3GTKL

Backtracked rna polymerase ii complex with 18mer rna
Total Genus 2
Loading diagram...

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
Loading diagram...

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
{{ tooltip.sname }} connected with {{ tooltip.tname }} : {{qFormat(tooltip.svalue) }}
publication title Structural basis of transcription: backtracked RNA polymerase II at 3.4 angstrom resolution.
pubmed doi rcsb
molecule keywords DNA-directed RNA polymerase II subunit RPB1
molecule tags Transcription, transferase/dna-rna hybrid
total genus 2
structure length 46
sequence length 46
ec nomenclature
pdb deposition date 2009-03-27

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 3gtkL00
3H0GL 4A3EL 3GTJL 2JA6L 2NVYL 3PO3L 4QIWP 4A3LL 1Y1WL 1TWAL 2JA5L 3GTML 2E2HL 1WCML 4A93L 3HOUL 3GTQL 3HKZP 3HOYL 3S17L 3HOXL 5M5WL 4Y52L 5M5XL 3HOZL 2NVTL 1I50L 5M5YL 4A3KL 1I6HL 5C4XL 2PMZP 2YU9L 4A3CL 5IP7L 5FLML 1I3QL 3GTLL 3M4OL 4Y7NL 2E2IL 4A3DL 5C3EL 2WB1P 2R92L 3K7AL 4A3GL 4A3IL 3GTOL 4C3JL 4BXXL 3PO2L 5C44L 5FJ8L 2E2JL 4BY7L 1SFOL 4C3HL 5IYCL 4BBSL 3GTPL 4BY1L 2NVXL 3S2HL 4C3IL 1Y1VL 3I4ML 3H3VM 3S16L 1TWCL 3RZOL 2B63L 1R9TL 5IYDL 3HOWL 4A3FL 4A3JL 2JA8L 4A3BL 2R93L 3S1QL 2R7ZL 4BBRL 1K83L 3GTGL 3HOVL 1TWFL 5IP9L 2Y0SP 1TWGL 3S1NL 4X6AL 1TWHL 5C4JL 3S14L 3CQZL 5M3ML 3GTKL 3M3YL 3FKIL 3S1ML 3S15L 2JA7L 2WAQP 5M3FL 4C2M1 3S2DL 5IYBL 2VUML 3I4NL 4AYBP 2NVQL 3RZDL 4A3ML 3S1RL
chains in the Genus database with same CATH superfamily
4A3EL 2NVYL 1NXGA 3PO3L 4XGHA 4A3LL 2A68D 4JADA 3J7Z1 2MS3A 4U671 3GTML 3HOUL 3QVDA 5JVG1 1BFYA 2PSMC 1RDGA 2QL0A 3HOZL 4AHZA 1LKMA 2M4VA 3JR7A 2PMZP 2A6HD 5IP7L 1CADA 5GAEc 3H9CA 2GMGA 1QCVA 2AYJA 3RYGA 2E2IL 4A3GL 4A3IL 3P2AA 2XJPA 2A69D 2HVYC 4ZN3B 4BBSL 3IU3I 2NVXL 5DM61 1Y1VL 3H3VM 3HJYB 4AR5A 2L0ZA 3H99A 2M4YA 1QQTA 3S1QL 2R7ZL 5GAGc 4BBRL 1Z92B 3GTGL 3PKJA 5IP9L 1LKOA 3S1NL 1IU6A 4X6AL 1TWHL 3FDJA 5C4JL 2LCQA 1F4LA 2ERJA 1FHHA 4ME3A 3S15L 1PFWA 5M3FL 4WFN1 1B71A 2M6OA 5AI3A 1ZRPA 3S2DL 1R0IA 3I4NL 1VZGA 2O5JD 3SS2A 2CKCA 1JYBA 4AHXA 1RDVA 1OWCA 3GTJL 2ERSA 1YUXA 2H12A 1YK5A 2E2HL 4A93L 1H7VA 5EINC 3GTQL 3HKZP 3HOYL 1DX8A 4V196 1NXEA 5M5YL 1I6HL 4E6YA 4UY81 3PKIA 2C6AA 3H97A 5MFPA 4AI2A 3LWPB 3GTLL 3M4OL 1R0HA 5C3EL 2WB1P 2R92L 2Z3RB 4BXXL 5AN9H 3WWLA 5C44L 5FJ8L 4C3HL 5IYCL 3MPSA 3GTPL 4BY1L 2JI3A 2KN9A 1P7PA 1S30A 1R0GA 3HOWL 4A3FL 2RFKB 4JAEA 5K2ME 1K83L 2C6BA 5H1Sc 3HOVL 4G6BA 3PWFA 3RZTA 4RXNA 3MSUA 1B2JA 3GTKL 5MLC3 2K2DA 2XJTA 3RZ6A 1RWDA 3WWNB 3S1ML 4AR6A 3PIP1 3MQKB 3KYXA 4POGA 1FHMA 3RZDL 4TVMA 1SMMA 3LWOB 2DSXA 3H0GL 2JA6L 1RB9A 4QIWP 4YWMA 1Y1WL 1TWAL 2JA5L 3QQCE 1LTLA 1WCML 3B0AB 1B13A 2BE5D 2V3BB 2V0FA 5M5WL 3KYYA 1QYBA 2Z3QB 3PZAA 4Y52L 5M5XL 4YWLA 2A6ED 2NVTL 1I50L 3LPEB 4A3KL 4XXBB 5C4XL 1CAAA 2JI1A 3B08B 4A3CL 5FLML 4POFA 2PVXA 1OWBA 2V0EA 3K7AL 4AI1A 5MGNA 4C3JL 3GTOL 1IRNA 1IW7D 3ZG6A 2E2JL 4BY7L 1SFOL 5AI2A 1T9QA 8RXNA 1S2ZA 4B8CD 5EIOC 4C3IL 3S16L 3RZOL 5IYDL 4AR3A 4ZN1B 2CKAA 5MF6A 1C09A 1IROA 4A3BL 2R93L 1YUZA 5JVH1 2EY4E 1DVBA 2XJSA 2Y0SP 1TWGL 1YK4A 4JAFA 3S14L 3VPBE 2XJQA 5M3ML 1YV1A 1BQ8A 5DM71 3M3YL 3KYWA 1VZHA 1LKPA 2JA7L 3H9BA 4C2M1 3KYUA 7RXNA 1NNQA 1ODHA 2VUML 4K9FA 2NVQL 4A3DL 3S1RL 4AR4A 1VZIA 1B2OA 1PFUA 1BRFA 1PZXA 6RXNA 3LWRB 1R0FA 2KKDA 3LWQB 1VCXA 2XJVA 3NFPI 3HJWB 3S17L 3HOXL 3LNLA 2VL6A 3PL5A 4GS7D 4AHWA 2XJUA 2AUSB 4AHYA 2NYDA 2YU9L 1SMWA 3A44A 2JI2A 5IY0A 4JAGA 1I3QL 2AQCA 5MFZA 4AI3A 4Y7NL 1PFVA 3LWVB 1E8JA 1BE7A 3PO2L 2PVEA 1IU5A 3HAXC 1RYQA 2J9UB 2ZIXA 5GAHc 3S2HL 1WJVA 1T9PA 3I4ML 1TWCL 1PFYA 2B63L 1R9TL 4LHLA 5GADc 4A3JL 1SMUA 2PYAA 4LHNA 2JA8L 3J7Y1 1R0JA 1TWFL 2RDVA 2M6PA 1S24A 2B5ID 3CQZL 4AI0A 3FKIL 4TPUA 2PPTA 5RXNA 3P8BA 1BQ9A 2CR8A 2WAQP 2HR5A 3PIO1 3K35A 5IYBL 2XJRA 1T9OA 4AYBP 2APOB 3KYVA 1RYTA 4A3ML
chains in the Genus database with same CATH topology
3H0GL 4A3EL 3GTJL 2JA6L 2NVYL 3PO3L 4QIWP 4A3LL 1Y1WL 1TWAL 2JA5L 3GTML 2E2HL 1WCML 4A93L 3HOUL 3GTQL 3HKZP 3HOYL 3S17L 3HOXL 5M5WL 4Y52L 5M5XL 3HOZL 2NVTL 1I50L 5M5YL 4A3KL 1I6HL 5C4XL 2PMZP 2YU9L 4A3CL 5IP7L 5FLML 1I3QL 3GTLL 3M4OL 4Y7NL 2E2IL 4A3DL 5C3EL 2WB1P 2R92L 3K7AL 4A3GL 4A3IL 3GTOL 4C3JL 4BXXL 3PO2L 5C44L 5FJ8L 2E2JL 4BY7L 1SFOL 4C3HL 5IYCL 4BBSL 3GTPL 4BY1L 2NVXL 3S2HL 4C3IL 1Y1VL 3I4ML 3H3VM 3S16L 1TWCL 3RZOL 2B63L 1R9TL 5IYDL 3HOWL 4A3FL 4A3JL 2JA8L 4A3BL 2R93L 3S1QL 2R7ZL 4BBRL 1K83L 3GTGL 3HOVL 1TWFL 5IP9L 2Y0SP 1TWGL 3S1NL 4X6AL 1TWHL 5C4JL 3S14L 3CQZL 5M3ML 3GTKL 3M3YL 3FKIL 3S1ML 3S15L 2JA7L 2WAQP 5M3FL 4C2M1 3S2DL 5IYBL 2VUML 3I4NL 4AYBP 2NVQL 3RZDL 4A3ML 3S1RL
chains in the Genus database with same CATH homology


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

 
#similar chains in the Genus database (?% sequence similarity)
...loading similar chains, please wait...
#similar chains, but unknotted
...loading similar chains, please wait...
#similar chains in the pdb database (?% sequence similarity)
...loading similar chains, please wait...