MolNFT v1 · #126477 · protein
Crystal structure of dapf from corynebacterium glutamicum in complex with D,L-diaminopimelate
5M47 · Diaminopimelate epimerase: “Crystal structure of dapf from corynebacterium glutamicum in complex with D,L-diaminopimelate”. X-ray diffraction, 1 ligand (API). MolNFT v1 #126477 on GenesisL1: 3D structure, binding sites and pockets…
- PDB
- 5M47
- Type
- protein
- Length
- 280 residues
- Chains
- 1
- Method
- x-ray diffraction
- Collection
- MolNFT v1 / PDB
- Contract
- 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
- Owner
- 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
- Molecule
- Diaminopimelate epimerase
- EC
- 5.1.1.7
- UniProt
- Q8NP73
- Ligands
- API
Structure
x-ray diffraction · 1 distinct chain · 16% helix, 47% strand (DSSP).
| Chain | Molecule | Type | Residues | Secondary structure | UniProt |
|---|---|---|---|---|---|
| A | Diaminopimelate epimerase (EC 5.1.1.7) | protein | 280 | 16% helix, 47% strand | Q8NP73 |
Ligands and binding sites
- API · 2,6-diaminopimelic acid · ligand · chains A
Binding sites are the residues within 4.5 Å of a ligand's heavy atoms.
Compared structures
- 5M47 · Crystal structure of DapF from Corynebacterium glutamicum in complex with… · the same entry in another collection · chain A against A, TM-score 1.00
- Q8NP73 · AlphaFold monomer V2.0 prediction for diaminopimelate epimerase (Q8NP73) · a predicted model of the same protein · chain A against A, TM-score 0.93
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 Q8NP73
- Elsewhere: RCSB PDB 5M47 · PDBe 5M47 · UniProt Q8NP73
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