MolNFT v1 · #170896 · protein
Crystal structure of serine hydroxymethyltransferase from aphanothece halophytica in the covalent complex with malonate
6YMD: “Crystal structure of serine hydroxymethyltransferase from aphanothece halophytica in the covalent complex…”. X-ray diffraction, 2 ligands (PMP, NA). MolNFT v1 #170896 on GenesisL1: 3D structure, binding sites and pockets in GL1X.
- PDB
- 6YMD
- Type
- protein
- Length
- 839 residues
- Chains
- 2
- Method
- x-ray diffraction
- Collection
- MolNFT v1 / PDB
- Contract
- 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
- Owner
- 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
- UniProt
- I7H6W6
- Ligands
- PMP, NA
Structure
x-ray diffraction · 2 distinct chains.
| Chain | Molecule | Type | Residues | Secondary structure | UniProt |
|---|---|---|---|---|---|
| A | — | protein | 420 | — | I7H6W6 |
| B | — | protein | 419 | — | I7H6W6 |
Ligands and binding sites
- PMP · 4'-deoxy-4'-aminopyridoxal-5'-phosphate · ligand · 2 copies · chains A, B
- NA · Sodium ion · metal · 2 copies · chains A, B
- EDO · 1,2-ethanediol · additive · 5 copies · chains A, B
- MLI · Malonate ion · additive · 2 copies · chains A, B
Binding sites are the residues within 4.5 Å of a ligand's heavy atoms.
Compared structures
- 6YMD · Crystal structure of serine hydroxymethyltransferase from Aphanothece halophytica in the… · 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 I7H6W6
- Elsewhere: RCSB PDB 6YMD · PDBe 6YMD · UniProt I7H6W6
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