Research workbench
Crystal structure of O-antigen polysaccharide ABC-transporter
Analyse Crystal structure of O-antigen polysaccharide ABC-transporter in the GL1X research workbench: secondary structure, accessibility, pockets, interfaces, conservation, variants, modifications, peptides, crosslinks and neighbours on the 3D structure.
- PDB
- 6OIH
- Type
- protein
- Length
- 971 residues
- Chains
- 4
- Method
- x-ray diffraction
- Collection
- MolNFT v1 / PDB
- Contract
- 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
- Owner
- 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
- Molecule
- ABC transporter; Transport permease protein
- UniProt
- O67181, O67182
- Pockets
- 17 · best druggability 0.81
Structure
x-ray diffraction · 4 distinct chains · 61% helix, 11% strand (DSSP).
| Chain | Molecule | Type | Residues | Secondary structure | UniProt |
|---|---|---|---|---|---|
| A | ABC transporter | protein | 237 | 41% helix, 22% strand | O67181 |
| B | ABC transporter | protein | 238 | 38% helix, 21% strand | O67181 |
| D | Transport permease protein | protein | 247 | 81% helix, 0% strand | O67182 |
| C | Transport permease protein | protein | 249 | 81% helix, 0% strand | O67182 |
Ligands and binding sites
- LDA · Lauryl dimethylamine-N-oxide · additive · 8 copies · chains D, C, B
Binding sites are the residues within 4.5 Å of a ligand's heavy atoms.
Pockets
17 pockets found on a 1 Å grid, 9 with a druggability of 0.5 or more.
| Volume (ų) | Druggability | Buriedness | Lining residues | Inside | |
|---|---|---|---|---|---|
| 1 | 947 | 0.81 | 0.83 | 90 | empty |
| 2 | 871 | 0.81 | 0.84 | 83 | empty |
| 3 | 270 | 0.71 | 0.85 | 33 | empty |
| 4 | 239 | 0.71 | 0.86 | 44 | empty |
| 5 | 416 | 0.71 | 0.81 | 45 | LDA |
Interfaces
6 interfaces between chains.
- A–D · 1286 Ų buried · 7 hydrogen bonds · protein-protein
- B–C · 1186 Ų buried · 7 hydrogen bonds · protein-protein
- D–C · 1163 Ų buried · 9 hydrogen bonds · protein-protein
- A–B · 297 Ų buried · 0 hydrogen bonds · protein-protein
- A–C · 197 Ų buried · 2 hydrogen bonds · protein-protein
Compared structures
- 6OIH · Crystal structure of O-antigen polysaccharide ABC-transporter · 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 O67181
- Every structure of UniProt O67182
- Elsewhere: RCSB PDB 6OIH · PDBe 6OIH · UniProt O67181 · UniProt O67182
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