Research workbench
Crystal structure of the catalytic domain of a family GH19 chitinase from gazyumaru, ficus microcarpa
Analyse Crystal structure of the catalytic domain of a family GH19 chitinase from… in the GL1X research workbench: secondary structure, accessibility, pockets, interfaces, conservation, variants, modifications, peptides, crosslinks and neighbours on the 3D structure.
- PDB
- 7V91
- Type
- protein
- Length
- 971 residues
- Chains
- 4
- Method
- x-ray diffraction
- Collection
- MolNFT v1 / PDB
- Contract
- 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
- Owner
- 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
- Molecule
- GH19 chitinase
- EC
- 3.2.1.14
- Ligands
- SO4, CL
- Pockets
- 6 · best druggability 0.82
Structure
x-ray diffraction · 2 distinct chains · 45% helix, 2% strand (DSSP).
| Chain | Molecule | Type | Residues | Secondary structure | UniProt |
|---|---|---|---|---|---|
| A, B, D | GH19 chitinase (EC 3.2.1.14) | protein | 243 | 44% helix, 2% strand | — |
| C | GH19 chitinase (EC 3.2.1.14) | protein | 242 | 45% helix, 2% strand | — |
Ligands and binding sites
- SO4 · Sulfate ion · ion · 13 copies · chains A, C, B, D
- CL · Chloride ion · ion · 4 copies · chains A, B, C, D
- EPE · 4-(2-hydroxyethyl)-1-piperazine ethanesulfonic acid · additive · 4 copies · chains A, C, B, D
- MPD · (4S)-2-methyl-2,4-pentanediol · additive · 2 copies · chains B, D, A, C
Binding sites are the residues within 4.5 Å of a ligand's heavy atoms.
Pockets
6 pockets found on a 1 Å grid, 5 with a druggability of 0.5 or more.
| Volume (ų) | Druggability | Buriedness | Lining residues | Inside | |
|---|---|---|---|---|---|
| 1 | 996 | 0.82 | 0.83 | 99 | EPE, MPD |
| 2 | 1159 | 0.79 | 0.81 | 102 | SO4, MPD |
| 3 | 261 | 0.64 | 0.81 | 36 | EPE, SO4 |
| 4 | 248 | 0.63 | 0.82 | 36 | EPE, SO4 |
| 5 | 244 | 0.61 | 0.81 | 31 | EPE, SO4 |
Interfaces
4 interfaces between chains.
- A–C · 1028 Ų buried · 14 hydrogen bonds · protein-protein
- B–D · 1021 Ų buried · 13 hydrogen bonds · protein-protein
- A–D · 466 Ų buried · 5 hydrogen bonds · protein-protein
- A–B · 166 Ų buried · 2 hydrogen bonds · protein-protein
Modifications
Observed in the structure: 12 disulfide (disulfide).
Compared structures
- 7V91 · Crystal Structure of the Catalytic Domain of a Family GH19 Chitinase from Gazyumaru… · 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 7V91 · PDBe 7V91
GL1X is a live explorer of the GenesisL1 blockchain. Turn on JavaScript for search, charts and interactive views.