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Structure of peroxisomal targeting signal 1 (PTS1) binding domain of trypanosoma brucei peroxin 5 (TBPEX5)COMPLEXED to PTS1 peptide (7- skl)
Analyse Structure of peroxisomal targeting signal 1 (PTS1) binding domain of… in the GL1X research workbench: secondary structure, accessibility, pockets, interfaces, conservation, variants, modifications, peptides, crosslinks and neighbours on the 3D structure.
- PDB
- 3CVQ
- Type
- protein
- Length
- 296 residues
- Chains
- 2
- Method
- x-ray diffraction
- Collection
- MolNFT v1 / PDB
- Contract
- 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
- Owner
- 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
- Molecule
- Peroxisome targeting signal 1 receptor PEX5; PTS1 peptide 7-skl (ac-snrwskl)
- UniProt
- Q9U7C3
- Pockets
- 4 · best druggability 0.64
Structure
x-ray diffraction · 2 distinct chains · 64% helix, 0% strand (DSSP).
| Chain | Molecule | Type | Residues | Secondary structure | UniProt |
|---|---|---|---|---|---|
| A | Peroxisome targeting signal 1 receptor PEX5 | protein | 289 | 66% helix, 0% strand | Q9U7C3 |
| B | PTS1 peptide 7-skl (ac-snrwskl) | protein | 7 | 0% helix, 0% strand | — |
Ligands and binding sites
- GOL · Glycerol · additive · chains A
Binding sites are the residues within 4.5 Å of a ligand's heavy atoms.
Pockets
4 pockets found on a 1 Å grid, 1 with a druggability of 0.5 or more.
| Volume (ų) | Druggability | Buriedness | Lining residues | Inside | |
|---|---|---|---|---|---|
| 1 | 112 | 0.64 | 0.88 | 24 | empty |
| 2 | 58 | 0.38 | 0.80 | 14 | empty |
| 3 | 62 | 0.31 | 0.76 | 15 | empty |
| 4 | 66 | 0.29 | 0.73 | 18 | empty |
Interfaces
1 interface between chains.
- A–B · 720 Ų buried · 14 hydrogen bonds · protein-protein
Modifications
Observed in the structure: 1 modified (acetylation).
Compared structures
- 3CVQ · Structure of Peroxisomal Targeting Signal 1 (PTS1) binding domain of Trypanosoma brucei… · 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 Q9U7C3
- Elsewhere: RCSB PDB 3CVQ · PDBe 3CVQ · UniProt Q9U7C3
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