4A3GL

Rna polymerase ii initial transcribing complex with a 2nt dna-rna hybrid
Total Genus 1
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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
1
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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publication title Structural basis of initial RNA polymerase II transcription.
pubmed doi rcsb
molecule tags Transcription
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 4a3gL00
3GTOL 3PO3L 5IP7L 3I4NL 3HOYL 3CQZL 2E2JL 3GTKL 3S15L 4AYBP 2R93L 2NVTL 1I50L 3S1RL 1SFOL 3I4ML 4A3EL 3HOVL 1Y1WL 5C3EL 3GTJL 4Y7NL 2Y0SP 2R92L 4X6AL 3S17L 3HOXL 3RZOL 4A3ML 5M5XL 3HOWL 4Y52L 3GTLL 2YU9L 1WCML 5C4XL 4A3IL 5M3FL 4C2M1 4A3FL 3GTQL 5FLML 3GTGL 4C3JL 5IP9L 3FKIL 4A3LL 1Y1VL 4A3JL 5IYCL 3S1ML 3S2HL 5IYDL 3M3YL 3HOZL 2WB1P 5M5YL 2NVYL 3H0GL 5IYBL 4BBSL 3S14L 2JA7L 4A3GL 1TWCL 3K7AL 2JA6L 3S1QL 2JA5L 3S1NL 4BY7L 2JA8L 5FJ8L 2WAQP 3M4OL 4BBRL 2PMZP 5M3ML 1TWFL 3RZDL 1R9TL 2B63L 3H3VM 4A3BL 1TWGL 2NVXL 4QIWP 3GTML 1K83L 1I6HL 1I3QL 5M5WL 4C3HL 4BXXL 3HKZP 4A3CL 2VUML 2E2IL 4A3KL 3HOUL 1TWAL 3S16L 2E2HL 3PO2L 1TWHL 4BY1L 3S2DL 4A3DL 2R7ZL 5C44L 4C3IL 5C4JL 3GTPL 4A93L 2NVQL
chains in the Genus database with same CATH superfamily
3GTOL 5IP7L 3HOYL 4XGHA 2MS3A 3S1RL 1SFOL 3HJYB 3I4ML 4UY81 2J9UB 3HOVL 4YWMA 5RXNA 1BQ9A 2O5JD 2HVYC 3HOXL 4YWLA 5MFPA 4AHZA 3P2AA 3HOWL 2PSMC 1FHHA 3H9CA 1VZHA 3GTQL 1F4LA 2XJVA 5DM61 3FKIL 4A3LL 1RDVA 5IYCL 3PWFA 2ERJA 5IYDL 1T9QA 1YK4A 2WB1P 3JR7A 4POGA 1RDGA 3WWNB 4A3GL 5GAHc 3MSUA 1R0IA 3K7AL 4K9FA 3QQCE 2M6PA 5FJ8L 2WAQP 2PMZP 1T9PA 4JADA 3NFPI 1R9TL 3H3VM 4A3BL 4U671 4AI2A 2A6ED 1I6HL 1I3QL 1ODHA 2E2IL 4JAEA 1B71A 3LWQB 5C44L 1IRNA 4C3IL 4V196 4LHNA 3HJWB 1IW7D 3KYVA 3SS2A 2VL6A 2NVQL 3WWLA 3LNLA 1B2JA 3KYWA 3RZ6A 3S15L 1R0GA 2HR5A 1ZRPA 2V0FA 2NVTL 1R0HA 1S2ZA 2Z3RB 5DM71 3RZTA 4AHWA 1FHMA 4Y7NL 2Y0SP 1DX8A 2AUSB 3RZOL 5M5XL 1SMMA 4AR4A 5GAGc 3GTLL 3P8BA 5K2ME 1PFWA 3J7Y1 4C2M1 4A3FL 3H9BA 1LKPA 3PL5A 4G6BA 5FLML 4TPUA 3B0AB 1QQTA 1IU6A 1RYTA 2A68D 3LWVB 2NVYL 3IU3I 5AN9H 3A44A 1H7VA 3VPBE 5GAEc 1B2OA 2XJSA 1PFYA 2JA6L 3S1QL 3S1NL 5GADc 2XJUA 2JA8L 5AI3A 4BBRL 1RYQA 1YUZA 1R0JA 1PFUA 1K83L 3MQKB 4GS7D 5M5WL 3PKJA 5MLC3 4BXXL 3HKZP 4A3CL 2CR8A 2VUML 2E2HL 1YK5A 4BY1L 3FDJA 2R7ZL 1IU5A 2XJQA 2PYAA 5AI2A 3KYYA 1BFYA 3LWOB 4POFA 3QVDA 3LWPB 5JVG1 2KN9A 5JVH1 2XJRA 2E2JL 1VCXA 3GTKL 1WJVA 2RDVA 2R93L 1I50L 2APOB 8RXNA 1Y1WL 1NNQA 2CKCA 4X6AL 4ZN1B 5EINC 2XJTA 4A3ML 1NXEA 4WFN1 1CADA 6RXNA 5C4XL 1B13A 7RXNA 4XXBB 1OWCA 3PKIA 2AQCA 5IP9L 2H12A 3PIP1 3M3YL 5M5YL 3H0GL 4RXNA 1LTLA 4BBSL 1C09A 2B5ID 3S14L 2JA7L 3J7Z1 3PZAA 5IY0A 2C6AA 2M6OA 4B8CD 5MFZA 1SMWA 3KYUA 5MF6A 1E8JA 4ZN3B 4AI1A 2JA5L 3H99A 1QYBA 4AI0A 1BRFA 1LKMA 3M4OL 3LPEB 1CAAA 3H97A 1T9OA 1PZXA 2C6BA 2NVXL 1RB9A 2L0ZA 4AR3A 4LHLA 3RYGA 4AR5A 4QIWP 1S30A 3GTML 4AHYA 1QCVA 1PFVA 4C3HL 2QL0A 1DVBA 3PIO1 3HOUL 1TWAL 3PO2L 5EIOC 4AHXA 3PO3L 3I4NL 3CQZL 2JI3A 2NYDA 2KKDA 4AYBP 3LWRB 5H1Sc 1IROA 4AR6A 1OWBA 2AYJA 4A3EL 2RFKB 5C3EL 2ZIXA 4TVMA 3GTJL 2ERSA 2R92L 1NXGA 3S17L 4AI3A 1VZGA 1R0FA 2DSXA 2V3BB 1Z92B 4Y52L 1LKOA 2YU9L 1WCML 4ME3A 4A3IL 5M3FL 3GTGL 4C3JL 1Y1VL 4A3JL 3S1ML 1BE7A 2GMGA 3S2HL 3K35A 3HOZL 5IYBL 3HAXC 1JYBA 2XJPA 3ZG6A 2PVEA 2A69D 1S24A 1YUXA 1VZIA 2M4VA 1TWCL 4BY7L 1YV1A 1P7PA 4JAGA 4E6YA 2CKAA 2V0EA 5MGNA 2JI1A 5M3ML 3KYXA 1TWFL 2LCQA 1RWDA 3RZDL 2B63L 1TWGL 2A6HD 2K2DA 3B08B 2Z3QB 2M4YA 1SMUA 4A3KL 2EY4E 2PPTA 3S16L 2JI2A 1TWHL 3S2DL 4A3DL 3MPSA 1BQ8A 2PVXA 4JAFA 5C4JL 3GTPL 4A93L 2BE5D
chains in the Genus database with same CATH topology
3GTOL 3PO3L 5IP7L 3I4NL 3HOYL 3CQZL 2E2JL 3GTKL 3S15L 4AYBP 2R93L 2NVTL 1I50L 3S1RL 1SFOL 3I4ML 4A3EL 3HOVL 1Y1WL 5C3EL 3GTJL 4Y7NL 2Y0SP 2R92L 4X6AL 3S17L 3HOXL 3RZOL 4A3ML 5M5XL 3HOWL 4Y52L 3GTLL 2YU9L 1WCML 5C4XL 4A3IL 5M3FL 4C2M1 4A3FL 3GTQL 5FLML 3GTGL 4C3JL 5IP9L 3FKIL 4A3LL 1Y1VL 4A3JL 5IYCL 3S1ML 3S2HL 5IYDL 3M3YL 3HOZL 2WB1P 5M5YL 2NVYL 3H0GL 5IYBL 4BBSL 3S14L 2JA7L 4A3GL 1TWCL 3K7AL 2JA6L 3S1QL 2JA5L 3S1NL 4BY7L 2JA8L 5FJ8L 2WAQP 3M4OL 4BBRL 2PMZP 5M3ML 1TWFL 3RZDL 1R9TL 2B63L 3H3VM 4A3BL 1TWGL 2NVXL 4QIWP 3GTML 1K83L 1I6HL 1I3QL 5M5WL 4C3HL 4BXXL 3HKZP 4A3CL 2VUML 2E2IL 4A3KL 3HOUL 1TWAL 3S16L 2E2HL 3PO2L 1TWHL 4BY1L 3S2DL 4A3DL 2R7ZL 5C44L 4C3IL 5C4JL 3GTPL 4A93L 2NVQL
chains in the Genus database with same CATH homology


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