Research workbench
Crystal Structure of RopB
Analyse Crystal Structure of RopB in the GL1X research workbench: secondary structure, accessibility, pockets, interfaces, conservation, variants, modifications, peptides, crosslinks and neighbours on the 3D structure.
- PDB
- 5DL2
- Type
- protein
- Length
- 444 residues
- Chains
- 2
- Method
- x-ray diffraction
- Collection
- MolNFT v2 / PDB Bank
- Contract
- 0xd58B01f6C18086e5202cdC5D7Ad3E41790360102
- Owner
- 0xF4e1AA6f26B7DA48EeAD9B24a97927303eeA07b8
- Resolution
- 3.5
- Source
- Streptococcus pyogenes MGAS10870
- Molecule
- Regulator of protease B (RopB)
- UniProt
- D3KVD8
- Pockets
- 6 · best druggability 0.67
Structure
x-ray diffraction · resolution 3.5 · 1 distinct chain · 73% helix, 0% strand (DSSP).
| Chain | Molecule | Type | Residues | Secondary structure | UniProt |
|---|---|---|---|---|---|
| A, B | Regulator of protease B (RopB) | protein | 222 | 73% helix, 0% strand | D3KVD8 |
Pockets
6 pockets found on a 1 Å grid, 3 with a druggability of 0.5 or more.
| Volume (ų) | Druggability | Buriedness | Lining residues | Inside | |
|---|---|---|---|---|---|
| 1 | 209 | 0.67 | 0.84 | 28 | empty |
| 2 | 356 | 0.61 | 0.77 | 37 | empty |
| 3 | 196 | 0.54 | 0.78 | 26 | empty |
| 4 | 122 | 0.42 | 0.76 | 15 | empty |
| 5 | 50 | 0.33 | 0.77 | 11 | empty |
Interfaces
1 interface between chains.
- A–B · 1073 Ų buried · 8 hydrogen bonds · protein-protein
Compared structures
- 5DL2 · Crystal structure of ropb · 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 D3KVD8
- Elsewhere: RCSB PDB 5DL2 · PDBe 5DL2 · UniProt D3KVD8
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