MolNFT v1 · #103183 · protein
The crystal structures of ykl-39 in the presence of chitooligosaccharides (GLCNAC2) were solved to resolutions of 1.5 ångström
4P8V · Chitinase-3-like protein 2: “The crystal structures of ykl-39 in the presence of chitooligosaccharides (GLCNAC2) were solved to…”. X-ray diffraction, 2 ligands (NAG, SO4), 2 pockets (best druggability 0.65). MolNFT v1 #103183 on…
- PDB
- 4P8V
- Type
- protein
- Length
- 365 residues
- Chains
- 1
- Method
- x-ray diffraction
- Collection
- MolNFT v1 / PDB
- Contract
- 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
- Owner
- 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
- Molecule
- Chitinase-3-like protein 2
- UniProt
- Q15782
- Ligands
- NAG, SO4
- Pockets
- 2 · best druggability 0.65
Structure
x-ray diffraction · 1 distinct chain · 36% helix, 24% strand (DSSP).
| Chain | Molecule | Type | Residues | Secondary structure | UniProt |
|---|---|---|---|---|---|
| A | Chitinase-3-like protein 2 | protein | 365 | 36% helix, 24% strand | Q15782 |
Ligands and binding sites
- NAG · 2-acetamido-2-deoxy-beta-D-glucopyranose · sugar · 2 copies · chains A
- SO4 · Sulfate ion · ion · 3 copies · chains A
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 | 474 | 0.65 | 0.77 | 46 | NAG |
| 2 | 100 | 0.40 | 0.77 | 21 | empty |
Modifications
Observed in the structure: 2 disulfide (disulfide).
Compared structures
- 4P8V · The crystal structures of YKL-39 in the presence of chitooligosaccharides (GlcNAc2) were… · the same entry in another collection · chain A against A, TM-score 1.00
- Q15782 · AlphaFold monomer V2.0 prediction for chitinase-3-like protein 2 (Q15782) · a predicted model of the same protein · 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 Q15782
- Elsewhere: RCSB PDB 4P8V · PDBe 4P8V · UniProt Q15782
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