Research workbench
Structure of human ADP-ribosylation factor-like 5
Analyse Structure of human ADP-ribosylation factor-like 5 in the GL1X research workbench: secondary structure, accessibility, pockets, interfaces, conservation, variants, modifications, peptides, crosslinks and neighbours on the 3D structure.
- PDB
- 1Z6Y
- Type
- protein
- Length
- 338 residues
- Chains
- 2
- Method
- x-ray diffraction
- Collection
- MolNFT v1 / PDB
- Contract
- 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
- Owner
- 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
- Molecule
- ADP-ribosylation factor-like protein 5
- UniProt
- Q9Y689
- Ligands
- GDP
- Pockets
- 3 · best druggability 0.46
Structure
x-ray diffraction · 1 distinct chain · 31% helix, 28% strand (DSSP).
| Chain | Molecule | Type | Residues | Secondary structure | UniProt |
|---|---|---|---|---|---|
| A, B | ADP-ribosylation factor-like protein 5 | protein | 169 | 31% helix, 28% strand | Q9Y689 |
Ligands and binding sites
- GDP · Guanosine-5'-diphosphate · ligand · 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, 0 with a druggability of 0.5 or more.
| Volume (ų) | Druggability | Buriedness | Lining residues | Inside | |
|---|---|---|---|---|---|
| 1 | 200 | 0.46 | 0.75 | 32 | empty |
| 2 | 94 | 0.42 | 0.78 | 17 | empty |
| 3 | 69 | 0.37 | 0.78 | 15 | empty |
Interfaces
1 interface between chains.
- A–B · 470 Ų buried · 4 hydrogen bonds · protein-protein
Compared structures
- 1Z6Y · Structure Of Human ADP-Ribosylation Factor-Like 5 · the same entry in another collection · chain A against A, TM-score 1.00
- Q9Y689 · AlphaFold monomer V2.0 prediction for ADP-ribosylation factor-like protein 5A (Q9Y689) · a predicted model of the same protein · chain B against A, TM-score 0.81
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 Q9Y689
- Elsewhere: RCSB PDB 1Z6Y · PDBe 1Z6Y · UniProt Q9Y689
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