MolNFT v1 · #91933 · protein
Crystal structure of mutant F136D of mouse nectin-2 extracellular fragment D1-D2
4FS0 · Poliovirus receptor-related protein 2: “Crystal structure of mutant F136D of mouse nectin-2 extracellular fragment D1-D2”. X-ray diffraction, 3 ligands (NAG, FUC, SO4), 1 pocket (best druggability 0.49). MolNFT v1 #91933 on…
- PDB
- 4FS0
- Type
- protein
- Length
- 218 residues
- Chains
- 1
- Method
- x-ray diffraction
- Collection
- MolNFT v1 / PDB
- Contract
- 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
- Owner
- 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
- Molecule
- Poliovirus receptor-related protein 2
- UniProt
- P32507
- Ligands
- NAG, FUC, SO4
- Pockets
- 1 · best druggability 0.49
Structure
x-ray diffraction · 1 distinct chain · 3% helix, 51% strand (DSSP).
| Chain | Molecule | Type | Residues | Secondary structure | UniProt |
|---|---|---|---|---|---|
| A | Poliovirus receptor-related protein 2 | protein | 218 | 3% helix, 51% strand | P32507 |
Ligands and binding sites
- NAG · 2-acetamido-2-deoxy-beta-D-glucopyranose · sugar · 2 copies · chains A
- FUC · alpha-L-fucopyranose · sugar · chains A
- SO4 · Sulfate ion · ion · chains A
Binding sites are the residues within 4.5 Å of a ligand's heavy atoms.
Pockets
1 pocket found on a 1 Å grid, 0 with a druggability of 0.5 or more.
| Volume (ų) | Druggability | Buriedness | Lining residues | Inside | |
|---|---|---|---|---|---|
| 1 | 58 | 0.49 | 0.85 | 14 | empty |
Modifications
Observed in the structure: 2 disulfide, 1 glycan (disulfide, N-glycosylation).
Compared structures
- 4FS0 · Crystal structure of mutant F136D of mouse nectin-2 extracellular fragment D1-D2 · the same entry in another collection · chain A against A, TM-score 1.00
- P32507 · AlphaFold monomer V2.0 prediction for nectin-2 (P32507) · a predicted model of the same protein · chain A against A, TM-score 0.91
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 P32507
- Elsewhere: RCSB PDB 4FS0 · PDBe 4FS0 · UniProt P32507
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