2E2JL

Rna polymerase ii elongation complex in 5 mm mg+2 with gmpcpp
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
b'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 5'-R(P*AP*UP*CP*GP*AP*GP*AP*GP*G)-3'
publication title Structural basis of transcription: role of the trigger loop in substrate specificity and catalysis
pubmed doi rcsb
molecule tags Transcription,transferase/dna-rna hybrid
total genus 1
structure length 46
sequence length 46
ec nomenclature
pdb deposition date 2006-11-14

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 2e2jL00
3K7AL 3HOWL 3HOZL 1Y1VL 3I4ML 4A3FL 3S1ML 3HOYL 4Y52L 1TWCL 4C3JL 2VUML 3RZDL 5C4JL 2JA8L 2R7ZL 4A3BL 4C3IL 3GTQL 3PO3L 1R9TL 5M3ML 4BY7L 2WAQP 5M3FL 4QIWP 3HOUL 2JA7L 3M3YL 5IP7L 3M4OL 3S2HL 1TWFL 3GTGL 2R92L 4AYBP 3S14L 4A3DL 2JA6L 4A3CL 2JA5L 3S17L 4Y7NL 3I4NL 5M5XL 4X6AL 2B63L 3S2DL 5C3EL 3H0GL 4C2M1 3HKZP 3GTOL 3GTPL 1I3QL 5IYCL 3GTJL 1WCML 4A3ML 2WB1P 3S1RL 4BBSL 1SFOL 1TWHL 2Y0SP 4C3HL 2YU9L 3PO2L 4A3KL 3HOVL 3GTML 3RZOL 5M5WL 2E2HL 2E2JL 1Y1WL 5IYDL 1K83L 1I6HL 1I50L 3CQZL 4A3EL 2NVYL 4A93L 3H3VM 2PMZP 5C44L 5IYBL 3HOXL 5M5YL 1TWAL 5FJ8L 5C4XL 5IP9L 4A3IL 4A3LL 4A3JL 3S15L 3S1NL 3S1QL 2R93L 3FKIL 2E2IL 4BBRL 3S16L 4BXXL 2NVQL 3GTKL 2NVTL 3GTLL 5FLML 4BY1L 1TWGL 4A3GL 2NVXL
chains in the Genus database with same CATH superfamily
4YWMA 1Y1VL 3A44A 1ZRPA 4C3JL 3B0AB 5C4JL 3MSUA 1YK5A 3H99A 1QQTA 2A6ED 4A3BL 5EIOC 5MFPA 5GADc 5M3FL 2DSXA 4AI0A 4XGHA 1F4LA 1TWFL 2R92L 4AYBP 3S14L 4UY81 2JA6L 1QYBA 4Y7NL 1PZXA 5M5XL 3H0GL 2PSMC 2RDVA 3H97A 3GTJL 1IU6A 3S1RL 4BBSL 2M6OA 4XXBB 3IU3I 4AHZA 1RYQA 1PFUA 4A3KL 1NNQA 3HOVL 5M5WL 1R0JA 1I50L 4ZN1B 1BQ9A 5GAEc 4A3EL 2QL0A 4A93L 4POGA 2APOB 1B71A 5IYBL 3HOXL 2A69D 3LWRB 5FJ8L 4GS7D 5K2ME 5MLC3 1R0GA 3S1NL 2BE5D 2E2IL 3JR7A 1VZIA 4BXXL 5DM61 3GTLL 5FLML 5JVH1 3K35A 1LKMA 7RXNA 1BFYA 3KYYA 3I4ML 3S1ML 2XJPA 1R0FA 2VUML 2V3BB 2M6PA 3KYUA 3LWOB 1IW7D 3QQCE 2RFKB 3PO3L 1R9TL 2M4YA 4BY7L 4AR6A 3WWLA 5DM71 3HOUL 1RYTA 1R0HA 2CKAA 5IP7L 2AUSB 3PKIA 3PWFA 4A3CL 3S17L 4YWLA 2HVYC 2O5JD 4X6AL 3S2DL 5C3EL 4POFA 4TPUA 1JYBA 1RWDA 4JADA 1WCML 2WB1P 3PIO1 1YUZA 3GTML 2J9UB 2E2HL 3ZG6A 1DVBA 3PIP1 1OWBA 2XJRA 4E6YA 4RXNA 2KKDA 2PMZP 5M5YL 3NFPI 5IP9L 2PVEA 4A3JL 2VL6A 2XJQA 2R93L 1B2OA 1T9QA 2CKCA 4AI1A 3FDJA 4BBRL 2K2DA 3S16L 3GTKL 4BY1L 1IU5A 3LWPB 2NVXL 1SMMA 2MS3A 3HOWL 3LPEB 4TVMA 3LNLA 4Y52L 4ZN3B 1VCXA 4AR4A 2L0ZA 3RZDL 2XJSA 2C6BA 2R7ZL 4C3IL 3RZ6A 5M3ML 2WAQP 3M3YL 4G6BA 3RYGA 3QVDA 1WJVA 2Z3RB 2ERSA 3MQKB 3GTGL 1SMUA 2XJTA 2JA5L 4AR3A 3I4NL 1R0IA 3HAXC 3H9CA 5MF6A 3HKZP 2HR5A 3GTOL 3GTPL 1I3QL 1B13A 1BQ8A 4A3ML 8RXNA 1SFOL 1TWHL 4V196 1PFYA 2YU9L 2H12A 1BRFA 1BE7A 1S24A 3SS2A 4JAEA 5H1Sc 1Y1WL 1CAAA 2XJUA 3HJYB 1K83L 4AHYA 3P8BA 1SMWA 4AR5A 5EINC 3LWQB 2AYJA 2Z3QB 2NVYL 1YUXA 2LCQA 2M4VA 2GMGA 2KN9A 1TWAL 1LKOA 4A3IL 3KYVA 2PYAA 4WFN1 1PFWA 3LWVB 4A3LL 1RDGA 3HJWB 4JAFA 1NXGA 3WWNB 2AQCA 2JI1A 1P7PA 2EY4E 3VPBE 2NVTL 1OWCA 5RXNA 1TWGL 4A3GL 1CADA 3K7AL 3HOZL 1H7VA 5AI2A 4LHLA 4A3FL 2C6AA 3HOYL 1C09A 1TWCL 2JA8L 3KYXA 3PL5A 5GAGc 3GTQL 2PVXA 3MPSA 3J7Z1 4QIWP 2JA7L 4K9FA 3J7Y1 6RXNA 3M4OL 3S2HL 1T9OA 4AHXA 2ERJA 5JVG1 4A3DL 1T9PA 2JI2A 2B63L 1VZGA 1NXEA 4C2M1 5IYCL 4JAGA 2NYDA 2CR8A 3P2AA 1QCVA 1E8JA 1VZHA 2Y0SP 1ODHA 4AHWA 4C3HL 5MGNA 3KYWA 1IROA 1PFVA 1IRNA 3PO2L 1RDVA 1LTLA 3RZOL 1Z92B 1B2JA 2E2JL 1FHHA 2B5ID 5IYDL 3B08B 1YK4A 1I6HL 3PZAA 3CQZL 4AI3A 5IY0A 1YV1A 2V0EA 3H3VM 1DX8A 5C44L 5MFZA 5GAHc 1RB9A 3H9BA 4B8CD 1FHMA 5C4XL 4AI2A 3S15L 5AN9H 4LHNA 3S1QL 3FKIL 4ME3A 2PPTA 2A68D 1S30A 1LKPA 1S2ZA 4U671 5AI3A 2NVQL 3PKJA 2JI3A 2XJVA 2A6HD 3RZTA 2V0FA 2ZIXA
chains in the Genus database with same CATH topology
3K7AL 3HOWL 3HOZL 1Y1VL 3I4ML 4A3FL 3S1ML 3HOYL 4Y52L 1TWCL 4C3JL 2VUML 3RZDL 5C4JL 2JA8L 2R7ZL 4A3BL 4C3IL 3GTQL 3PO3L 1R9TL 5M3ML 4BY7L 2WAQP 5M3FL 4QIWP 3HOUL 2JA7L 3M3YL 5IP7L 3M4OL 3S2HL 1TWFL 3GTGL 2R92L 4AYBP 3S14L 4A3DL 2JA6L 4A3CL 2JA5L 3S17L 4Y7NL 3I4NL 5M5XL 4X6AL 2B63L 3S2DL 5C3EL 3H0GL 4C2M1 3HKZP 3GTOL 3GTPL 1I3QL 5IYCL 3GTJL 1WCML 4A3ML 2WB1P 3S1RL 4BBSL 1SFOL 1TWHL 2Y0SP 4C3HL 2YU9L 3PO2L 4A3KL 3HOVL 3GTML 3RZOL 5M5WL 2E2HL 2E2JL 1Y1WL 5IYDL 1K83L 1I6HL 1I50L 3CQZL 4A3EL 2NVYL 4A93L 3H3VM 2PMZP 5C44L 5IYBL 3HOXL 5M5YL 1TWAL 5FJ8L 5C4XL 5IP9L 4A3IL 4A3LL 4A3JL 3S15L 3S1NL 3S1QL 2R93L 3FKIL 2E2IL 4BBRL 3S16L 4BXXL 2NVQL 3GTKL 2NVTL 3GTLL 5FLML 4BY1L 1TWGL 4A3GL 2NVXL
chains in the Genus database with same CATH homology


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