MolNFT v1 · #143153 · protein
Crystal structure of PICK1 in complex with the small molecule inhibitor 1O
6AR4 · Prkca-binding protein: “Crystal structure of PICK1 in complex with the small molecule inhibitor 1O”. X-ray diffraction, 1 ligand (BQA), 3 pockets (best druggability 0.39). MolNFT v1 #143153 on GenesisL1: 3D structure, binding sites…
- PDB
- 6AR4
- Type
- protein
- Length
- 173 residues
- Chains
- 2
- Method
- x-ray diffraction
- Collection
- MolNFT v1 / PDB
- Contract
- 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
- Owner
- 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
- Molecule
- Prkca-binding protein
- UniProt
- Q9NRD5
- Ligands
- BQA
- Pockets
- 3 · best druggability 0.39
Structure
x-ray diffraction · 2 distinct chains · 17% helix, 41% strand (DSSP).
| Chain | Molecule | Type | Residues | Secondary structure | UniProt |
|---|---|---|---|---|---|
| A | Prkca-binding protein | protein | 86 | 16% helix, 43% strand | Q9NRD5 |
| B | Prkca-binding protein | protein | 87 | 17% helix, 39% strand | Q9NRD5 |
Ligands and binding sites
- BQA · N-[4-(4-bromophenyl)-1-{[2-(trifluoromethyl) phenyl]methyl}piperidine-4-carbonyl]-3-cyclopropyl-L-alanine · 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 | 62 | 0.39 | 0.80 | 12 | empty |
| 2 | 78 | 0.39 | 0.78 | 16 | empty |
| 3 | 70 | 0.38 | 0.78 | 15 | BQA |
Interfaces
1 interface between chains.
- A–B · 455 Ų buried · 0 hydrogen bonds · protein-protein
Modifications
Observed in the structure: 2 disulfide (disulfide).
Compared structures
- 6AR4 · Crystal structure of PICK1 in complex with the small molecule inhibitor 1o · the same entry in another collection · chain A against A, TM-score 1.00
- Q9NRD5 · AlphaFold monomer V2.0 prediction for prkca-binding protein (Q9NRD5) · a predicted model of the same protein · chain A against A, TM-score 0.97
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 Q9NRD5
- Elsewhere: RCSB PDB 6AR4 · PDBe 6AR4 · UniProt Q9NRD5
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