Research workbench
Crystal structure of domain-swapped C-terminal domain of human doublecortin
Analyse Crystal structure of domain-swapped C-terminal domain of human doublecortin in the GL1X research workbench: secondary structure, accessibility, pockets, interfaces, conservation, variants, modifications, peptides, crosslinks and neighbours on the 3D structure.
- PDB
- 6FNZ
- Type
- protein
- Length
- 333 residues
- Chains
- 7
- Method
- x-ray diffraction
- Collection
- MolNFT v1 / PDB
- Contract
- 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
- Owner
- 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
- Molecule
- Neuronal migration protein doublecortin; Possible peptide
- UniProt
- O43602
- Pockets
- 4 · best druggability 0.68
Structure
x-ray diffraction · 5 distinct chains · 23% helix, 29% strand (DSSP).
| Chain | Molecule | Type | Residues | Secondary structure | UniProt |
|---|---|---|---|---|---|
| A | Neuronal migration protein doublecortin | protein | 78 | 23% helix, 29% strand | O43602 |
| B | Neuronal migration protein doublecortin | protein | 81 | 23% helix, 28% strand | O43602 |
| C | Neuronal migration protein doublecortin | protein | 77 | 25% helix, 31% strand | O43602 |
| D | Neuronal migration protein doublecortin | protein | 79 | 24% helix, 30% strand | O43602 |
| E, F, G | Possible peptide | protein | 6 | 0% helix, 0% strand | — |
Pockets
4 pockets found on a 1 Å grid, 3 with a druggability of 0.5 or more.
| Volume (ų) | Druggability | Buriedness | Lining residues | Inside | |
|---|---|---|---|---|---|
| 1 | 332 | 0.68 | 0.82 | 45 | empty |
| 2 | 183 | 0.57 | 0.80 | 25 | empty |
| 3 | 163 | 0.56 | 0.81 | 24 | empty |
| 4 | 168 | 0.47 | 0.76 | 25 | empty |
Interfaces
11 interfaces between chains.
- B–D · 2113 Ų buried · 23 hydrogen bonds · protein-protein
- A–C · 1967 Ų buried · 21 hydrogen bonds · protein-protein
- B–C · 227 Ų buried · 3 hydrogen bonds · protein-protein
- B–G · 171 Ų buried · 1 hydrogen bond · protein-protein
- D–E · 161 Ų buried · 0 hydrogen bonds · protein-protein
Compared structures
- 6FNZ · Crystal Structure of domain-swapped C-terminal domain of human doublecortin · the same entry in another collection · chain G against G, TM-score 1.00
- O43602 · AlphaFold monomer V2.0 prediction for neuronal migration protein doublecortin (O43602) · a predicted model of the same protein · chain A against A, TM-score 0.50
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 O43602
- Elsewhere: RCSB PDB 6FNZ · PDBe 6FNZ · UniProt O43602
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