Research workbench
N-terminal domain of human conserved dopamine neurotrophic factor (cdnf)
Analyse N-terminal domain of human conserved dopamine neurotrophic factor (cdnf) in the GL1X research workbench: secondary structure, accessibility, pockets, interfaces, conservation, variants, modifications, peptides, crosslinks and neighbours on the 3D structure.
- PDB
- 2W50
- Type
- protein
- Length
- 194 residues
- Chains
- 2
- Method
- x-ray diffraction
- Collection
- MolNFT v1 / PDB
- Contract
- 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
- Owner
- 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
- Molecule
- Armet-like protein 1
- UniProt
- Q49AH0
- Ligands
- PO4
- Pockets
- 2 · best druggability 0.53
Structure
x-ray diffraction · 1 distinct chain · 63% helix, 0% strand (DSSP).
| Chain | Molecule | Type | Residues | Secondary structure | UniProt |
|---|---|---|---|---|---|
| A, B | Armet-like protein 1 | protein | 97 | 63% helix, 0% strand | Q49AH0 |
Ligands and binding sites
- PO4 · Phosphate ion · ion · 4 copies · chains A, B
Binding sites are the residues within 4.5 Å of a ligand's heavy atoms.
Pockets
2 pockets found on a 1 Å grid, 1 with a druggability of 0.5 or more.
| Volume (ų) | Druggability | Buriedness | Lining residues | Inside | |
|---|---|---|---|---|---|
| 1 | 242 | 0.53 | 0.76 | 38 | empty |
| 2 | 75 | 0.34 | 0.75 | 18 | empty |
Interfaces
1 interface between chains.
- A–B · 429 Ų buried · 6 hydrogen bonds · protein-protein
Modifications
Observed in the structure: 6 disulfide (disulfide).
Compared structures
- 2W50 · N-terminal domain of human conserved dopamine neurotrophic factor (CDNF) · the same entry in another collection · chain A against A, TM-score 1.00
- Q49AH0 · AlphaFold monomer V2.0 prediction for cerebral dopamine neurotrophic factor (Q49AH0) · a predicted model of the same protein · chain A 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 Q49AH0
- Elsewhere: RCSB PDB 2W50 · PDBe 2W50 · UniProt Q49AH0
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