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


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