Research workbench
EEA1 homodimer of C-terminal fyve domain bound to inositol 1,3-diphosphate
Analyse EEA1 homodimer of C-terminal fyve domain bound to inositol 1,3-diphosphate in the GL1X research workbench: secondary structure, accessibility, pockets, interfaces, conservation, variants, modifications, peptides, crosslinks and neighbours on the 3D structure.
- PDB
- 1JOC
- Type
- protein
- Length
- 246 residues
- Chains
- 2
- Method
- x-ray diffraction
- Collection
- MolNFT v1 / PDB
- Contract
- 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
- Owner
- 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
- Molecule
- Early endosomal autoantigen 1
- UniProt
- Q15075
- Ligands
- ITP, ZN
- Pockets
- 1 · best druggability 0.69
Structure
x-ray diffraction · 1 distinct chain · 56% helix, 10% strand (DSSP).
| Chain | Molecule | Type | Residues | Secondary structure | UniProt |
|---|---|---|---|---|---|
| A, B | Early endosomal autoantigen 1 | protein | 123 | 56% helix, 10% strand | Q15075 |
Ligands and binding sites
- ITP · Phosphoric acid mono-(2,3,4,6-tetrahydroxy-5-phosphonooxy-cyclohexyl) ester · ligand · 2 copies · chains A, B
- ZN · Zinc ion · metal · 4 copies · chains A, B
Binding sites are the residues within 4.5 Å of a ligand's heavy atoms.
Pockets
1 pocket found on a 1 Å grid, 1 with a druggability of 0.5 or more.
| Volume (ų) | Druggability | Buriedness | Lining residues | Inside | |
|---|---|---|---|---|---|
| 1 | 277 | 0.69 | 0.84 | 30 | empty |
Interfaces
1 interface between chains.
- A–B · 2149 Ų buried · 11 hydrogen bonds · protein-protein
Compared structures
- 1JOC · EEA1 homodimer of C-terminal FYVE domain bound to inositol 1,3-diphosphate · the same entry in another collection · chain A against A, TM-score 1.00
- Q15075 · AlphaFold monomer V2.0 prediction for early endosome antigen 1 (Q15075) · a predicted model of the same protein · chain B against A, TM-score 0.69
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 Q15075
- Elsewhere: RCSB PDB 1JOC · PDBe 1JOC · UniProt Q15075
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