3S15L

Rna polymerase ii initiation complex with a 7-nt rna
Total Genus 2
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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
2
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 2
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 3s15L00
1TWHL 1I6HL 4BY1L 3M3YL 2VUML 3CQZL 4A3IL 2JA7L 5C4XL 3S1NL 5M3FL 3S16L 3S1RL 2JA8L 3GTPL 5C44L 2E2HL 5IP9L 5FJ8L 5C3EL 2E2JL 4A3KL 1R9TL 1TWFL 5M3ML 4A3EL 4BBSL 1SFOL 3H3VM 4QIWP 2NVTL 3HOUL 3S1ML 4BY7L 2E2IL 3S2HL 3S17L 4A3GL 3GTKL 3S1QL 3HKZP 2WAQP 5IP7L 5IYCL 3GTML 4A93L 5C4JL 3GTJL 2JA5L 2R7ZL 3H0GL 3PO3L 2R92L 4C3JL 3GTQL 1TWGL 3S2DL 1I50L 2Y0SP 3FKIL 4A3FL 3HOWL 3S15L 4C3IL 5M5WL 2JA6L 3I4NL 4A3BL 1Y1VL 4A3LL 4BBRL 5M5XL 4BXXL 1I3QL 3HOVL 4AYBP 4A3ML 3GTOL 2PMZP 4A3DL 4A3CL 5FLML 2R93L 5IYDL 3HOYL 5IYBL 1TWAL 1K83L 1Y1WL 3HOZL 3S14L 1WCML 4C2M1 2YU9L 2NVXL 3M4OL 3GTGL 3HOXL 4X6AL 2NVYL 3GTLL 3RZDL 3RZOL 4Y7NL 2WB1P 2B63L 4Y52L 3PO2L 2NVQL 3K7AL 5M5YL 1TWCL 3I4ML 4A3JL 4C3HL
chains in the Genus database with same CATH superfamily
3M3YL 1T9QA 3LWRB 2JA7L 5C4XL 4AI3A 2PYAA 3J7Z1 5C44L 2APOB 1VZHA 2E2JL 1TWFL 4A3EL 1QCVA 1VZGA 4XXBB 4XGHA 4QIWP 2NVTL 3HOUL 3PZAA 3KYUA 2A6ED 3GTKL 3S1QL 4K9FA 1SMUA 2WAQP 1S30A 3SS2A 4A93L 3GTJL 3H0GL 4JAGA 4C3JL 2R92L 4TVMA 1ZRPA 4V196 3S2DL 3WWNB 1OWCA 5DM71 2PVXA 1B71A 1BQ8A 4C3IL 1FHHA 4A3BL 1Y1VL 4A3LL 1WJVA 4AI2A 3KYYA 3PIO1 1I3QL 3HOVL 3LNLA 4AYBP 6RXNA 4A3ML 3GTOL 2PMZP 4A3DL 3J7Y1 1YV1A 5MFPA 5AI2A 5MF6A 1QQTA 1RWDA 2JI1A 5AN9H 1Y1WL 3PKJA 1WCML 1RB9A 1YUZA 2EY4E 3M4OL 1IU5A 1DVBA 2NYDA 2AQCA 1VCXA 3GTGL 3A44A 3GTLL 1PZXA 3PIP1 1IW7D 3LWQB 3PO2L 4AR6A 3I4ML 4A3JL 3H9BA 3HAXC 2CKCA 1I6HL 5JVH1 4BY1L 3FDJA 2HVYC 1IRNA 4AI0A 3MPSA 3S1NL 1IROA 3H97A 3S1RL 2JA8L 3QQCE 4AI1A 3GTPL 5IP9L 5FJ8L 1ODHA 3ZG6A 2KN9A 4BBSL 1P7PA 3LWVB 5RXNA 1OWBA 5EIOC 1T9OA 3S2HL 3S17L 7RXNA 4WFN1 4G6BA 4JAFA 5IP7L 5IYCL 4RXNA 1C09A 2ZIXA 2JA5L 1DX8A 3GTQL 3K35A 4ZN3B 2MS3A 4GS7D 5H1Sc 1RYTA 3H9CA 3PL5A 3HOWL 2M4VA 1R0JA 2CKAA 2JA6L 4LHNA 3KYXA 2RFKB 4BBRL 1PFUA 1Z92B 3P8BA 2O5JD 1LKPA 1SMWA 3MQKB 2Z3QB 5FLML 2HR5A 3IU3I 3B08B 1S2ZA 1T9PA 2NVXL 2ERSA 5GAGc 2BE5D 5IY0A 1RYQA 1LKOA 1R0IA 1S24A 1B2JA 1YUXA 1QYBA 2A6HD 1BQ9A 3B0AB 2C6AA 3PWFA 2VUML 3P2AA 2PPTA 2PSMC 4A3IL 3RZTA 2J9UB 5M3FL 4AR5A 3S16L 2XJTA 4POFA 2A69D 5C3EL 2QL0A 2RDVA 1R9TL 3HJYB 2KKDA 3PKIA 5M3ML 1PFVA 1BRFA 4YWLA 4TPUA 3H3VM 3HJWB 3S1ML 2E2IL 4A3GL 1NXEA 1PFWA 3HKZP 1CADA 2B5ID 5AI3A 5C4JL 1R0GA 1CAAA 2PVEA 4ZN1B 1LKMA 2Z3RB 3PO3L 1B13A 1TWGL 1FHMA 2XJPA 5GADc 4A3FL 3S15L 2V0FA 1JYBA 1F4LA 5M5WL 3I4NL 1YK4A 3KYWA 1LTLA 1E8JA 2XJVA 5M5XL 4U671 2M6OA 1R0FA 2DSXA 3WWLA 4A3CL 2R93L 1YK5A 2M4YA 3H99A 5IYBL 4AHXA 4AHYA 1K83L 2CR8A 3S14L 4C2M1 2YU9L 2JI3A 3QVDA 3LWPB 2K2DA 3HOXL 3RZDL 2C6BA 2V0EA 2XJQA 4Y7NL 2WB1P 4LHLA 5DM61 2B63L 2NVQL 3LPEB 5M5YL 2ERJA 1NXGA 1TWHL 3LWOB 2XJUA 1SMMA 2VL6A 3CQZL 1B2OA 1H7VA 1PFYA 2E2HL 1IU6A 4A3KL 2AYJA 4JAEA 2A68D 5MGNA 1SFOL 4POGA 3RZ6A 3RYGA 4BY7L 1BFYA 2XJRA 5MFZA 1R0HA 2H12A 3GTML 2R7ZL 2M6PA 3JR7A 1VZIA 4YWMA 2GMGA 3NFPI 1I50L 2Y0SP 3FKIL 1NNQA 5MLC3 2V3BB 2XJSA 4ME3A 5K2ME 2AUSB 1RDVA 4BXXL 5GAEc 4B8CD 4E6YA 1RDGA 4UY81 2LCQA 4AHZA 5IYDL 3HOYL 1TWAL 4JADA 4AHWA 3HOZL 1BE7A 5EINC 3KYVA 4AR4A 4X6AL 8RXNA 2JI2A 2NVYL 3RZOL 4AR3A 2L0ZA 4Y52L 3MSUA 3K7AL 1TWCL 5JVG1 5GAHc 3VPBE 4C3HL
chains in the Genus database with same CATH topology
1TWHL 1I6HL 4BY1L 3M3YL 2VUML 3CQZL 4A3IL 2JA7L 5C4XL 3S1NL 5M3FL 3S16L 3S1RL 2JA8L 3GTPL 5C44L 2E2HL 5IP9L 5FJ8L 5C3EL 2E2JL 4A3KL 1R9TL 1TWFL 5M3ML 4A3EL 4BBSL 1SFOL 3H3VM 4QIWP 2NVTL 3HOUL 3S1ML 4BY7L 2E2IL 3S2HL 3S17L 4A3GL 3GTKL 3S1QL 3HKZP 2WAQP 5IP7L 5IYCL 3GTML 4A93L 5C4JL 3GTJL 2JA5L 2R7ZL 3H0GL 3PO3L 2R92L 4C3JL 3GTQL 1TWGL 3S2DL 1I50L 2Y0SP 3FKIL 4A3FL 3HOWL 3S15L 4C3IL 5M5WL 2JA6L 3I4NL 4A3BL 1Y1VL 4A3LL 4BBRL 5M5XL 4BXXL 1I3QL 3HOVL 4AYBP 4A3ML 3GTOL 2PMZP 4A3DL 4A3CL 5FLML 2R93L 5IYDL 3HOYL 5IYBL 1TWAL 1K83L 1Y1WL 3HOZL 3S14L 1WCML 4C2M1 2YU9L 2NVXL 3M4OL 3GTGL 3HOXL 4X6AL 2NVYL 3GTLL 3RZDL 3RZOL 4Y7NL 2WB1P 2B63L 4Y52L 3PO2L 2NVQL 3K7AL 5M5YL 1TWCL 3I4ML 4A3JL 4C3HL
chains in the Genus database with same CATH homology


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