Research workbench
Structure and function of a membrane component secdf that enhances protein export
Analyse Structure and function of a membrane component secdf that enhances protein… in the GL1X research workbench: secondary structure, accessibility, pockets, interfaces, conservation, variants, modifications, peptides, crosslinks and neighbours on the 3D structure.
- PDB
- 3AQO
- Type
- protein
- Length
- 884 residues
- Chains
- 4
- Method
- x-ray diffraction
- Collection
- MolNFT v1 / PDB
- Contract
- 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
- Owner
- 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
- Molecule
- Probable secdf protein-export membrane protein
- UniProt
- Q5SKE6
- Pockets
- 12 · best druggability 0.66
Structure
x-ray diffraction · 3 distinct chains · 34% helix, 30% strand (DSSP).
| Chain | Molecule | Type | Residues | Secondary structure | UniProt |
|---|---|---|---|---|---|
| A, D | Probable secdf protein-export membrane protein | protein | 221 | 34% helix, 30% strand | Q5SKE6 |
| B | Probable secdf protein-export membrane protein | protein | 220 | 35% helix, 31% strand | Q5SKE6 |
| C | Probable secdf protein-export membrane protein | protein | 222 | 33% helix, 30% strand | Q5SKE6 |
Pockets
12 pockets found on a 1 Å grid, 1 with a druggability of 0.5 or more.
| Volume (ų) | Druggability | Buriedness | Lining residues | Inside | |
|---|---|---|---|---|---|
| 1 | 588 | 0.66 | 0.76 | 69 | empty |
| 2 | 188 | 0.49 | 0.76 | 22 | empty |
| 3 | 194 | 0.46 | 0.74 | 30 | empty |
| 4 | 82 | 0.44 | 0.80 | 14 | empty |
| 5 | 165 | 0.44 | 0.74 | 28 | empty |
Interfaces
3 interfaces between chains.
- C–D · 472 Ų buried · 7 hydrogen bonds · protein-protein
- B–D · 275 Ų buried · 7 hydrogen bonds · protein-protein
- A–C · 264 Ų buried · 7 hydrogen bonds · protein-protein
Compared structures
- 3AQO · Structure and function of a membrane component SecDF that enhances protein export · the same entry in another collection · chain A against A, TM-score 1.00
- Q5SKE6 · AlphaFold monomer V2.0 prediction for protein translocase subunit secdf (Q5SKE6) · a predicted model of the same protein · chain C against A, TM-score 0.98
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 Q5SKE6
- Elsewhere: RCSB PDB 3AQO · PDBe 3AQO · UniProt Q5SKE6
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