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.

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


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