MolNFT v1 · #47410 · protein
Crystal structure of staphylococcal nuclease mutant V66D/P117G/H124L/S128A
2OXP · Thermonuclease: “Crystal structure of staphylococcal nuclease mutant V66D/P117G/H124L/S128A”. X-ray diffraction, 1 ligand (THP), 1 pocket (best druggability 0.46). MolNFT v1 #47410 on GenesisL1: 3D structure, binding sites and…
- PDB
- 2OXP
- Type
- protein
- Length
- 129 residues
- Chains
- 1
- Method
- x-ray diffraction
- Collection
- MolNFT v1 / PDB
- Contract
- 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
- Owner
- 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
- Molecule
- Thermonuclease
- EC
- 3.1.31.1
- UniProt
- Q8NXI6
- Ligands
- THP
- Pockets
- 1 · best druggability 0.46
Structure
x-ray diffraction · 1 distinct chain · 29% helix, 33% strand (DSSP).
| Chain | Molecule | Type | Residues | Secondary structure | UniProt |
|---|---|---|---|---|---|
| A | Thermonuclease (EC 3.1.31.1) | protein | 129 | 29% helix, 33% strand | Q8NXI6 |
Ligands and binding sites
- THP · Thymidine-3',5'-diphosphate · ligand · chains A
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 | 88 | 0.46 | 0.81 | 17 | THP |
Compared structures
- 2OXP · Crystal Structure of Staphylococcal Nuclease mutant V66D/P117G/H124L/S128A · the same entry in another collection · chain A against A, TM-score 1.00
- Q8NXI6 · AlphaFold monomer V2.0 prediction for thermonuclease (Q8NXI6) · a predicted model of the same protein · chain A against A, TM-score 0.99
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 Q8NXI6
- Elsewhere: RCSB PDB 2OXP · PDBe 2OXP · UniProt Q8NXI6
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