3HOZL 3GTQL 5M3FL 4C3HL 5M5XL 3GTML 4A3DL 1I3QL 1TWGL 4A3CL 3PO2L 2JA6L 2E2JL 3M4OL 5M3ML 1TWAL 3HOVL 1SFOL 3H0GL 4C3JL 3S15L 2E2IL 5IP9L 3HOUL 4BY1L 4A3IL 3H3VM 3I4ML 2NVXL 3I4NL 5C4XL 4A3KL 5IYDL 4A3BL 1TWCL 2JA7L 4A93L 5M5YL 4A3EL 1K83L 2PMZP 1R9TL 5IYCL 3S16L 4A3ML 4C2M1 4BBRL 2R7ZL 3GTPL 3S1ML 3PO3L 4BXXL 1WCML 3S2DL 2NVYL 3M3YL 3GTLL 3HKZP 3S2HL 4QIWP 2NVTL 3RZOL 3FKIL 4A3FL 2E2HL 1I6HL 4A3JL 4A3GL 3HOWL 2B63L 1I50L 3HOXL 5FLML 5C3EL 3S1RL 3S1QL 2WAQP 5C44L 4BBSL 2R92L 2YU9L 4AYBP 3GTOL 3HOYL 3GTGL 1Y1WL 5C4JL 2VUML 3S14L 5IYBL 5IP7L 4A3LL 1TWFL 2JA5L 5FJ8L 4C3IL 2NVQL 1TWHL 3K7AL 4Y52L 4Y7NL 1Y1VL 2Y0SP 2R93L 4X6AL 4BY7L 3CQZL 2WB1P 3GTJL
chains in the Genus database with same CATH homology


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