MolNFT v1 · #59064 · protein
Crystal structure of a new RNA polymerase interacting protein
3BMB · Regulator of nucleoside diphosphate kinase: “Crystal structure of a new RNA polymerase interacting protein”. X-ray diffraction, 2 ligands (SO4, CL), 1 pocket (best druggability 0.56). MolNFT v1 #59064 on GenesisL1: 3D structure…
- PDB
- 3BMB
- Type
- protein
- Length
- 270 residues
- Chains
- 2
- Method
- x-ray diffraction
- Collection
- MolNFT v1 / PDB
- Contract
- 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
- Owner
- 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
- Molecule
- Regulator of nucleoside diphosphate kinase
- UniProt
- P0AFW4
- Ligands
- SO4, CL
- Pockets
- 1 · best druggability 0.56
Structure
x-ray diffraction · 1 distinct chain · 28% helix, 31% strand (DSSP).
| Chain | Molecule | Type | Residues | Secondary structure | UniProt |
|---|---|---|---|---|---|
| A, B | Regulator of nucleoside diphosphate kinase | protein | 135 | 28% helix, 31% strand | P0AFW4 |
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, 1 with a druggability of 0.5 or more.
| Volume (ų) | Druggability | Buriedness | Lining residues | Inside | |
|---|---|---|---|---|---|
| 1 | 248 | 0.56 | 0.77 | 35 | SO4 |
Interfaces
1 interface between chains.
- A–B · 582 Ų buried · 4 hydrogen bonds · protein-protein
Compared structures
- 3BMB · Crystal structure of a new RNA polymerase interacting protein · the same entry in another collection · chain A against A, TM-score 1.00
- P0AFW4 · AlphaFold monomer V2.0 prediction for regulator of nucleoside diphosphate kinase (P0AFW4) · a predicted model of the same protein · chain A against A, TM-score 0.96
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 P0AFW4
- Elsewhere: RCSB PDB 3BMB · PDBe 3BMB · UniProt P0AFW4
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