MolNFT v1 · #151805 · protein
Structure of PCM1 lir motif bound to gabarap
6HYM · Pericentriolar material 1 PROTEIN,GAMMA-aminobutyric acid…: “Structure of PCM1 lir motif bound to gabarap”. X-ray diffraction, 2 pockets (best druggability 0.60). MolNFT v1 #151805 on GenesisL1: 3D structure, binding sites and…
- PDB
- 6HYM
- Type
- protein
- Length
- 264 residues
- Chains
- 2
- Method
- x-ray diffraction
- Collection
- MolNFT v1 / PDB
- Contract
- 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
- Owner
- 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
- Molecule
- Pericentriolar material 1 PROTEIN,GAMMA-aminobutyric acid receptor-associated protein
- UniProt
- Q15154, O95166
- Pockets
- 2 · best druggability 0.60
Structure
x-ray diffraction · 2 distinct chains · 31% helix, 20% strand (DSSP).
| Chain | Molecule | Type | Residues | Secondary structure | UniProt |
|---|---|---|---|---|---|
| A | Pericentriolar material 1 PROTEIN,GAMMA-aminobutyric acid receptor-associated protein | protein | 131 | 32% helix, 20% strand | Q15154, O95166 |
| B | Pericentriolar material 1 PROTEIN,GAMMA-aminobutyric acid receptor-associated protein | protein | 133 | 30% helix, 20% strand | Q15154, O95166 |
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 | 332 | 0.60 | 0.78 | 49 | empty |
| 2 | 69 | 0.39 | 0.79 | 19 | empty |
Interfaces
1 interface between chains.
- A–B · 409 Ų buried · 1 hydrogen bond · protein-protein
Compared structures
- 6HYM · Structure of PCM1 LIR motif bound to GABARAP · the same entry in another collection · chain A against A, TM-score 1.00
- O95166 · AlphaFold monomer V2.0 prediction for gamma-aminobutyric acid receptor-associated protein… · a predicted model of the same protein · chain A against A, TM-score 0.86
- Q15154 · AlphaFold monomer V2.0 prediction for pericentriolar material 1 protein (Q15154) · a predicted model of the same protein · chain B against A, TM-score 0.36
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 Q15154
- Every structure of UniProt O95166
- Elsewhere: RCSB PDB 6HYM · PDBe 6HYM · UniProt Q15154 · UniProt O95166
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