MolNFT v1 · #114008 · protein
Crystal structure of mbp-TOM20 fusion protein tethered with aldh presequence via a disulfide bond
5AZ8 · Maltose-binding periplasmic PROTEIN,MITOCHONDRIAL import…: “Crystal structure of mbp-TOM20 fusion protein tethered with aldh presequence via a disulfide bond”. X-ray diffraction, 2 ligands (AAC, GLC), 5 pockets (best druggability…
- PDB
- 5AZ8
- Type
- protein
- Length
- 445 residues
- Chains
- 2
- Method
- x-ray diffraction
- Collection
- MolNFT v1 / PDB
- Contract
- 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
- Owner
- 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
- Molecule
- Maltose-binding periplasmic PROTEIN,MITOCHONDRIAL import receptor subunit TOM20 homolog…
- UniProt
- P0AEX9, Q62760
- Ligands
- AAC, GLC
- Pockets
- 5 · best druggability 0.71
Structure
x-ray diffraction · 2 distinct chains · 50% helix, 17% strand (DSSP).
| Chain | Molecule | Type | Residues | Secondary structure | UniProt |
|---|---|---|---|---|---|
| A | Maltose-binding periplasmic PROTEIN,MITOCHONDRIAL import receptor subunit TOM20 homolog | protein | 433 | 51% helix, 18% strand | P0AEX9, Q62760 |
| B | Peptide gprlsrllsyagc | protein | 12 | 25% helix, 0% strand | — |
Ligands and binding sites
- AAC · Acetylamino-acetic acid · ligand · chains A, B
- GLC · alpha-D-glucopyranose · sugar · 2 copies · chains A
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 | 269 | 0.71 | 0.85 | 27 | GLC |
| 2 | 376 | 0.66 | 0.80 | 38 | empty |
| 3 | 54 | 0.41 | 0.81 | 17 | empty |
| 4 | 127 | 0.39 | 0.74 | 21 | empty |
| 5 | 56 | 0.34 | 0.78 | 13 | empty |
Interfaces
1 interface between chains.
- A–B · 751 Ų buried · 6 hydrogen bonds · protein-protein
Modifications
Observed in the structure: 1 covalent, 1 modified (covalent ligand, nonstandard).
Compared structures
- 5AZ8 · Crystal structure of MBP-Tom20 fusion protein tethered with ALDH presequence via a… · the same entry in another collection · chain A against A, TM-score 1.00
- Q62760 · AlphaFold monomer V2.0 prediction for mitochondrial import receptor subunit TOM20 homolog… · a predicted model of the same protein · chain A against A, TM-score 0.15
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 P0AEX9
- Every structure of UniProt Q62760
- Elsewhere: RCSB PDB 5AZ8 · PDBe 5AZ8 · UniProt P0AEX9 · UniProt Q62760
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