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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molecule keywords DNA-directed RNA polymerase II subunit RPB1
publication title Initiation complex structure and promoter proofreading.
pubmed doi rcsb
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
3S14L 2YU9L 3RZOL 1I50L 4BXXL 4A3IL 2JA5L 2PMZP 4AYBP 1R9TL 3S2HL 5M5XL 4BBSL 3H3VM 4BBRL 4Y7NL 4C2M1 3HOYL 3GTOL 4C3JL 5FLML 2R92L 2JA7L 4A3BL 3HOUL 3FKIL 2WB1P 4BY1L 5IYDL 4A3KL 1TWGL 5IP9L 3S15L 3HOVL 4A3FL 3GTJL 4QIWP 2VUML 3M4OL 5IYBL 4X6AL 5IP7L 3S1ML 1WCML 3CQZL 1K83L 2NVQL 3GTPL 5C4JL 2JA6L 4A3DL 2E2JL 5C44L 3K7AL 5M3ML 3S2DL 1TWFL 2NVYL 2NVTL 4A3LL 3HOWL 3PO2L 5M3FL 4A3JL 5FJ8L 2JA8L 3GTLL 1TWAL 3HOZL 2NVXL 3GTGL 2E2IL 5M5WL 1I3QL 2R93L 4A3CL 4A3ML 2E2HL 4C3HL 3S1NL 1TWHL 4A3GL 3HKZP 3M3YL 2R7ZL 3GTML 3HOXL 3S16L 3S1RL 1TWCL 1I6HL 2B63L 2WAQP 4Y52L 5C3EL 3S17L 5C4XL 3S1QL 4BY7L 3I4NL 4C3IL 3RZDL 1Y1WL 3H0GL 2Y0SP 3GTKL 4A93L 1Y1VL 4A3EL 3I4ML 5M5YL 5IYCL 3PO3L 1SFOL 3GTQL
chains in the Genus database with same CATH superfamily
1I50L 4AYBP 2PPTA 1R9TL 5M5XL 4BBSL 2PYAA 4BBRL 4C2M1 1R0GA 2KKDA 3GTOL 1BRFA 2XJPA 1LKPA 4YWLA 4RXNA 4BY1L 4LHLA 1YV1A 3PZAA 2C6BA 4JAGA 1R0JA 3LWVB 1BE7A 1IRNA 2RDVA 1BQ8A 5C4JL 4A3DL 5IY0A 2M4YA 1PFWA 2H12A 5M3FL 3IU3I 5FJ8L 1TWAL 1NNQA 1T9PA 3KYUA 2CKCA 1CAAA 2E2HL 2ZIXA 3LWRB 2JI1A 3MSUA 2KN9A 3S1NL 3M3YL 1PFVA 3KYWA 2XJUA 1PFUA 3QQCE 3H9BA 3NFPI 2R7ZL 3GTML 2EY4E 3KYXA 1BFYA 4ZN3B 2B63L 3SS2A 5GAEc 7RXNA 2M4VA 4AR3A 2Y0SP 3GTKL 4AHWA 3VPBE 1ODHA 5GAHc 1R0IA 1Y1VL 3I4ML 5M5YL 5IYCL 1LTLA 2YU9L 8RXNA 4K9FA 1NXEA 1IROA 3WWNB 4AR5A 1YUXA 5FLML 4LHNA 4POFA 2V0FA 3HOUL 3FKIL 5K2ME 5MFZA 1CADA 5IP9L 3KYVA 5DM71 4AHZA 2VUML 1VZHA 1B13A 4WFN1 1P7PA 1R0HA 4AHYA 2XJVA 3CQZL 2M6PA 1K83L 1S30A 1VCXA 2JA6L 4JAFA 3K7AL 3B0AB 1TWFL 3HOWL 3PO2L 1DX8A 1RDGA 4POGA 5RXNA 1YK4A 3GTLL 3LWQB 1OWCA 2E2IL 1R0FA 5AN9H 5M5WL 1RDVA 1RYTA 1IU6A 1PFYA 2R93L 4A3CL 4A3ML 2ERJA 4AI2A 4C3HL 1QQTA 1VZIA 3ZG6A 2Z3RB 4AI0A 2Z3QB 1B71A 3K35A 1TWCL 2B5ID 3PWFA 1B2OA 3HJWB 3FDJA 4Y52L 2ERSA 3S1QL 3I4NL 3J7Y1 3H9CA 4AR4A 4AHXA 3RZ6A 4A93L 3PKJA 3HAXC 3LPEB 4E6YA 3PKIA 3JR7A 2PVXA 1T9QA 5AI3A 5MLC3 1SFOL 4AI3A 4A3IL 5H1Sc 3S2HL 3H3VM 4Y7NL 3HOYL 1H7VA 1WJVA 1RB9A 5EIOC 2PSMC 2R92L 2JA7L 1SMUA 2QL0A 2WB1P 1ZRPA 5MF6A 1JYBA 5MGNA 5IYDL 1TWGL 4A3FL 4XXBB 1FHMA 2AQCA 4X6AL 5IP7L 2XJQA 2A68D 2XJRA 4U671 1WCML 1LKOA 1S24A 2BE5D 3GTPL 1YK5A 1F4LA 2E2JL 4TPUA 3MQKB 3MPSA 2NVTL 2AUSB 2JA8L 3HOZL 3GTGL 2V3BB 3WWLA 1DVBA 2O5JD 4TVMA 4YWMA 4JAEA 1PZXA 1QCVA 1TWHL 4A3GL 3HKZP 2XJTA 2MS3A 3PIO1 3HOXL 3S16L 1S2ZA 3RYGA 2A6HD 2WAQP 1T9OA 2J9UB 6RXNA 3J7Z1 4UY81 1E8JA 1NXGA 2AYJA 5GAGc 4C3IL 3H0GL 4ZN1B 3RZTA 1QYBA 3A44A 2A69D 2V0EA 2K2DA 1OWBA 1Z92B 4G6BA 3PO3L 3GTQL 3S14L 3RZOL 4BXXL 2JA5L 4AR6A 2PMZP 1B2JA 5JVH1 1RWDA 4C3JL 2APOB 4A3BL 3P8BA 1SMWA 2HR5A 3LWOB 4A3KL 3S15L 3HOVL 5EINC 5DM61 3GTJL 3B08B 4QIWP 3M4OL 5IYBL 3PIP1 2XJSA 3P2AA 1SMMA 3S1ML 2GMGA 2JI2A 2NVQL 3KYYA 2HVYC 2VL6A 5C44L 5M3ML 1VZGA 4GS7D 3S2DL 4ME3A 2CKAA 2NVYL 4A3LL 2PVEA 4V196 2A6ED 4A3JL 1RYQA 2NVXL 2RFKB 1BQ9A 4AI1A 2JI3A 1I3QL 2L0ZA 3LNLA 3H97A 1IU5A 3HJYB 2C6AA 2NYDA 4B8CD 3S1RL 2CR8A 3QVDA 1I6HL 5C3EL 3S17L 2LCQA 5C4XL 5AI2A 4BY7L 5GADc 3PL5A 3RZDL 1Y1WL 1YUZA 2M6OA 1C09A 4JADA 5MFPA 1IW7D 1LKMA 4XGHA 5JVG1 4A3EL 1FHHA 3H99A 3LWPB 2DSXA
chains in the Genus database with same CATH topology
3S14L 2YU9L 3RZOL 1I50L 4BXXL 4A3IL 2JA5L 2PMZP 4AYBP 1R9TL 3S2HL 5M5XL 4BBSL 3H3VM 4BBRL 4Y7NL 4C2M1 3HOYL 3GTOL 4C3JL 5FLML 2R92L 2JA7L 4A3BL 3HOUL 3FKIL 2WB1P 4BY1L 5IYDL 4A3KL 1TWGL 5IP9L 3S15L 3HOVL 4A3FL 3GTJL 4QIWP 2VUML 3M4OL 5IYBL 4X6AL 5IP7L 3S1ML 1WCML 3CQZL 1K83L 2NVQL 3GTPL 5C4JL 2JA6L 4A3DL 2E2JL 5C44L 3K7AL 5M3ML 3S2DL 1TWFL 2NVYL 2NVTL 4A3LL 3HOWL 3PO2L 5M3FL 4A3JL 5FJ8L 2JA8L 3GTLL 1TWAL 3HOZL 2NVXL 3GTGL 2E2IL 5M5WL 1I3QL 2R93L 4A3CL 4A3ML 2E2HL 4C3HL 3S1NL 1TWHL 4A3GL 3HKZP 3M3YL 2R7ZL 3GTML 3HOXL 3S16L 3S1RL 1TWCL 1I6HL 2B63L 2WAQP 4Y52L 5C3EL 3S17L 5C4XL 3S1QL 4BY7L 3I4NL 4C3IL 3RZDL 1Y1WL 3H0GL 2Y0SP 3GTKL 4A93L 1Y1VL 4A3EL 3I4ML 5M5YL 5IYCL 3PO3L 1SFOL 3GTQL
chains in the Genus database with same CATH homology


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