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


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