MolNFT v1 · #125587 · protein
Crystal structure of polyphosphate kinase from meiothermus ruber bound to ADP
5LDB: “Crystal structure of polyphosphate kinase from meiothermus ruber bound to ADP”. X-ray diffraction, 4 ligands (ADP, MG, PO4). MolNFT v1 #125587 on GenesisL1: 3D structure, binding sites and pockets in GL1X.
- PDB
- 5LDB
- Type
- protein
- Length
- 1,039 residues
- Chains
- 4
- Method
- x-ray diffraction
- Collection
- MolNFT v1 / PDB
- Contract
- 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
- Owner
- 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
- UniProt
- A0A0S7ASE9
- Ligands
- ADP, MG, PO4, CL
Structure
x-ray diffraction · 3 distinct chains.
| Chain | Molecule | Type | Residues | Secondary structure | UniProt |
|---|---|---|---|---|---|
| A | — | protein | 258 | — | A0A0S7ASE9 |
| B, D | — | protein | 260 | — | A0A0S7ASE9 |
| C | — | protein | 261 | — | A0A0S7ASE9 |
Ligands and binding sites
- ADP · Adenosine-5'-diphosphate · ligand · 4 copies · chains A, B, C, D
- MG · Magnesium ion · metal · 4 copies · chains A, B, D
- PO4 · Phosphate ion · ion · 4 copies · chains A, B, C, D
- CL · Chloride ion · ion · chains B
- GOL · Glycerol · additive · chains A
Binding sites are the residues within 4.5 Å of a ligand's heavy atoms.
Compared structures
- 5LDB · Crystal Structure of Polyphosphate Kinase from Meiothermus ruber bound to ADP · 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 A0A0S7ASE9
- Elsewhere: RCSB PDB 5LDB · PDBe 5LDB · UniProt A0A0S7ASE9
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