3S16L

Rna polymerase ii initiation complex with an 8-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 3s16L00
5FJ8L 4A93L 3GTLL 4Y7NL 4QIWP 3K7AL 2E2JL 5M5YL 3S14L 4C3IL 3S1QL 4A3JL 4BY7L 4BBSL 1Y1WL 4A3FL 3PO2L 1TWFL 2PMZP 5M5WL 2JA7L 4A3EL 5M3ML 2R92L 1TWAL 5FLML 1TWGL 2R7ZL 5M3FL 5M5XL 2NVYL 3I4NL 4A3GL 3CQZL 4BXXL 4A3DL 3S1NL 4BY1L 1Y1VL 3S2HL 1I6HL 3S16L 5C4JL 2Y0SP 2JA5L 3S1ML 2VUML 1TWCL 3RZDL 1K83L 3H3VM 3PO3L 2R93L 3GTJL 2YU9L 3HOYL 4A3ML 3I4ML 4X6AL 3RZOL 3HOWL 1I50L 1SFOL 3HKZP 3S2DL 5C4XL 1WCML 4BBRL 3GTPL 3M3YL 3FKIL 3GTQL 2NVQL 1I3QL 5IYCL 3HOUL 4C3JL 4Y52L 5C3EL 3S17L 4A3IL 2NVTL 4A3CL 3HOZL 3HOXL 3GTKL 2WAQP 3GTGL 4A3LL 3H0GL 4C2M1 2JA6L 4A3KL 5IYDL 4AYBP 1TWHL 2NVXL 5IYBL 2E2IL 2JA8L 3M4OL 3GTML 2B63L 5C44L 3GTOL 3S1RL 5IP7L 1R9TL 2E2HL 5IP9L 4A3BL 2WB1P 3HOVL 4C3HL 3S15L
chains in the Genus database with same CATH superfamily
2CKCA 4K9FA 1PZXA 1PFUA 2A68D 5M5YL 4AR4A 4BBSL 2Z3RB 8RXNA 1H7VA 1YK4A 2CKAA 1ZRPA 2PYAA 2R92L 2KKDA 5M3FL 2XJTA 3I4NL 3CQZL 1RB9A 4A3DL 2H12A 1LKOA 5AI3A 3S1NL 4LHNA 2EY4E 3KYUA 2RFKB 2VUML 4JADA 4AHZA 3H3VM 3KYYA 4JAFA 3HOWL 1VZGA 1SFOL 3HKZP 5MF6A 3FDJA 5C4XL 3KYWA 3GTQL 2NYDA 2NVQL 5RXNA 1I3QL 4C3JL 3J7Y1 4A3CL 3H9BA 1NNQA 3GTKL 3LWRB 2VL6A 3MSUA 2GMGA 1RWDA 5DM71 3H0GL 2XJSA 4ME3A 2M4YA 1LTLA 4RXNA 2E2IL 3H9CA 4POGA 3P2AA 3PL5A 5MFPA 3RZ6A 4AR5A 4A3BL 5IY0A 3B0AB 3NFPI 4C3HL 1YK5A 3PKIA 5AN9H 4A93L 1YUXA 3ZG6A 4C3IL 5AI2A 3S1QL 1C09A 2CR8A 4V196 3LWVB 1B71A 4B8CD 1RYQA 2PMZP 3HJYB 5M5WL 3MPSA 1CADA 4A3EL 1F4LA 1VCXA 3HAXC 4XXBB 1TWAL 3KYXA 1TWGL 2R7ZL 2C6AA 2APOB 3P8BA 2NVYL 2XJQA 1NXEA 1S24A 3PZAA 4BY1L 1VZIA 1QCVA 5H1Sc 5C4JL 2Y0SP 3S1ML 1PFWA 1OWBA 1TWCL 2PSMC 2R93L 3GTJL 4X6AL 1VZHA 2JI1A 3HJWB 5MLC3 2Z3QB 1QQTA 2B5ID 2AQCA 3S2DL 1LKMA 1WCML 3GTPL 2V0FA 2QL0A 5GADc 5C3EL 3S17L 4A3IL 2NVTL 2M6PA 3HOXL 4LHLA 1P7PA 1T9OA 1R0HA 2HR5A 4AHWA 2KN9A 3MQKB 4A3LL 2A6ED 2JA6L 4AYBP 1TWHL 4AR6A 2JI2A 5IYBL 4G6BA 3RYGA 5EINC 2B63L 5EIOC 1SMUA 4AI3A 1NXGA 4AHXA 1BE7A 5C44L 1BRFA 4WFN1 6RXNA 2DSXA 2E2HL 3S15L 3VPBE 3PIO1 2XJUA 3S14L 4A3JL 1R0GA 1SMWA 1JYBA 1Y1WL 3PO2L 7RXNA 1TWFL 2JA7L 1BFYA 3QQCE 1SMMA 2PVEA 5M3ML 5FLML 3PKJA 2O5JD 2M6OA 1B2JA 1PFVA 3LWQB 2ERJA 3K35A 5MGNA 2PPTA 1T9PA 1Y1VL 1I6HL 1RYTA 5JVG1 4AI0A 1IRNA 2BE5D 3RZDL 1K83L 3PO3L 1E8JA 4AI1A 3HOYL 4A3ML 3LWOB 1DVBA 3RZOL 2XJVA 1I50L 5K2ME 2AUSB 1YUZA 1S2ZA 1B13A 2LCQA 3M3YL 3FKIL 1Z92B 3HOUL 1RDVA 1BQ8A 3B08B 1ODHA 1PFYA 5GAHc 1IU5A 3JR7A 2WAQP 3GTGL 1T9QA 4C2M1 2M4VA 4A3KL 2PVXA 4ZN3B 4TVMA 3QVDA 4ZN1B 2K2DA 2NVXL 3LPEB 1FHMA 2JA8L 4JAEA 1IU6A 5GAGc 1BQ9A 1FHHA 3GTOL 5IP7L 1R9TL 3KYVA 5IP9L 3H99A 5FJ8L 3J7Z1 3GTLL 4Y7NL 4QIWP 3K7AL 2E2JL 3IU3I 4XGHA 4BY7L 1IROA 4U671 4TPUA 1OWCA 3A44A 4A3FL 2RDVA 1S30A 4UY81 1R0FA 2J9UB 2JI3A 2ZIXA 2XJPA 1DX8A 3SS2A 1R0JA 1LKPA 5M5XL 4A3GL 2C6BA 5GAEc 5JVH1 4BXXL 4POFA 3S2HL 2XJRA 3S16L 2JA5L 5DM61 4AR3A 1QYBA 2V3BB 3PWFA 2YU9L 4AHYA 3I4ML 2MS3A 1RDGA 4JAGA 2V0EA 4BBRL 3WWNB 1CAAA 3LWPB 5IYCL 4Y52L 4GS7D 1R0IA 3HOZL 3RZTA 3H97A 3PIP1 5MFZA 5IYDL 2L0ZA 2HVYC 3WWLA 2AYJA 4E6YA 3LNLA 3M4OL 3GTML 1YV1A 2A69D 4YWMA 1WJVA 1IW7D 3S1RL 4AI2A 2WB1P 3HOVL 2A6HD 1B2OA 2ERSA 4YWLA
chains in the Genus database with same CATH topology
5FJ8L 4A93L 3GTLL 4Y7NL 4QIWP 3K7AL 2E2JL 5M5YL 3S14L 4C3IL 3S1QL 4A3JL 4BY7L 4BBSL 1Y1WL 4A3FL 3PO2L 1TWFL 2PMZP 5M5WL 2JA7L 4A3EL 5M3ML 2R92L 1TWAL 5FLML 1TWGL 2R7ZL 5M3FL 5M5XL 2NVYL 3I4NL 4A3GL 3CQZL 4BXXL 4A3DL 3S1NL 4BY1L 1Y1VL 3S2HL 1I6HL 3S16L 5C4JL 2Y0SP 2JA5L 3S1ML 2VUML 1TWCL 3RZDL 1K83L 3H3VM 3PO3L 2R93L 3GTJL 2YU9L 3HOYL 4A3ML 3I4ML 4X6AL 3RZOL 3HOWL 1I50L 1SFOL 3HKZP 3S2DL 5C4XL 1WCML 4BBRL 3GTPL 3M3YL 3FKIL 3GTQL 2NVQL 1I3QL 5IYCL 3HOUL 4C3JL 4Y52L 5C3EL 3S17L 4A3IL 2NVTL 4A3CL 3HOZL 3HOXL 3GTKL 2WAQP 3GTGL 4A3LL 3H0GL 4C2M1 2JA6L 4A3KL 5IYDL 4AYBP 1TWHL 2NVXL 5IYBL 2E2IL 2JA8L 3M4OL 3GTML 2B63L 5C44L 3GTOL 3S1RL 5IP7L 1R9TL 2E2HL 5IP9L 4A3BL 2WB1P 3HOVL 4C3HL 3S15L
chains in the Genus database with same CATH homology


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