MolNFT v1 · #34588 · protein
Crystal structure of class I chitinase from oryza sativa L. japonica
2DKV: “Crystal structure of class I chitinase from oryza sativa L. japonica”. X-ray diffraction, 1 pocket (best druggability 0.50). MolNFT v1 #34588 on GenesisL1: 3D structure, binding sites and pockets in GL1X.
- PDB
- 2DKV
- Type
- protein
- Length
- 286 residues
- Chains
- 1
- Method
- x-ray diffraction
- Collection
- MolNFT v1 / PDB
- Contract
- 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
- Owner
- 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
- Molecule
- Chitinase
- EC
- 3.2.1.14
- Pockets
- 1 · best druggability 0.50
Structure
x-ray diffraction · 1 distinct chain · 40% helix, 4% strand (DSSP).
| Chain | Molecule | Type | Residues | Secondary structure | UniProt |
|---|---|---|---|---|---|
| A | Chitinase (EC 3.2.1.14) | protein | 286 | 40% helix, 4% strand | — |
Ligands and binding sites
- MES · 2-(N-morpholino)-ethanesulfonic acid · additive · 2 copies · chains A
- MPD · (4S)-2-methyl-2,4-pentanediol · additive · 2 copies · 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 | 232 | 0.50 | 0.75 | 36 | MES |
Modifications
Observed in the structure: 8 disulfide (disulfide).
Compared structures
- 2DKV · Crystal structure of class I chitinase from Oryza sativa L. japonica · the same entry in another collection · 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
- Elsewhere: RCSB PDB 2DKV · PDBe 2DKV
GL1X is a live explorer of the GenesisL1 blockchain. Turn on JavaScript for search, charts and interactive views.