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Crystal structure of an uncommon cellulosome-related protein module from Ruminococcus flavefaciens that resembles papain-like cysteine peptidases
Analyse Crystal structure of an uncommon cellulosome-related protein module from… in the GL1X research workbench: secondary structure, accessibility, pockets, interfaces, conservation, variants, modifications, peptides, crosslinks and neighbours on the 3D structure.
- PDB
- 4EYZ
- Type
- protein
- Length
- 492 residues
- Chains
- 2
- Method
- x-ray diffraction
- Collection
- MolNFT v2 / PDB Bank
- Contract
- 0xd58B01f6C18086e5202cdC5D7Ad3E41790360102
- Owner
- 0xF4e1AA6f26B7DA48EeAD9B24a97927303eeA07b8
- Resolution
- 1.383
- Source
- Ruminococcus flavefaciens
- Molecule
- Cellulosome-related protein module from Ruminococcus flavefaciens that resembles…
- Pockets
- 4 · best druggability 0.54
Structure
x-ray diffraction · resolution 1.383 · 1 distinct chain · 30% helix, 18% strand (DSSP).
| Chain | Molecule | Type | Residues | Secondary structure | UniProt |
|---|---|---|---|---|---|
| A, B | Cellulosome-related protein module from Ruminococcus flavefaciens that resembles papain-like cysteine peptidases | protein | 246 | 30% helix, 18% strand | — |
Ligands and binding sites
- EDO · 1,2-ethanediol · additive · 3 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, 2 with a druggability of 0.5 or more.
| Volume (ų) | Druggability | Buriedness | Lining residues | Inside | |
|---|---|---|---|---|---|
| 1 | 245 | 0.54 | 0.77 | 26 | empty |
| 2 | 238 | 0.54 | 0.77 | 26 | empty |
| 3 | 80 | 0.44 | 0.80 | 23 | empty |
| 4 | 64 | 0.42 | 0.81 | 25 | empty |
Interfaces
1 interface between chains.
- A–B · 599 Ų buried · 8 hydrogen bonds · protein-protein
Modifications
Observed in the structure: 18 modified (engineered, nonstandard).
Compared structures
- 4EYZ · Crystal structure of an uncommon cellulosome-related protein module from ruminococcus… · 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 4EYZ · PDBe 4EYZ
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