Research workbench
VPS1 GTPase-bse fusion complexed with GDP
Analyse VPS1 GTPase-bse fusion complexed with GDP in the GL1X research workbench: secondary structure, accessibility, pockets, interfaces, conservation, variants, modifications, peptides, crosslinks and neighbours on the 3D structure.
- PDB
- 6DI7
- Type
- protein
- Length
- 279 residues
- Chains
- 1
- Method
- x-ray diffraction
- Collection
- MolNFT v1 / PDB
- Contract
- 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
- Owner
- 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
- Molecule
- Putative sorting protein
- UniProt
- G0SFF0
- Ligands
- GDP, MG
- Pockets
- 4 · best druggability 0.57
Structure
x-ray diffraction · 1 distinct chain · 37% helix, 19% strand (DSSP).
| Chain | Molecule | Type | Residues | Secondary structure | UniProt |
|---|---|---|---|---|---|
| A | Putative sorting protein | protein | 279 | 37% helix, 19% strand | G0SFF0 |
Ligands and binding sites
Binding sites are the residues within 4.5 Å of a ligand's heavy atoms.
Pockets
4 pockets found on a 1 Å grid, 1 with a druggability of 0.5 or more.
| Volume (ų) | Druggability | Buriedness | Lining residues | Inside | |
|---|---|---|---|---|---|
| 1 | 197 | 0.57 | 0.80 | 27 | GDP, MG |
| 2 | 67 | 0.31 | 0.75 | 17 | empty |
| 3 | 54 | 0.30 | 0.76 | 15 | empty |
| 4 | 62 | 0.27 | 0.73 | 19 | empty |
Compared structures
- 6DI7 · Vps1 GTPase-BSE fusion complexed with GDP · the same entry in another collection · chain A against A, TM-score 1.00
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 G0SFF0
- Elsewhere: RCSB PDB 6DI7 · PDBe 6DI7 · UniProt G0SFF0
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