MolNFT v1 · #40858 · protein
Structure of the small G protein ARF6 in complex with gtpgammas
2J5X · ADP-ribosylation factor 6: “Structure of the small G protein ARF6 in complex with gtpgammas”. X-ray diffraction, 2 ligands (GSP, MG), 3 pockets (best druggability 0.73). MolNFT v1 #40858 on GenesisL1: 3D structure, binding sites and…
- PDB
- 2J5X
- Type
- protein
- Length
- 328 residues
- Chains
- 2
- Method
- x-ray diffraction
- Collection
- MolNFT v1 / PDB
- Contract
- 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
- Owner
- 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
- Molecule
- ADP-ribosylation factor 6
- UniProt
- P62330
- Ligands
- GSP, MG
- Pockets
- 3 · best druggability 0.73
Structure
x-ray diffraction · 1 distinct chain · 34% helix, 27% strand (DSSP).
| Chain | Molecule | Type | Residues | Secondary structure | UniProt |
|---|---|---|---|---|---|
| A, B | ADP-ribosylation factor 6 | protein | 164 | 34% helix, 27% strand | P62330 |
Ligands and binding sites
- GSP · 5'-guanosine-diphosphate-monothiophosphate · ligand · 2 copies · chains A, B
- MG · Magnesium ion · metal · 2 copies · chains A, B
Binding sites are the residues within 4.5 Å of a ligand's heavy atoms.
Pockets
3 pockets found on a 1 Å grid, 1 with a druggability of 0.5 or more.
| Volume (ų) | Druggability | Buriedness | Lining residues | Inside | |
|---|---|---|---|---|---|
| 1 | 406 | 0.73 | 0.83 | 49 | GSP, MG |
| 2 | 160 | 0.43 | 0.75 | 20 | empty |
| 3 | 95 | 0.41 | 0.78 | 24 | GSP, MG |
Interfaces
1 interface between chains.
- A–B · 541 Ų buried · 1 hydrogen bond · protein-protein
Compared structures
- 2J5X · Structure of the small G protein ARF6 in complex with gtpgammas · the same entry in another collection · chain A against A, TM-score 1.00
- P62330 · AlphaFold monomer V2.0 prediction for ADP-ribosylation factor 6 (P62330) · a predicted model of the same protein · chain A against A, TM-score 0.99
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 P62330
- Elsewhere: RCSB PDB 2J5X · PDBe 2J5X · UniProt P62330
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