4A3ML

Rna polymerase ii initial transcribing complex with a 4nt dna-rna hybrid and soaked with ampcpp
Total Genus 1

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

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
EMPTYTIV1 (31-34)TVIII1 (27-30)Updating...
connected with : NaN
molecule tags Transcription
publication title Structural basis of initial RNA polymerase II transcription.
pubmed doi rcsb
molecule keywords DNA-DIRECTED RNA POLYMERASE II SUBUNIT RPB1
total genus 1
structure length 46
sequence length 46
ec nomenclature
pdb deposition date 2011-09-30

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 4a3mL00
2PMZP 3RZOL 3H3VM 3S2DL 3S1QL 2WAQP 4BY1L 3S16L 1TWHL 3GTML 5IYBL 5M3ML 3GTJL 1K83L 3S15L 1SFOL 3S1NL 5FJ8L 3GTGL 3RZDL 2Y0SP 5C4JL 3HOXL 2E2IL 3HOUL 3I4ML 5C3EL 2NVTL 4A3IL 3HOWL 5M3FL 3GTPL 2R93L 3CQZL 4A93L 3S1ML 4A3CL 5M5XL 1TWAL 2JA8L 3GTQL 2WB1P 5IYCL 2NVXL 3HOZL 4Y7NL 4A3BL 4BBRL 4C3JL 3M3YL 3FKIL 4C3HL 3H0GL 5FLML 1TWFL 2E2JL 2JA6L 2JA7L 1TWCL 1I50L 1WCML 4A3DL 3GTLL 2VUML 4C3IL 4A3LL 4AYBP 3I4NL 5M5YL 4X6AL 1I3QL 1I6HL 4BY7L 1R9TL 3GTKL 2R7ZL 3S17L 3M4OL 5IP9L 2YU9L 3S2HL 2R92L 3HKZP 4A3JL 2E2HL 4A3GL 3HOYL 3S14L 4A3FL 4QIWP 3GTOL 1TWGL 2B63L 5IP7L 3HOVL 2JA5L 4BXXL 5M5WL 5IYDL 3K7AL 4BBSL 3S1RL 2NVQL 5C4XL 3PO3L 2NVYL 3PO2L 4A3EL 5C44L 4A3ML 4A3KL 4Y52L 1Y1VL 4C2M1 1Y1WL
chains in the Genus database with same CATH superfamily
1DX8A 2XJUA 1T9PA 3S2DL 3KYYA 1PFUA 3P2AA 4WFN1 2AYJA 1B2OA 3A44A 2QL0A 2L0ZA 4AHZA 1LKOA 2PVXA 5C3EL 5M3FL 2R93L 3KYUA 1TWAL 2WB1P 5IYCL 3HOZL 4AI1A 1B2JA 4BBRL 2H12A 4C3JL 5H1Sc 4AR5A 1YUZA 4AI2A 3HJWB 2BE5D 4GS7D 3QQCE 3H0GL 2JI2A 2XJSA 3J7Z1 2ZIXA 2JA7L 1TWCL 1I50L 3MSUA 4A3DL 3PL5A 5GADc 5GAGc 1VZGA 1RWDA 1R0FA 5GAEc 1BFYA 1IW7D 3HKZP 4AI3A 3FDJA 3MPSA 4A3GL 5DM61 3S14L 4A3FL 1FHMA 2ERSA 5EIOC 1IRNA 1BQ8A 4UY81 3PKIA 4XGHA 2M6OA 2NVQL 2CKAA 4AHXA 3PO2L 5C44L 2EY4E 2PSMC 3RZOL 3H3VM 3NFPI 2LCQA 4BY1L 3PZAA 1JYBA 3GTML 5IYBL 1K83L 2A6ED 1QQTA 1SFOL 3LWQB 5FJ8L 5MFPA 3S1NL 3RZDL 2AQCA 3HJYB 5C4JL 4JAFA 2M4VA 1RDGA 8RXNA 3HOWL 3GTPL 1LKMA 4ME3A 5AI2A 2XJRA 3H9CA 3S1ML 2A69D 2Z3QB 4G6BA 2JA8L 2NVXL 1S30A 2RDVA 3KYWA 4AR3A 4A3BL 1CAAA 3PIP1 1R0JA 3M3YL 1RYTA 1ODHA 1SMUA 1TWFL 2MS3A 1T9QA 4C3IL 4A3LL 4AYBP 3I4NL 5M5YL 4X6AL 5MF6A 1BQ9A 4BY7L 3RZ6A 2XJPA 3GTKL 1YK4A 5GAHc 1SMWA 3S17L 3M4OL 2YU9L 2XJTA 1RB9A 1YK5A 2M6PA 2CKCA 5EINC 3VPBE 3H97A 2M4YA 3HOYL 1VZIA 5IP7L 3HOVL 4BXXL 1E8JA 2A68D 3SS2A 5IYDL 1S2ZA 3LWOB 3S1RL 6RXNA 1IU5A 2K2DA 3PO3L 2APOB 4A3ML 2PPTA 3JR7A 7RXNA 1C09A 3B0AB 4U671 2WAQP 1T9OA 5M3ML 3GTJL 1VZHA 1PFVA 3GTGL 2GMGA 2V0FA 2Y0SP 1R0GA 2XJQA 3HOXL 2E2IL 5AN9H 3HOUL 3I4ML 2NVTL 2O5JD 2XJVA 1H7VA 1YUXA 3J7Y1 4AR4A 4JADA 4A3CL 3LNLA 2A6HD 1R0IA 1B71A 4ZN3B 4B8CD 3FKIL 3LWVB 4AR6A 1S24A 3PIO1 5AI3A 4LHNA 2PYAA 1LTLA 1QYBA 2E2JL 1VCXA 2VL6A 3H99A 1WJVA 3GTLL 1R0HA 2C6BA 1I3QL 1F4LA 4XXBB 2R7ZL 1BRFA 1PZXA 5RXNA 5K2ME 2R92L 3QVDA 1FHHA 1SMMA 1OWCA 4LHLA 2E2HL 2HR5A 2JI1A 4QIWP 3GTOL 5MLC3 3RYGA 3PWFA 3K35A 1IU6A 2JA5L 5M5WL 1NXEA 4BBSL 1IROA 2V0EA 1ZRPA 4K9FA 2NVYL 3PKJA 1Y1WL 2PMZP 3WWLA 3RZTA 1Z92B 4E6YA 1PFWA 3S1QL 1PFYA 3S16L 5MGNA 2AUSB 3MQKB 1TWHL 2HVYC 2NYDA 3S15L 2JI3A 2PVEA 1OWBA 1LKPA 2ERJA 5MFZA 1NNQA 2CR8A 5JVH1 1BE7A 1QCVA 4YWMA 4A3IL 2J9UB 3LWRB 3CQZL 4A93L 2C6AA 1B13A 5M5XL 3P8BA 3GTQL 4Y7NL 1P7PA 3B08B 2B5ID 3HAXC 4C3HL 4POGA 3IU3I 4TVMA 4TPUA 5FLML 1DVBA 3LWPB 4AI0A 5IY0A 2JA6L 4V196 1WCML 2VUML 2RFKB 2V3BB 4JAEA 2Z3RB 2DSXA 1I6HL 1R9TL 3KYVA 3WWNB 4YWLA 4POFA 5IP9L 3S2HL 4A3JL 3H9BA 4AHYA 1RDVA 1CADA 1RYQA 4JAGA 3LPEB 1TWGL 2KN9A 1NXGA 2B63L 3ZG6A 5DM71 3KYXA 4RXNA 5JVG1 4ZN1B 3K7AL 4AHWA 5C4XL 1YV1A 4A3EL 4A3KL 2KKDA 4Y52L 1Y1VL 4C2M1
chains in the Genus database with same CATH topology
2PMZP 3RZOL 3H3VM 3S2DL 3S1QL 2WAQP 4BY1L 3S16L 1TWHL 3GTML 5IYBL 5M3ML 3GTJL 1K83L 3S15L 1SFOL 3S1NL 5FJ8L 3GTGL 3RZDL 2Y0SP 5C4JL 3HOXL 2E2IL 3HOUL 3I4ML 5C3EL 2NVTL 4A3IL 3HOWL 5M3FL 3GTPL 2R93L 3CQZL 4A93L 3S1ML 4A3CL 5M5XL 1TWAL 2JA8L 3GTQL 2WB1P 5IYCL 2NVXL 3HOZL 4Y7NL 4A3BL 4BBRL 4C3JL 3M3YL 3FKIL 4C3HL 3H0GL 5FLML 1TWFL 2E2JL 2JA6L 2JA7L 1TWCL 1I50L 1WCML 4A3DL 3GTLL 2VUML 4C3IL 4A3LL 4AYBP 3I4NL 5M5YL 4X6AL 1I3QL 1I6HL 4BY7L 1R9TL 3GTKL 2R7ZL 3S17L 3M4OL 5IP9L 2YU9L 3S2HL 2R92L 3HKZP 4A3JL 2E2HL 4A3GL 3HOYL 3S14L 4A3FL 4QIWP 3GTOL 1TWGL 2B63L 5IP7L 3HOVL 2JA5L 4BXXL 5M5WL 5IYDL 3K7AL 4BBSL 3S1RL 2NVQL 5C4XL 3PO3L 2NVYL 3PO2L 4A3EL 5C44L 4A3ML 4A3KL 4Y52L 1Y1VL 4C2M1 1Y1WL
chains in the Genus database with same CATH homology


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