Research workbench
Crystal structure of a 40 kda protective signalling protein from bovine (spc-40) at 2.1 a resolution
Analyse Crystal structure of a 40 kda protective signalling protein from bovine… in the GL1X research workbench: secondary structure, accessibility, pockets, interfaces, conservation, variants, modifications, peptides, crosslinks and neighbours on the 3D structure.
- PDB
- 2ESC
- Type
- protein
- Length
- 361 residues
- Chains
- 1
- Method
- x-ray diffraction
- Collection
- MolNFT v1 / PDB
- Contract
- 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
- Owner
- 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
- Molecule
- Chitinase-3-like protein 1
- UniProt
- P30922
- Ligands
- MAN, NAG
- Pockets
- 3 · best druggability 0.58
Structure
x-ray diffraction · 1 distinct chain · 36% helix, 24% strand (DSSP).
| Chain | Molecule | Type | Residues | Secondary structure | UniProt |
|---|---|---|---|---|---|
| A | Chitinase-3-like protein 1 | protein | 361 | 36% helix, 24% strand | P30922 |
Ligands and binding sites
- MAN · alpha-D-mannopyranose · sugar · 4 copies
- NAG · 2-acetamido-2-deoxy-beta-D-glucopyranose · sugar · 2 copies · chains A
Binding sites are the residues within 4.5 Å of a ligand's heavy atoms.
Pockets
3 pockets found on a 1 Å grid, 1 with a druggability of 0.5 or more.
| Volume (ų) | Druggability | Buriedness | Lining residues | Inside | |
|---|---|---|---|---|---|
| 1 | 292 | 0.58 | 0.77 | 46 | empty |
| 2 | 93 | 0.43 | 0.79 | 21 | empty |
| 3 | 62 | 0.32 | 0.75 | 15 | empty |
Modifications
Observed in the structure: 2 disulfide, 1 glycan (disulfide, N-glycosylation).
Compared structures
- 2ESC · Crystal structure of a 40 KDa protective signalling protein from Bovine (SPC-40) at 2.1 A… · the same entry in another collection · chain A against A, TM-score 1.00
- P30922 · AlphaFold monomer V2.0 prediction for chitinase-3-like protein 1 (P30922) · a predicted model of the same protein · chain A against A, TM-score 0.99
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 P30922
- Elsewhere: RCSB PDB 2ESC · PDBe 2ESC · UniProt P30922
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