Research workbench
Crystal structure of the third PDZ domain of psd-95 protein D332P mutant: space group C121, structure 2
Analyse Crystal structure of the third PDZ domain of psd-95 protein D332P mutant: space… in the GL1X research workbench: secondary structure, accessibility, pockets, interfaces, conservation, variants, modifications, peptides, crosslinks and neighbours on the 3D structure.
- PDB
- 6QJG
- Type
- protein
- Length
- 388 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 0.69
Structure
x-ray diffraction · 4 distinct chains · 20% helix, 37% strand (DSSP).
| Chain | Molecule | Type | Residues | Secondary structure | UniProt |
|---|---|---|---|---|---|
| A | Disks large homolog 4 | protein | 97 | 19% helix, 36% strand | P78352 |
| B | Disks large homolog 4 | protein | 96 | 19% helix, 36% strand | P78352 |
| C | Disks large homolog 4 | protein | 98 | 21% helix, 38% strand | P78352 |
| D | Disks large homolog 4 | protein | 97 | 21% 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 | 636 | 0.69 | 0.77 | 46 | empty |
| 2 | 457 | 0.61 | 0.75 | 35 | empty |
| 3 | 172 | 0.49 | 0.77 | 28 | empty |
| 4 | 98 | 0.39 | 0.76 | 19 | empty |
Interfaces
4 interfaces between chains.
- B–D · 640 Ų buried · 7 hydrogen bonds · protein-protein
- A–C · 548 Ų buried · 4 hydrogen bonds · protein-protein
- A–B · 317 Ų buried · 8 hydrogen bonds · protein-protein
- A–D · 278 Ų buried · 3 hydrogen bonds · protein-protein
Compared structures
- 6QJG · 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 0.96
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 6QJG · PDBe 6QJG · UniProt P78352
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