3S17L

Rna polymerase ii initiation complex with a 9-nt rna
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 Initiation complex structure and promoter proofreading.
pubmed doi rcsb
molecule keywords DNA-directed RNA polymerase II subunit RPB1
molecule tags Transcription/rna/dna
total genus 1
structure length 46
sequence length 46
ec nomenclature
pdb deposition date 2011-05-14

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 3s17L00
4A93L 3S14L 3HOXL 4Y52L 2WB1P 3CQZL 2YU9L 3GTKL 3HOZL 2E2HL 3S17L 3S1RL 3FKIL 3RZOL 5IYBL 1I50L 1I3QL 3GTML 4A3FL 4A3BL 1I6HL 3H3VM 4A3ML 4BXXL 3M4OL 5IP7L 4A3DL 4Y7NL 4BY1L 3I4ML 2NVYL 4QIWP 2JA6L 4A3IL 5C3EL 2NVXL 4A3KL 3M3YL 4A3CL 1K83L 5M5XL 5M5YL 3HOYL 5C4JL 2VUML 3GTPL 5M5WL 3S2DL 3I4NL 2JA8L 3S1NL 1TWAL 3PO3L 2JA5L 3GTOL 2NVTL 3S2HL 5M3FL 2B63L 2JA7L 4AYBP 3HOVL 3GTGL 1R9TL 5C44L 1Y1WL 1TWCL 2R93L 4C2M1 5M3ML 2NVQL 2R7ZL 4C3IL 3HOUL 5FLML 2WAQP 4A3GL 3GTJL 1TWHL 5IYCL 4C3HL 2E2JL 3HOWL 1WCML 1TWGL 2R92L 2E2IL 3RZDL 3HKZP 2PMZP 1Y1VL 4A3EL 4C3JL 3GTQL 1SFOL 3GTLL 4A3LL 1TWFL 3S16L 4BY7L 3S1ML 4BBRL 3PO2L 5C4XL 3K7AL 3S1QL 3H0GL 5FJ8L 5IYDL 4A3JL 3S15L 4BBSL 2Y0SP 4X6AL 5IP9L
chains in the Genus database with same CATH superfamily
4XGHA 1B2JA 1NNQA 4POFA 3S1RL 3FKIL 3KYXA 5IYBL 1I50L 3H9BA 4A3BL 4GS7D 2APOB 4A3ML 4BXXL 5IP7L 1WJVA 1YUXA 4BY1L 3LWVB 4ZN3B 2KKDA 1PZXA 2JA6L 4A3IL 2NVXL 3M3YL 2A68D 3LWQB 1ZRPA 3S2DL 1F4LA 3S1NL 2CKAA 3B08B 2XJPA 2A6ED 4AI3A 5MF6A 3PO3L 3PZAA 5GAHc 2XJQA 1YV1A 5C44L 1R9TL 1TWCL 2H12A 3KYUA 1YK5A 3B0AB 2AYJA 1BQ8A 1PFVA 4C3HL 5EIOC 2R92L 4ME3A 3RZDL 4AI1A 4JADA 1PFUA 2PMZP 1SFOL 1TWFL 3NFPI 3S16L 1VZHA 2DSXA 3RZTA 4TVMA 3K35A 2PSMC 1OWCA 2EY4E 1LKMA 1B71A 1BE7A 5IYDL 2KN9A 1B13A 1NXEA 1T9QA 1BFYA 3J7Z1 3RZ6A 4XXBB 4AI0A 4A93L 3S14L 3CQZL 3KYVA 2MS3A 2XJTA 3LNLA 5MGNA 3J7Y1 1OWBA 1BRFA 1S30A 5GAGc 3FDJA 5AI3A 2QL0A 1S24A 3MQKB 2M6PA 3IU3I 2A69D 2XJVA 1YK4A 5MFPA 4UY81 3PKJA 4JAFA 1QQTA 2JI1A 1VZGA 3LWPB 1DX8A 1RDGA 4A3CL 5M5YL 3SS2A 5C4JL 1PFYA 1S2ZA 2GMGA 3I4NL 1T9OA 3WWLA 4AR3A 1TWAL 2PYAA 1FHHA 3JR7A 1NXGA 1SMUA 2JA5L 2HVYC 3GTOL 2PPTA 5JVH1 3HOVL 1LKPA 4RXNA 1JYBA 1Y1WL 4AHWA 2NVQL 2R7ZL 4LHLA 4AR5A 5FLML 4AHXA 5MLC3 4WFN1 3KYYA 2V0FA 3QVDA 5IYCL 6RXNA 1TWGL 4K9FA 3HKZP 1T9PA 4C3JL 1RYQA 1R0HA 1R0JA 3HJYB 3PO2L 5C4XL 4YWMA 2HR5A 5K2ME 5JVG1 3S1QL 3HAXC 3H0GL 4A3JL 5DM61 4BBSL 5RXNA 2V3BB 3PKIA 2RDVA 3MSUA 3PWFA 4X6AL 1H7VA 3PL5A 3LWOB 3HOXL 2ZIXA 4Y52L 2WB1P 2M4VA 3GTKL 4AR6A 1BQ9A 2E2HL 4AHZA 2L0ZA 4G6BA 3LWRB 4A3FL 1LKOA 3A44A 2AUSB 3H3VM 3M4OL 2M4YA 4A3DL 3I4ML 5H1Sc 5C3EL 4A3KL 3WWNB 2NYDA 5MFZA 5M5XL 2XJUA 5M5WL 2A6HD 2JA8L 1SMMA 1R0FA 2PVEA 3S2HL 2NVTL 5M3FL 3H99A 4YWLA 5EINC 3RYGA 5IY0A 1Z92B 4AHYA 1IU5A 2R93L 1PFWA 4C2M1 5M3ML 3HJWB 1SMWA 1VZIA 5AI2A 8RXNA 1YUZA 2C6BA 1TWHL 2RFKB 7RXNA 2E2JL 3HOWL 2E2IL 1P7PA 2JI3A 3H97A 3P2AA 1Y1VL 4A3EL 3GTQL 2K2DA 2PVXA 3GTLL 1QYBA 4A3LL 4BY7L 3S1ML 5GAEc 1B2OA 3QQCE 1QCVA 3LPEB 3K7AL 1RYTA 1RWDA 5FJ8L 2V0EA 1IU6A 2Y0SP 2M6OA 3H9CA 5IP9L 3PIO1 2VL6A 1LTLA 2YU9L 1R0GA 3HOZL 4ZN1B 3S17L 3VPBE 1CADA 3RZOL 4AR4A 1I3QL 2Z3RB 3GTML 1I6HL 3MPSA 5AN9H 1R0IA 3KYWA 1E8JA 4Y7NL 1IRNA 2NVYL 4QIWP 1RB9A 2B5ID 2CR8A 4TPUA 2O5JD 1IW7D 1K83L 3HOYL 2VUML 4B8CD 3GTPL 1RDVA 2AQCA 1C09A 1VCXA 3ZG6A 1DVBA 2J9UB 5GADc 3P8BA 2B63L 2JA7L 4AYBP 1IROA 3GTGL 2JI2A 4C3IL 4JAGA 3HOUL 2WAQP 4AI2A 1CAAA 4A3GL 3GTJL 4U671 2Z3QB 1WCML 4LHNA 4V196 2BE5D 2XJSA 4POGA 2ERJA 4E6YA 2ERSA 4JAEA 2C6AA 4BBRL 5DM71 2LCQA 3PIP1 3S15L 2CKCA 1FHMA 2XJRA 1ODHA
chains in the Genus database with same CATH topology
4A93L 3S14L 3HOXL 4Y52L 2WB1P 3CQZL 2YU9L 3GTKL 3HOZL 2E2HL 3S17L 3S1RL 3FKIL 3RZOL 5IYBL 1I50L 1I3QL 3GTML 4A3FL 4A3BL 1I6HL 3H3VM 4A3ML 4BXXL 3M4OL 5IP7L 4A3DL 4Y7NL 4BY1L 3I4ML 2NVYL 4QIWP 2JA6L 4A3IL 5C3EL 2NVXL 4A3KL 3M3YL 4A3CL 1K83L 5M5XL 5M5YL 3HOYL 5C4JL 2VUML 3GTPL 5M5WL 3S2DL 3I4NL 2JA8L 3S1NL 1TWAL 3PO3L 2JA5L 3GTOL 2NVTL 3S2HL 5M3FL 2B63L 2JA7L 4AYBP 3HOVL 3GTGL 1R9TL 5C44L 1Y1WL 1TWCL 2R93L 4C2M1 5M3ML 2NVQL 2R7ZL 4C3IL 3HOUL 5FLML 2WAQP 4A3GL 3GTJL 1TWHL 5IYCL 4C3HL 2E2JL 3HOWL 1WCML 1TWGL 2R92L 2E2IL 3RZDL 3HKZP 2PMZP 1Y1VL 4A3EL 4C3JL 3GTQL 1SFOL 3GTLL 4A3LL 1TWFL 3S16L 4BY7L 3S1ML 4BBRL 3PO2L 5C4XL 3K7AL 3S1QL 3H0GL 5FJ8L 5IYDL 4A3JL 3S15L 4BBSL 2Y0SP 4X6AL 5IP9L
chains in the Genus database with same CATH homology


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