Research workbench
X-ray crystal structure of the D/L subcomplex of the sulfolobus solfataricus RNA polymerase
Analyse X-ray crystal structure of the D/L subcomplex of the sulfolobus solfataricus… in the GL1X research workbench: secondary structure, accessibility, pockets, interfaces, conservation, variants, modifications, peptides, crosslinks and neighbours on the 3D structure.
- PDB
- 2PA8
- Type
- protein
- Length
- 356 residues
- Chains
- 2
- Method
- x-ray diffraction
- Collection
- MolNFT v1 / PDB
- Contract
- 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
- Owner
- 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
- Molecule
- DNA-directed RNA polymerase subunit D; DNA-directed RNA polymerase subunit L
- EC
- 2.7.7.6
- UniProt
- P95989, Q980K0
- Ligands
- F3S, SO4
- Pockets
- 1 · best druggability 0.40
Structure
x-ray diffraction · 2 distinct chains · 31% helix, 35% strand (DSSP).
| Chain | Molecule | Type | Residues | Secondary structure | UniProt |
|---|---|---|---|---|---|
| D | DNA-directed RNA polymerase subunit D (EC 2.7.7.6) | protein | 264 | 28% helix, 36% strand | P95989 |
| L | DNA-directed RNA polymerase subunit L (EC 2.7.7.6) | protein | 92 | 42% helix, 32% strand | Q980K0 |
Ligands and binding sites
Binding sites are the residues within 4.5 Å of a ligand's heavy atoms.
Pockets
1 pocket found on a 1 Å grid, 0 with a druggability of 0.5 or more.
| Volume (ų) | Druggability | Buriedness | Lining residues | Inside | |
|---|---|---|---|---|---|
| 1 | 117 | 0.40 | 0.76 | 17 | empty |
Interfaces
1 interface between chains.
- D–L · 1759 Ų buried · 25 hydrogen bonds · protein-protein
Modifications
Observed in the structure: 3 disulfide (disulfide).
Compared structures
- 2PA8 · X-Ray Crystal Structure of the D/L Subcomplex of the Sulfolobus Solfataricus RNA… · the same entry in another collection · chain D against D, TM-score 1.00
- Q980K0 · AlphaFold monomer V2.0 prediction for DNA-directed RNA polymerase subunit L (Q980K0) · a predicted model of the same protein · chain L against A, TM-score 0.96
- P95989 · AlphaFold monomer V2.0 prediction for DNA-directed RNA polymerase subunit D (P95989) · a predicted model of the same protein · chain D against A, TM-score 0.94
Analyse
- Open in the research workbench: secondary structure, accessibility, pockets, interfaces, conservation, variants, modifications, peptides and crosslinks on the 3D structure
- Every structure of UniProt P95989
- Every structure of UniProt Q980K0
- Elsewhere: RCSB PDB 2PA8 · PDBe 2PA8 · UniProt P95989 · UniProt Q980K0
GL1X is a live explorer of the GenesisL1 blockchain. Turn on JavaScript for search, charts and interactive views.