MolNFT v1 · #139812 · protein
Crystal structure of RABA1A in complex with GDP
5XR4 · RAS-related protein RABA1A: “Crystal structure of RABA1A in complex with GDP”. X-ray diffraction, 3 ligands (GDP, MG, SO4), 2 pockets (best druggability 0.58). MolNFT v1 #139812 on GenesisL1: 3D structure, binding sites and pockets…
- PDB
- 5XR4
- Type
- protein
- Length
- 326 residues
- Chains
- 2
- Method
- x-ray diffraction
- Collection
- MolNFT v1 / PDB
- Contract
- 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
- Owner
- 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
- Molecule
- RAS-related protein RABA1A
- UniProt
- P28185
- Ligands
- GDP, MG, SO4
- Pockets
- 2 · best druggability 0.58
Structure
x-ray diffraction · 2 distinct chains · 34% helix, 27% strand (DSSP).
| Chain | Molecule | Type | Residues | Secondary structure | UniProt |
|---|---|---|---|---|---|
| A | RAS-related protein RABA1A | protein | 155 | 36% helix, 29% strand | P28185 |
| B | RAS-related protein RABA1A | protein | 171 | 33% helix, 26% strand | P28185 |
Ligands and binding sites
- GDP · Guanosine-5'-diphosphate · ligand · 2 copies · chains A, B
- MG · Magnesium ion · metal · 2 copies · chains A, B
- SO4 · Sulfate ion · ion · 2 copies · chains A, B
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 | 273 | 0.58 | 0.78 | 51 | empty |
| 2 | 148 | 0.44 | 0.76 | 27 | MG, SO4 |
Interfaces
1 interface between chains.
- A–B · 703 Ų buried · 10 hydrogen bonds · protein-protein
Compared structures
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 P28185
- Elsewhere: RCSB PDB 5XR4 · PDBe 5XR4 · UniProt P28185
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