MolNFT v1 · #111244 · protein
Structure of a putative phosphomethylpyrimidine kinase from acinetobacter baumannii
4YL5: “Structure of a putative phosphomethylpyrimidine kinase from acinetobacter baumannii”. X-ray diffraction, 1 pocket (best druggability 0.60). MolNFT v1 #111244 on GenesisL1: 3D structure, binding sites and pockets in GL1X.
- PDB
- 4YL5
- Type
- protein
- Length
- 227 residues
- Chains
- 1
- Method
- x-ray diffraction
- Collection
- MolNFT v1 / PDB
- Contract
- 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
- Owner
- 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
- Molecule
- Putative phosphomethylpyrimidine kinase
- UniProt
- J5A2R3
- Pockets
- 1 · best druggability 0.60
Structure
x-ray diffraction · 1 distinct chain · 37% helix, 27% strand (DSSP).
| Chain | Molecule | Type | Residues | Secondary structure | UniProt |
|---|---|---|---|---|---|
| A | Putative phosphomethylpyrimidine kinase | protein | 227 | 37% helix, 27% strand | J5A2R3 |
Ligands and binding sites
- EDO · 1,2-ethanediol · additive · 2 copies · 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 | 211 | 0.60 | 0.81 | 37 | EDO |
Modifications
Observed in the structure: 1 disulfide (disulfide).
Compared structures
- 4YL5 · Structure of a putative phosphomethylpyrimidine kinase from Acinetobacter baumannii · the same entry in another collection · chain A against A, TM-score 1.00
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 J5A2R3
- Elsewhere: RCSB PDB 4YL5 · PDBe 4YL5 · UniProt J5A2R3
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