Research workbench
Crystal structure of haemophilus influenzae oppa complex with mgg
Analyse Crystal structure of haemophilus influenzae oppa complex with mgg in the GL1X research workbench: secondary structure, accessibility, pockets, interfaces, conservation, variants, modifications, peptides, crosslinks and neighbours on the 3D structure.
- PDB
- 6DQR
- Type
- protein
- Length
- 518 residues
- Chains
- 2
- Method
- x-ray diffraction
- Collection
- MolNFT v1 / PDB
- Contract
- 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
- Owner
- 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
- Molecule
- Periplasmic oligopeptide-binding protein; Met-gly-gly
- UniProt
- Q4QLH0
- Ligands
- SO4
- Pockets
- 5 · best druggability 0.80
Structure
x-ray diffraction · 2 distinct chains · 34% helix, 22% strand (DSSP).
| Chain | Molecule | Type | Residues | Secondary structure | UniProt |
|---|---|---|---|---|---|
| A | Periplasmic oligopeptide-binding protein | protein | 515 | 34% helix, 22% strand | Q4QLH0 |
| B | Met-gly-gly | protein | 3 | 0% helix, 33% strand | — |
Ligands and binding sites
Binding sites are the residues within 4.5 Å of a ligand's heavy atoms.
Pockets
5 pockets found on a 1 Å grid, 2 with a druggability of 0.5 or more.
| Volume (ų) | Druggability | Buriedness | Lining residues | Inside | |
|---|---|---|---|---|---|
| 1 | 150 | 0.80 | 0.97 | 32 | empty |
| 2 | 52 | 0.70 | 0.98 | 21 | empty |
| 3 | 74 | 0.45 | 0.82 | 21 | empty |
| 4 | 100 | 0.38 | 0.76 | 19 | empty |
| 5 | 63 | 0.37 | 0.79 | 20 | empty |
Interfaces
1 interface between chains.
- A–B · 333 Ų buried · 10 hydrogen bonds · protein-protein
Compared structures
- 6DQR · Crystal structure of Haemophilus influenzae OppA complex with MGG · 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 Q4QLH0
- Elsewhere: RCSB PDB 6DQR · PDBe 6DQR · UniProt Q4QLH0
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