Research workbench
Structure of the DMPAR3 PDZ1 domain in complex with the DMPAR6 pbm
Analyse Structure of the DMPAR3 PDZ1 domain in complex with the DMPAR6 pbm in the GL1X research workbench: secondary structure, accessibility, pockets, interfaces, conservation, variants, modifications, peptides, crosslinks and neighbours on the 3D structure.
- PDB
- 5OAK
- Type
- protein
- Length
- 202 residues
- Chains
- 4
- Method
- x-ray diffraction
- Collection
- MolNFT v1 / PDB
- Contract
- 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
- Owner
- 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
- Molecule
- Bazooka, isoform C,LD29223P
- UniProt
- X2JFU8, O97111
- Pockets
- 2 · best druggability 0.42
Structure
x-ray diffraction · 2 distinct chains · 15% helix, 36% strand (DSSP).
| Chain | Molecule | Type | Residues | Secondary structure | UniProt |
|---|---|---|---|---|---|
| A, C | Bazooka, isoform C,LD29223P | protein | 90 | 17% helix, 34% strand | X2JFU8, O97111 |
| B, D | Bazooka, isoform C,LD29223P | protein | 11 | 0% helix, 45% strand | X2JFU8, O97111 |
Ligands and binding sites
- GOL · Glycerol · additive · chains A, C
Binding sites are the residues within 4.5 Å of a ligand's heavy atoms.
Pockets
2 pockets found on a 1 Å grid, 0 with a druggability of 0.5 or more.
| Volume (ų) | Druggability | Buriedness | Lining residues | Inside | |
|---|---|---|---|---|---|
| 1 | 78 | 0.42 | 0.80 | 17 | empty |
| 2 | 81 | 0.39 | 0.77 | 27 | empty |
Interfaces
4 interfaces between chains.
- C–D · 471 Ų buried · 11 hydrogen bonds · protein-protein
- A–B · 466 Ų buried · 11 hydrogen bonds · protein-protein
- A–C · 317 Ų buried · 2 hydrogen bonds · protein-protein
- B–C · 201 Ų buried · 1 hydrogen bond · protein-protein
Compared structures
- 5OAK · Structure of the dmPar3 PDZ1 domain in complex with the dmPar6 PBM · the same entry in another collection · chain A against A, TM-score 1.00
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 X2JFU8
- Every structure of UniProt O97111
- Elsewhere: RCSB PDB 5OAK · PDBe 5OAK · UniProt X2JFU8 · UniProt O97111
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