MolNFT v1 · #97240 · protein
Crystal structure of a 4-hydroxyproline epimerase from burkholderia multivorans, target efi-506479, with bound phosphate, closed domains
4K7X · Proline racemase: “Crystal structure of a 4-hydroxyproline epimerase from burkholderia multivorans, target efi-506479, with…”. X-ray diffraction, 3 ligands (NA, PO4, CL), 2 pockets (best druggability 0.37). MolNFT v1 #97240 on…
- PDB
- 4K7X
- Type
- protein
- Length
- 314 residues
- Chains
- 1
- Method
- x-ray diffraction
- Collection
- MolNFT v1 / PDB
- Contract
- 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
- Owner
- 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
- Molecule
- Proline racemase
- EC
- 5.1.1.4
- UniProt
- B3D6W2
- Ligands
- NA, PO4, CL
- Pockets
- 2 · best druggability 0.37
Structure
x-ray diffraction · 1 distinct chain · 22% helix, 38% strand (DSSP).
| Chain | Molecule | Type | Residues | Secondary structure | UniProt |
|---|---|---|---|---|---|
| A | Proline racemase (EC 5.1.1.4) | protein | 314 | 22% helix, 38% strand | B3D6W2 |
Ligands and binding sites
- NA · Sodium ion · metal · chains A
- PO4 · Phosphate ion · ion · 5 copies · chains A
- CL · Chloride ion · ion · chains A
- GOL · Glycerol · additive · chains A
Binding sites are the residues within 4.5 Å of a ligand's heavy atoms.
Pockets
2 pockets found on a 1 Å grid, 0 with a druggability of 0.5 or more.
| Volume (ų) | Druggability | Buriedness | Lining residues | Inside | |
|---|---|---|---|---|---|
| 1 | 65 | 0.37 | 0.78 | 16 | GOL |
| 2 | 58 | 0.27 | 0.74 | 14 | empty |
Compared structures
- 4K7X · Crystal structure of a 4-hydroxyproline epimerase from burkholderia multivorans, target… · the same entry in another collection · chain A against A, TM-score 1.00
- B3D6W2 · AlphaFold monomer V2.0 prediction for 4-hydroxyproline 2-epimerase 1 (B3D6W2) · a predicted model of the same protein · chain A 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 B3D6W2
- Elsewhere: RCSB PDB 4K7X · PDBe 4K7X · UniProt B3D6W2
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