Research workbench
Crystal structure of mbp-TOM20 fusion protein with a 2-residue spacer in the connector helix
Analyse Crystal structure of mbp-TOM20 fusion protein with a 2-residue spacer in the… in the GL1X research workbench: secondary structure, accessibility, pockets, interfaces, conservation, variants, modifications, peptides, crosslinks and neighbours on the 3D structure.
- PDB
- 5AZ6
- Type
- protein
- Length
- 866 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
- GLC
- Pockets
- 9 · best druggability 0.73
Structure
x-ray diffraction · 1 distinct chain · 51% helix, 15% strand (DSSP).
| Chain | Molecule | Type | Residues | Secondary structure | UniProt |
|---|---|---|---|---|---|
| B, A | Maltose-binding periplasmic PROTEIN,MITOCHONDRIAL import receptor subunit TOM20 homolog | protein | 433 | 51% helix, 15% strand | P0AEX9, Q62760 |
Ligands and binding sites
- GLC · alpha-D-glucopyranose · sugar · 4 copies · chains B, A
Binding sites are the residues within 4.5 Å of a ligand's heavy atoms.
Pockets
9 pockets found on a 1 Å grid, 4 with a druggability of 0.5 or more.
| Volume (ų) | Druggability | Buriedness | Lining residues | Inside | |
|---|---|---|---|---|---|
| 1 | 582 | 0.73 | 0.80 | 71 | empty |
| 2 | 301 | 0.71 | 0.85 | 29 | GLC |
| 3 | 298 | 0.71 | 0.84 | 28 | GLC |
| 4 | 417 | 0.70 | 0.81 | 55 | empty |
| 5 | 205 | 0.50 | 0.76 | 27 | empty |
Interfaces
1 interface between chains.
- B–A · 802 Ų buried · 6 hydrogen bonds · protein-protein
Compared structures
- 5AZ6 · Crystal structure of MBP-Tom20 fusion protein with a 2-residue spacer in the connector… · the same entry in another collection · chain B against B, 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 B against A, TM-score 0.18
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 5AZ6 · PDBe 5AZ6 · UniProt P0AEX9 · UniProt Q62760
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