MolNFT v1 · #161597 · protein
Crystal structure of the third PDZ domain of psd-95 protein D332P mutant: space group C121, structure 1
6QJF · Disks large homolog 4: “Crystal structure of the third PDZ domain of psd-95 protein D332P mutant: space group C121, structure 1”. X-ray diffraction, 4 pockets (best druggability 0.64). MolNFT v1 #161597 on GenesisL1: 3D structure…
- PDB
- 6QJF
- Type
- protein
- Length
- 392 residues
- Chains
- 4
- Method
- x-ray diffraction
- Collection
- MolNFT v1 / PDB
- Contract
- 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
- Owner
- 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
- Molecule
- Disks large homolog 4
- UniProt
- P78352
- Pockets
- 4 · best druggability 0.64
Structure
x-ray diffraction · 4 distinct chains · 20% helix, 35% strand (DSSP).
| Chain | Molecule | Type | Residues | Secondary structure | UniProt |
|---|---|---|---|---|---|
| A | Disks large homolog 4 | protein | 96 | 22% helix, 34% strand | P78352 |
| B | Disks large homolog 4 | protein | 102 | 18% helix, 34% strand | P78352 |
| C | Disks large homolog 4 | protein | 98 | 20% helix, 34% strand | P78352 |
| D | Disks large homolog 4 | protein | 96 | 20% helix, 36% strand | P78352 |
Pockets
4 pockets found on a 1 Å grid, 2 with a druggability of 0.5 or more.
| Volume (ų) | Druggability | Buriedness | Lining residues | Inside | |
|---|---|---|---|---|---|
| 1 | 508 | 0.64 | 0.76 | 45 | empty |
| 2 | 248 | 0.56 | 0.78 | 34 | empty |
| 3 | 156 | 0.49 | 0.78 | 34 | empty |
| 4 | 118 | 0.42 | 0.77 | 20 | empty |
Interfaces
4 interfaces between chains.
- B–D · 534 Ų buried · 5 hydrogen bonds · protein-protein
- B–C · 456 Ų buried · 5 hydrogen bonds · protein-protein
- A–D · 311 Ų buried · 6 hydrogen bonds · protein-protein
- A–B · 260 Ų buried · 2 hydrogen bonds · protein-protein
Compared structures
- 6QJF · Crystal Structure of the third PDZ domain of PSD-95 protein D332P mutant: space group… · the same entry in another collection · chain D against D, TM-score 1.00
- P78352 · AlphaFold monomer V2.0 prediction for disks large homolog 4 (P78352) · a predicted model of the same protein · chain D against A, TM-score 0.94
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 P78352
- Elsewhere: RCSB PDB 6QJF · PDBe 6QJF · UniProt P78352
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