MolNFT v1 · #130633 · protein
Pandda analysis group deposition -- crystal structure of JMJD2D after initial refinement with no ligand modelled (structure 32)
5PIJ: “Pandda analysis group deposition -- crystal structure of JMJD2D after initial refinement with no ligand…”. X-ray diffraction, 5 ligands (OGA, ZN, NI). MolNFT v1 #130633 on GenesisL1: 3D structure, binding sites and pockets in GL1X.
- PDB
- 5PIJ
- Type
- protein
- Length
- 331 residues
- Chains
- 1
- Method
- x-ray diffraction
- Collection
- MolNFT v1 / PDB
- Contract
- 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
- Owner
- 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
- UniProt
- Q6B0I6
- Ligands
- OGA, ZN, NI, MG, SO4
Structure
x-ray diffraction · 1 distinct chain.
| Chain | Molecule | Type | Residues | Secondary structure | UniProt |
|---|---|---|---|---|---|
| A | — | protein | 331 | — | Q6B0I6 |
Ligands and binding sites
- OGA · N-oxalylglycine · ligand · chains A
- ZN · Zinc ion · metal · chains A
- NI · Nickel (II) ion · metal · chains A
- MG · Magnesium ion · metal · chains A
- SO4 · Sulfate ion · ion · 3 copies · chains A
- EDO · 1,2-ethanediol · additive · 8 copies · chains A
Binding sites are the residues within 4.5 Å of a ligand's heavy atoms.
Compared structures
- 5PIJ · PanDDA analysis group deposition -- Crystal Structure of JMJD2D after initial refinement… · 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 Q6B0I6
- Elsewhere: RCSB PDB 5PIJ · PDBe 5PIJ · UniProt Q6B0I6
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