MolNFT v1 · #167196 · protein
Structure of the periplasmic domain of yejm from salmonella typhimurium (twinned)
6VDF: “Structure of the periplasmic domain of yejm from salmonella typhimurium (twinned)”. X-ray diffraction, 3 ligands (PSE, MN, PO4). MolNFT v1 #167196 on GenesisL1: 3D structure, binding sites and pockets in GL1X.
- PDB
- 6VDF
- Type
- protein
- Length
- 1,372 residues
- Chains
- 4
- Method
- x-ray diffraction
- Collection
- MolNFT v1 / PDB
- Contract
- 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
- Owner
- 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
- UniProt
- A0A5K1U4E1
- Ligands
- PSE, MN, PO4
Structure
x-ray diffraction · 1 distinct chain.
| Chain | Molecule | Type | Residues | Secondary structure | UniProt |
|---|---|---|---|---|---|
| A, B, C, D | — | protein | 343 | — | A0A5K1U4E1 |
Ligands and binding sites
- PSE · O-phosphoethanolamine · ligand · 2 copies · chains C, D
- MN · Manganese (II) ion · metal · 3 copies · chains A, B, D
- PO4 · Phosphate ion · ion · 2 copies · chains A, D
- PEG · Di(hydroxyethyl)ether · additive · 2 copies · chains A
- PGE · Triethylene glycol · additive · chains A
- EDO · 1,2-ethanediol · additive · chains B
Binding sites are the residues within 4.5 Å of a ligand's heavy atoms.
Compared structures
- 6VDF · Structure of the periplasmic domain of YejM from Salmonella typhimurium (twinned) · 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 A0A5K1U4E1
- Elsewhere: RCSB PDB 6VDF · PDBe 6VDF · UniProt A0A5K1U4E1
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