MolNFT v1 · #128129 · protein
Crystal structure of xylose isomerase from piromyces E2 in complex with 2 NI2+ ions and xylose
5NHD: “Crystal structure of xylose isomerase from piromyces E2 in complex with 2 NI2+ ions and xylose”. X-ray diffraction, 5 ligands (XLS, XYP, XYS). MolNFT v1 #128129 on GenesisL1: 3D structure, binding sites and pockets in GL1X.
- PDB
- 5NHD
- Type
- protein
- Length
- 1,743 residues
- Chains
- 4
- Method
- x-ray diffraction
- Collection
- MolNFT v1 / PDB
- Contract
- 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
- Owner
- 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
- UniProt
- Q9P8C9
- Ligands
- XLS, XYP, XYS, NI, SO4
Structure
x-ray diffraction · 2 distinct chains.
| Chain | Molecule | Type | Residues | Secondary structure | UniProt |
|---|---|---|---|---|---|
| A, B, D | — | protein | 436 | — | Q9P8C9 |
| C | — | protein | 435 | — | Q9P8C9 |
Ligands and binding sites
- XLS · D-xylose · ligand · 4 copies · chains A, C, B, D
- XYP · beta-D-xylopyranose · sugar · 10 copies · chains A, C, D, B
- XYS · alpha-D-xylopyranose · sugar · 5 copies · chains A, B, C, D
- NI · Nickel (II) ion · metal · 8 copies · chains A, B, C, D
- SO4 · Sulfate ion · ion · 5 copies · chains A, B, C, D
Binding sites are the residues within 4.5 Å of a ligand's heavy atoms.
Compared structures
- 5NHD · Crystal structure of xylose isomerase from Piromyces E2 in complex with 2 Ni2+ ions and… · 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 Q9P8C9
- Elsewhere: RCSB PDB 5NHD · PDBe 5NHD · UniProt Q9P8C9
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