MolNFT v1 · #179936 · protein
Dihydrodipicolinate synthase (dhdps) from C.JEJUNI, N84A mutant with pyruvate bound in the active site and R,R-bislysine bound at the allosteric site
7KKD: “Dihydrodipicolinate synthase (dhdps) from C.JEJUNI, N84A mutant with pyruvate bound in the active site and…”. X-ray diffraction, 2 ligands (3VN, MG). MolNFT v1 #179936 on GenesisL1: 3D structure, binding sites and pockets in GL1X.
- PDB
- 7KKD
- Type
- protein
- Length
- 1,796 residues
- Chains
- 6
- Method
- x-ray diffraction
- Collection
- MolNFT v1 / PDB
- Contract
- 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
- Owner
- 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
- UniProt
- Q9PPB4
- Ligands
- 3VN, MG
Structure
x-ray diffraction · 2 distinct chains.
| Chain | Molecule | Type | Residues | Secondary structure | UniProt |
|---|---|---|---|---|---|
| A, C, E, F | — | protein | 296 | — | Q9PPB4 |
| B, D | — | protein | 306 | — | Q9PPB4 |
Ligands and binding sites
- 3VN · (2R,5R)-2,5-diamino-2,5-bis(4-aminobutyl)hexanedioic acid · ligand · 3 copies · chains A, F, B, E, C, D
- MG · Magnesium ion · metal · 9 copies · chains A, B, C, D, F
- ACT · Acetate ion · additive · 10 copies · chains A, B, C, D, E, F
- EDO · 1,2-ethanediol · additive · 10 copies · chains A, B, C, E, F
- PGE · Triethylene glycol · additive · 5 copies · chains A, B, D, E, F
- PEG · Di(hydroxyethyl)ether · additive · 2 copies · chains A, B, E
Binding sites are the residues within 4.5 Å of a ligand's heavy atoms.
Compared structures
- 7KKD · Dihydrodipicolinate synthase (DHDPS) from C.jejuni, N84A mutant with pyruvate bound in… · the same entry in another collection · chain F against F, TM-score 1.00
- Q9PPB4 · AlphaFold monomer V2.0 prediction for 4-hydroxy- tetrahydrodipicolinate synthase (Q9PPB4) · a predicted model of the same protein · 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 Q9PPB4
- Elsewhere: RCSB PDB 7KKD · PDBe 7KKD · UniProt Q9PPB4
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