Research workbench
GH5-4 broad specificity endoglucanase from ruminococcus champanellensis
Analyse GH5-4 broad specificity endoglucanase from ruminococcus champanellensis in the GL1X research workbench: secondary structure, accessibility, pockets, interfaces, conservation, variants, modifications, peptides, crosslinks and neighbours on the 3D structure.
- PDB
- 6WQP
- Type
- protein
- Length
- 701 residues
- Chains
- 2
- Method
- x-ray diffraction
- Collection
- MolNFT v1 / PDB
- Contract
- 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
- Owner
- 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
- Molecule
- Endoglucanase
- UniProt
- D4LAX7
- Ligands
- BCT, NA
- Pockets
- 4 · best druggability 0.72
Structure
x-ray diffraction · 2 distinct chains · 40% helix, 13% strand (DSSP).
| Chain | Molecule | Type | Residues | Secondary structure | UniProt |
|---|---|---|---|---|---|
| A | Endoglucanase | protein | 347 | 41% helix, 13% strand | D4LAX7 |
| B | Endoglucanase | protein | 354 | 40% helix, 12% strand | D4LAX7 |
Ligands and binding sites
- BCT · Bicarbonate ion · ligand · chains B
- NA · Sodium ion · metal · 2 copies · chains A, B
- EDO · 1,2-ethanediol · additive · 5 copies · chains A, B
Binding sites are the residues within 4.5 Å of a ligand's heavy atoms.
Pockets
4 pockets found on a 1 Å grid, 4 with a druggability of 0.5 or more.
| Volume (ų) | Druggability | Buriedness | Lining residues | Inside | |
|---|---|---|---|---|---|
| 1 | 620 | 0.72 | 0.79 | 56 | empty |
| 2 | 293 | 0.55 | 0.76 | 33 | empty |
| 3 | 159 | 0.54 | 0.81 | 16 | empty |
| 4 | 256 | 0.52 | 0.75 | 30 | EDO |
Interfaces
1 interface between chains.
- A–B · 635 Ų buried · 9 hydrogen bonds · protein-protein
Compared structures
- 6WQP · GH5-4 broad specificity endoglucanase from Ruminococcus champanellensis · 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
- Every structure of UniProt D4LAX7
- Elsewhere: RCSB PDB 6WQP · PDBe 6WQP · UniProt D4LAX7
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