Research workbench
Crystal structure of RAB11 in complex with RAB11-family interacting protein 2
Analyse Crystal structure of RAB11 in complex with RAB11-family interacting protein 2 in the GL1X research workbench: secondary structure, accessibility, pockets, interfaces, conservation, variants, modifications, peptides, crosslinks and neighbours on the 3D structure.
- PDB
- 2GZH
- Type
- protein
- Length
- 225 residues
- Chains
- 2
- Method
- x-ray diffraction
- Collection
- MolNFT v1 / PDB
- Contract
- 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
- Owner
- 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
- Molecule
- RAS-related protein rab-11A; RAB11-FIP2 long isoform
- EC
- 3.6.5.2
- UniProt
- P62491, Q7L804
- Ligands
- GTP, MG, PO4
- Pockets
- 2 · best druggability 0.50
Structure
x-ray diffraction · 2 distinct chains · 43% helix, 21% strand (DSSP).
| Chain | Molecule | Type | Residues | Secondary structure | UniProt |
|---|---|---|---|---|---|
| A | RAS-related protein rab-11A (EC 3.6.5.2) | protein | 168 | 32% helix, 27% strand | P62491 |
| B | RAB11-FIP2 long isoform | protein | 57 | 75% helix, 2% strand | Q7L804 |
Ligands and binding sites
- GTP · Guanosine-5'-triphosphate · ligand · chains A
- MG · Magnesium ion · metal · 2 copies · chains A
- PO4 · Phosphate ion · ion · chains A
Binding sites are the residues within 4.5 Å of a ligand's heavy atoms.
Pockets
2 pockets found on a 1 Å grid, 0 with a druggability of 0.5 or more.
| Volume (ų) | Druggability | Buriedness | Lining residues | Inside | |
|---|---|---|---|---|---|
| 1 | 124 | 0.50 | 0.80 | 25 | MG, GTP |
| 2 | 78 | 0.39 | 0.78 | 12 | empty |
Interfaces
1 interface between chains.
- A–B · 603 Ų buried · 6 hydrogen bonds · protein-protein
Modifications
Observed in the structure: 2 modified (engineered).
Compared structures
- 2GZH · Crystal Structure of Rab11 in Complex with Rab11-Family Interacting Protein 2 · the same entry in another collection · chain A against A, TM-score 1.00
- P62491 · AlphaFold monomer V2.0 prediction for RAS-related protein rab-11A (P62491) · a predicted model of the same protein · chain A against A, TM-score 0.96
- Q7L804 · AlphaFold monomer V2.0 prediction for RAB11 family-interacting protein 2 (Q7L804) · a predicted model of the same protein · chain B against A, TM-score 0.86
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 P62491
- Every structure of UniProt Q7L804
- Elsewhere: RCSB PDB 2GZH · PDBe 2GZH · UniProt P62491 · UniProt Q7L804
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