MolNFT v1 · #138253 · protein
Structure of a bacterial polysialyltransferase in complex with fondaparinux
5WD7: “Structure of a bacterial polysialyltransferase in complex with fondaparinux”. X-ray diffraction, 6 ligands (ZDO, SUS, IDS). MolNFT v1 #138253 on GenesisL1: 3D structure, binding sites and pockets in GL1X.
- PDB
- 5WD7
- Type
- protein
- Length
- 764 residues
- Chains
- 2
- Method
- x-ray diffraction
- Collection
- MolNFT v1 / PDB
- Contract
- 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
- Owner
- 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
- UniProt
- G4RIN4
- Ligands
- ZDO, SUS, IDS, BDP, SGN, SO4
Structure
x-ray diffraction · 1 distinct chain.
| Chain | Molecule | Type | Residues | Secondary structure | UniProt |
|---|---|---|---|---|---|
| A, M | — | protein | 382 | — | G4RIN4 |
Ligands and binding sites
- ZDO · methyl 2-deoxy-6-O-sulfo-2-(sulfoamino)-alpha-D-glucopyranoside · ligand · chains A
- SUS · 2-deoxy-3,6-di-O-sulfo-2-(sulfoamino)-alpha-D-glucopyranose · ligand · chains A
- IDS · 2-O-sulfo-alpha-L-idopyranuronic acid · sugar · chains A
- BDP · beta-D-glucopyranuronic acid · sugar · chains A
- SGN · 2-deoxy-6-O-sulfo-2-(sulfoamino)-alpha-D-glucopyranose · sugar · chains A
- SO4 · Sulfate ion · ion · 2 copies · chains M
Binding sites are the residues within 4.5 Å of a ligand's heavy atoms.
Compared structures
- 5WD7 · Structure of a bacterial polysialyltransferase in complex with fondaparinux · 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 G4RIN4
- Elsewhere: RCSB PDB 5WD7 · PDBe 5WD7 · UniProt G4RIN4
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