Research workbench
Crystal structure of the RAB9A-RUTBC2 rbd complex
Analyse Crystal structure of the RAB9A-RUTBC2 rbd complex in the GL1X research workbench: secondary structure, accessibility, pockets, interfaces, conservation, variants, modifications, peptides, crosslinks and neighbours on the 3D structure.
- PDB
- 4QXA
- Type
- protein
- Length
- 319 residues
- Chains
- 2
- Method
- x-ray diffraction
- Collection
- MolNFT v1 / PDB
- Contract
- 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
- Owner
- 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
- Molecule
- RAS-related protein rab-9A; Small G protein signaling modulator 1
- UniProt
- Q9R0M6, Q8BPQ7
- Ligands
- GTP, MG
- Pockets
- 2 · best druggability 0.68
Structure
x-ray diffraction · 2 distinct chains · 28% helix, 31% strand (DSSP).
| Chain | Molecule | Type | Residues | Secondary structure | UniProt |
|---|---|---|---|---|---|
| A | RAS-related protein rab-9A | protein | 172 | 35% helix, 24% strand | Q9R0M6 |
| B | Small G protein signaling modulator 1 | protein | 147 | 20% helix, 39% strand | Q8BPQ7 |
Ligands and binding sites
Binding sites are the residues within 4.5 Å of a ligand's heavy atoms.
Pockets
2 pockets found on a 1 Å grid, 1 with a druggability of 0.5 or more.
| Volume (ų) | Druggability | Buriedness | Lining residues | Inside | |
|---|---|---|---|---|---|
| 1 | 453 | 0.68 | 0.79 | 56 | GTP, MG |
| 2 | 70 | 0.37 | 0.77 | 18 | empty |
Interfaces
1 interface between chains.
- A–B · 558 Ų buried · 9 hydrogen bonds · protein-protein
Compared structures
- 4QXA · Crystal structure of the Rab9A-RUTBC2 RBD complex · the same entry in another collection · chain A against A, TM-score 1.00
- Q9R0M6 · AlphaFold monomer V2.0 prediction for RAS-related protein rab-9A (Q9R0M6) · a predicted model of the same protein · chain A against A, TM-score 0.99
- Q8BPQ7 · AlphaFold monomer V2.0 prediction for small G protein signaling modulator 1 (Q8BPQ7) · a predicted model of the same protein · chain B against A, TM-score 0.92
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 Q9R0M6
- Every structure of UniProt Q8BPQ7
- Elsewhere: RCSB PDB 4QXA · PDBe 4QXA · UniProt Q9R0M6 · UniProt Q8BPQ7
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