Research workbench
Crystal structure of secdf, a translocon-associated membrane protein, from thermus thrmophilus
Analyse Crystal structure of secdf, a translocon-associated membrane protein, from… in the GL1X research workbench: secondary structure, accessibility, pockets, interfaces, conservation, variants, modifications, peptides, crosslinks and neighbours on the 3D structure.
- PDB
- 3AQP
- Type
- protein
- Length
- 1,438 residues
- Chains
- 2
- Method
- x-ray diffraction
- Collection
- MolNFT v1 / PDB
- Contract
- 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
- Owner
- 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
- Molecule
- Probable secdf protein-export membrane protein
- UniProt
- Q5SKE6
- Pockets
- 20 · best druggability 0.84
Structure
x-ray diffraction · 1 distinct chain · 62% helix, 12% strand (DSSP).
| Chain | Molecule | Type | Residues | Secondary structure | UniProt |
|---|---|---|---|---|---|
| A, B | Probable secdf protein-export membrane protein | protein | 719 | 62% helix, 12% strand | Q5SKE6 |
Pockets
20 pockets found on a 1 Å grid, 17 with a druggability of 0.5 or more.
| Volume (ų) | Druggability | Buriedness | Lining residues | Inside | |
|---|---|---|---|---|---|
| 1 | 1092 | 0.84 | 0.85 | 133 | empty |
| 2 | 1173 | 0.82 | 0.83 | 132 | empty |
| 3 | 450 | 0.79 | 0.86 | 54 | empty |
| 4 | 459 | 0.77 | 0.85 | 56 | empty |
| 5 | 90 | 0.76 | 0.97 | 30 | empty |
Interfaces
1 interface between chains.
- A–B · 140 Ų buried · 2 hydrogen bonds · protein-protein
Compared structures
- 3AQP · Crystal structure of SecDF, a translocon-associated membrane protein, from Thermus… · 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 A against A, TM-score 0.68
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 3AQP · PDBe 3AQP · UniProt Q5SKE6
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