Research workbench
The structure of nucleoside phosphatase SA1684 complex with GTP analogue from staphylococcus aureus
Analyse The structure of nucleoside phosphatase SA1684 complex with GTP analogue from… in the GL1X research workbench: secondary structure, accessibility, pockets, interfaces, conservation, variants, modifications, peptides, crosslinks and neighbours on the 3D structure.
- PDB
- 7D8L
- Type
- protein
- Length
- 174 residues
- Chains
- 1
- Method
- x-ray diffraction
- Collection
- MolNFT v1 / PDB
- Contract
- 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
- Owner
- 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
- Molecule
- UPF0374 protein SA1684
- UniProt
- Q7A4T2
- Ligands
- GSP, MG
- Pockets
- 1 · best druggability 0.46
Structure
x-ray diffraction · 1 distinct chain · 28% helix, 43% strand (DSSP).
| Chain | Molecule | Type | Residues | Secondary structure | UniProt |
|---|---|---|---|---|---|
| A | UPF0374 protein SA1684 | protein | 174 | 28% helix, 43% strand | Q7A4T2 |
Ligands and binding sites
- GSP · 5'-guanosine-diphosphate-monothiophosphate · ligand · chains A
- MG · Magnesium ion · metal · 2 copies · chains A
- GOL · Glycerol · additive · 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 | 127 | 0.46 | 0.78 | 21 | GSP |
Compared structures
- 7D8L · The structure of nucleoside phosphatase Sa1684 complex with GTP analogue from… · the same entry in another collection · chain A against A, TM-score 1.00
- Q7A4T2 · AlphaFold monomer V2.0 prediction for UPF0374 protein SA1684 (Q7A4T2) · 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 Q7A4T2
- Elsewhere: RCSB PDB 7D8L · PDBe 7D8L · UniProt Q7A4T2
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