4A3GL

Rna polymerase ii initial transcribing complex with a 2nt dna-rna hybrid
Total Genus 1
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
1
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 initial RNA polymerase II transcription.
pubmed doi rcsb
molecule keywords DNA-DIRECTED RNA POLYMERASE II SUBUNIT RPB1
molecule tags Transcription
total genus 1
structure length 46
sequence length 46
ec nomenclature
pdb deposition date 2011-09-30

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 4a3gL00
5IYBL 1I50L 2R92L 3S16L 5M3ML 3S14L 4BBSL 1I3QL 5IYDL 5IP7L 4A3JL 5IP9L 5IYCL 4A3FL 4A3DL 4BBRL 5M5YL 3H0GL 3HOZL 3S15L 3I4NL 4BY1L 1SFOL 1TWHL 3S17L 1TWAL 2WB1P 3S1NL 3HOWL 3K7AL 3RZDL 3GTGL 4AYBP 3GTML 3GTKL 3H3VM 5FLML 1R9TL 1TWFL 2NVXL 1TWCL 4C3JL 3S2DL 1Y1VL 5FJ8L 4C3HL 2NVTL 3S1QL 2YU9L 3M3YL 2E2JL 5M3FL 2E2IL 3HOVL 3HKZP 4A3LL 5C4XL 5M5WL 1WCML 2B63L 2JA5L 1TWGL 2E2HL 3GTQL 2R93L 3HOUL 2JA8L 1K83L 4Y7NL 4A3ML 4A3CL 4A3BL 2R7ZL 3CQZL 5M5XL 3GTOL 3PO3L 3GTJL 4C3IL 3I4ML 3HOXL 3M4OL 5C4JL 3PO2L 2JA6L 4Y52L 4QIWP 3GTPL 4A93L 4A3IL 2VUML 3S2HL 5C3EL 4BXXL 4BY7L 4A3GL 2NVQL 3FKIL 4C2M1 2Y0SP 2PMZP 3RZOL 3GTLL 4A3EL 3HOYL 2NVYL 5C44L 3S1RL 1Y1WL 2JA7L 1I6HL 3S1ML 4X6AL 2WAQP 4A3KL
chains in the Genus database with same CATH superfamily
3HAXC 3P2AA 5MFZA 2RFKB 5M3ML 1B71A 4AHWA 5IYDL 3PIO1 5IP9L 1VZGA 1S2ZA 1VZIA 5MFPA 1B13A 3H0GL 1R0IA 4BY1L 2V3BB 1NXEA 1NXGA 1S30A 5MF6A 4JAFA 2NYDA 4AYBP 2XJTA 1R9TL 2V0FA 3KYWA 2Z3QB 1S24A 5M3FL 2AYJA 2E2IL 2XJSA 1LKPA 1CAAA 1YK4A 3H97A 2B5ID 1TWGL 2JA5L 1F4LA 3GTQL 3K35A 4Y7NL 4A3ML 4A3BL 1YUZA 2R7ZL 3GTJL 3J7Y1 5AN9H 4C3IL 2XJPA 4AI0A 3HOXL 1RYQA 2PYAA 3PO2L 4QIWP 3PL5A 5EIOC 6RXNA 4A3IL 1SMMA 4G6BA 1QQTA 3S2HL 2NVQL 1FHHA 2BE5D 3A44A 4JAGA 4AR4A 1R0JA 2NVYL 3HOYL 4AI2A 1IROA 2J9UB 3JR7A 1LKOA 2LCQA 4B8CD 2JA7L 3LPEB 1P7PA 2DSXA 4XGHA 4AHYA 2M4YA 1OWCA 2A68D 1R0GA 4JAEA 3NFPI 1NNQA 4BBSL 4YWMA 1BQ8A 4XXBB 2H12A 5IYCL 4A3FL 1FHMA 1BE7A 4A3DL 3HOZL 3S15L 2WB1P 3HOWL 2VL6A 2APOB 3H3VM 1T9OA 3SS2A 5DM71 5K2ME 3PKJA 1RDGA 1Y1VL 2NVTL 4AR6A 3HKZP 2AQCA 4A3LL 2QL0A 1BFYA 2KN9A 3PKIA 5C4XL 2CR8A 1LTLA 2R93L 4A3CL 1T9QA 3LWOB 3KYXA 2CKCA 2Z3RB 1Z92B 1OWBA 2JA6L 1YUXA 3VPBE 4POGA 3GTPL 3ZG6A 2XJUA 2A69D 3P8BA 4C2M1 2PMZP 1RYTA 2PVEA 3LNLA 2PSMC 5C44L 1PFWA 2RDVA 3S1RL 3PWFA 2C6BA 1I6HL 3S1ML 1RB9A 1IU6A 4AR3A 2A6ED 3MQKB 1RWDA 1PFYA 1BRFA 2M6PA 1WJVA 5IYBL 3S16L 3S14L 2PVXA 1SMWA 4A3JL 2HVYC 1LKMA 3PZAA 3KYVA 1IW7D 5M5YL 4K9FA 4ZN3B 3HJWB 1TWHL 2EY4E 2XJVA 1TWAL 3S1NL 3LWRB 4ZN1B 3RZDL 3GTGL 4UY81 3GTKL 3MSUA 5FLML 1TWFL 2NVXL 1ODHA 1TWCL 4C3JL 4TPUA 2M4VA 5EINC 1DVBA 3S1QL 4GS7D 3M3YL 2AUSB 1VCXA 4POFA 5M5WL 2O5JD 4JADA 2B63L 4AI3A 2E2HL 5RXNA 3HOUL 3LWPB 1K83L 2K2DA 1SMUA 3CQZL 4LHNA 5M5XL 3PO3L 1IU5A 3M4OL 1YK5A 1QCVA 3KYUA 4AHZA 3H9BA 3RZ6A 3HJYB 4A93L 2VUML 2A6HD 2JI1A 1VZHA 4BY7L 4A3GL 3FKIL 1IRNA 1B2OA 5GAEc 1PFVA 2KKDA 1T9PA 3QVDA 3WWLA 1DX8A 1PZXA 4TVMA 3H99A 5GADc 1Y1WL 2JI2A 3QQCE 5GAGc 4A3KL 3PIP1 1I50L 2R92L 4WFN1 1I3QL 5IP7L 5AI2A 3LWQB 2GMGA 2ERSA 3RZTA 4BBRL 1PFUA 3I4NL 1SFOL 1QYBA 3S17L 2CKAA 3K7AL 3GTML 2ERJA 1C09A 1E8JA 3FDJA 3IU3I 4ME3A 1JYBA 5IY0A 4AI1A 3S2DL 4YWLA 1ZRPA 5FJ8L 4C3HL 2YU9L 3LWVB 2E2JL 3HOVL 1R0FA 3B08B 3H9CA 1WCML 2JA8L 5JVH1 2ZIXA 4E6YA 4AR5A 5JVG1 1CADA 2XJRA 3MPSA 3GTOL 3RYGA 5AI3A 4RXNA 1H7VA 3I4ML 2MS3A 2HR5A 7RXNA 4LHLA 2PPTA 2M6OA 5DM61 5C4JL 1BQ9A 4Y52L 1YV1A 4U671 5C3EL 4BXXL 5MLC3 2C6AA 8RXNA 2Y0SP 3RZOL 3GTLL 1RDVA 2L0ZA 4A3EL 4AHXA 1B2JA 3WWNB 5GAHc 4V196 3J7Z1 1R0HA 3B0AB 2JI3A 4X6AL 2XJQA 2V0EA 5MGNA 2WAQP 3KYYA 5H1Sc
chains in the Genus database with same CATH topology
5IYBL 1I50L 2R92L 3S16L 5M3ML 3S14L 4BBSL 1I3QL 5IYDL 5IP7L 4A3JL 5IP9L 5IYCL 4A3FL 4A3DL 4BBRL 5M5YL 3H0GL 3HOZL 3S15L 3I4NL 4BY1L 1SFOL 1TWHL 3S17L 1TWAL 2WB1P 3S1NL 3HOWL 3K7AL 3RZDL 3GTGL 4AYBP 3GTML 3GTKL 3H3VM 5FLML 1R9TL 1TWFL 2NVXL 1TWCL 4C3JL 3S2DL 1Y1VL 5FJ8L 4C3HL 2NVTL 3S1QL 2YU9L 3M3YL 2E2JL 5M3FL 2E2IL 3HOVL 3HKZP 4A3LL 5C4XL 5M5WL 1WCML 2B63L 2JA5L 1TWGL 2E2HL 3GTQL 2R93L 3HOUL 2JA8L 1K83L 4Y7NL 4A3ML 4A3CL 4A3BL 2R7ZL 3CQZL 5M5XL 3GTOL 3PO3L 3GTJL 4C3IL 3I4ML 3HOXL 3M4OL 5C4JL 3PO2L 2JA6L 4Y52L 4QIWP 3GTPL 4A93L 4A3IL 2VUML 3S2HL 5C3EL 4BXXL 4BY7L 4A3GL 2NVQL 3FKIL 4C2M1 2Y0SP 2PMZP 3RZOL 3GTLL 4A3EL 3HOYL 2NVYL 5C44L 3S1RL 1Y1WL 2JA7L 1I6HL 3S1ML 4X6AL 2WAQP 4A3KL
chains in the Genus database with same CATH homology


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