MolNFT v1 · #35011 · protein
Crystal structure of project JW0458 from escherichia COLI
2DY0 · Adenine phosphoribosyltransferase: “Crystal structure of project JW0458 from escherichia COLI”. X-ray diffraction, 1 ligand (MG), 1 pocket (best druggability 0.74). MolNFT v1 #35011 on GenesisL1: 3D structure, binding sites and…
- PDB
- 2DY0
- Type
- protein
- Length
- 363 residues
- Chains
- 2
- Method
- x-ray diffraction
- Collection
- MolNFT v1 / PDB
- Contract
- 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
- Owner
- 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
- Molecule
- Adenine phosphoribosyltransferase
- EC
- 2.4.2.7
- UniProt
- P69503
- Ligands
- MG
- Pockets
- 1 · best druggability 0.74
Structure
x-ray diffraction · 2 distinct chains · 36% helix, 34% strand (DSSP).
| Chain | Molecule | Type | Residues | Secondary structure | UniProt |
|---|---|---|---|---|---|
| A | Adenine phosphoribosyltransferase (EC 2.4.2.7) | protein | 182 | 37% helix, 34% strand | P69503 |
| B | Adenine phosphoribosyltransferase (EC 2.4.2.7) | protein | 181 | 35% helix, 35% strand | P69503 |
Ligands and binding sites
- MG · Magnesium ion · metal · 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, 1 with a druggability of 0.5 or more.
| Volume (ų) | Druggability | Buriedness | Lining residues | Inside | |
|---|---|---|---|---|---|
| 1 | 945 | 0.74 | 0.77 | 78 | empty |
Interfaces
1 interface between chains.
- A–B · 1418 Ų buried · 12 hydrogen bonds · protein-protein
Compared structures
- 2DY0 · Crystal structure of project JW0458 from Escherichia coli · the same entry in another collection · chain A against A, TM-score 1.00
- P69503 · AlphaFold monomer V2.0 prediction for adenine phosphoribosyltransferase (P69503) · a predicted model of the same protein · chain B against A, TM-score 0.98
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 P69503
- Elsewhere: RCSB PDB 2DY0 · PDBe 2DY0 · UniProt P69503
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