Research workbench
Crystal structure of a mutant (665I6H) of the C-terminal domain of rgpb
Analyse Crystal structure of a mutant (665I6H) of the C-terminal domain of rgpb in the GL1X research workbench: secondary structure, accessibility, pockets, interfaces, conservation, variants, modifications, peptides, crosslinks and neighbours on the 3D structure.
- PDB
- 5AG8
- Type
- protein
- Length
- 298 residues
- Chains
- 2
- Method
- x-ray diffraction
- Collection
- MolNFT v1 / PDB
- Contract
- 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
- Owner
- 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
- Molecule
- Gingipain R2
- EC
- 3.4.22.37
- UniProt
- P95493
- Ligands
- SO4
- Pockets
- 2 · best druggability 0.50
Structure
x-ray diffraction · 1 distinct chain · 0% helix, 64% strand (DSSP).
| Chain | Molecule | Type | Residues | Secondary structure | UniProt |
|---|---|---|---|---|---|
| A, B | Gingipain R2 (EC 3.4.22.37) | protein | 149 | 0% helix, 64% strand | P95493 |
Ligands and binding sites
Binding sites are the residues within 4.5 Å of a ligand's heavy atoms.
Pockets
2 pockets found on a 1 Å grid, 0 with a druggability of 0.5 or more.
| Volume (ų) | Druggability | Buriedness | Lining residues | Inside | |
|---|---|---|---|---|---|
| 1 | 202 | 0.50 | 0.76 | 30 | empty |
| 2 | 114 | 0.39 | 0.75 | 21 | empty |
Interfaces
1 interface between chains.
- A–B · 419 Ų buried · 1 hydrogen bond · protein-protein
Compared structures
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 P95493
- Elsewhere: RCSB PDB 5AG8 · PDBe 5AG8 · UniProt P95493
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