MolNFT v1 · #60569 · protein
Structure of peroxisomal targeting signal 1 (PTS1) binding domain of trypanosoma brucei peroxin 5 (TBPEX5)COMPLEXED to T. brucei glyceraldehyde-3-phosphate dehydrogenase (GAPDH) PTS1 peptide
3CVN · Peroxisome targeting signal 1 receptor: “Structure of peroxisomal targeting signal 1 (PTS1) binding domain of trypanosoma brucei peroxin 5…”. X-ray diffraction, 3 pockets (best druggability 0.56). MolNFT v1 #60569 on GenesisL1: 3D…
- PDB
- 3CVN
- Type
- protein
- Length
- 305 residues
- Chains
- 2
- Method
- x-ray diffraction
- Collection
- MolNFT v1 / PDB
- Contract
- 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
- Owner
- 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
- Molecule
- Peroxisome targeting signal 1 receptor; T. brucei GAPDH PTS1 peptide ac-drdaakl
- UniProt
- Q57W55, P22512
- Pockets
- 3 · best druggability 0.56
Structure
x-ray diffraction · 2 distinct chains · 72% helix, 0% strand (DSSP).
| Chain | Molecule | Type | Residues | Secondary structure | UniProt |
|---|---|---|---|---|---|
| A | Peroxisome targeting signal 1 receptor | protein | 300 | 73% helix, 0% strand | Q57W55 |
| B | T. brucei GAPDH PTS1 peptide ac-drdaakl | protein | 5 | 0% helix, 0% strand | P22512 |
Ligands and binding sites
- EDO · 1,2-ethanediol · additive · 22 copies · chains A, B
Binding sites are the residues within 4.5 Å of a ligand's heavy atoms.
Pockets
3 pockets found on a 1 Å grid, 1 with a druggability of 0.5 or more.
| Volume (ų) | Druggability | Buriedness | Lining residues | Inside | |
|---|---|---|---|---|---|
| 1 | 211 | 0.56 | 0.79 | 40 | EDO |
| 2 | 60 | 0.44 | 0.83 | 21 | empty |
| 3 | 57 | 0.28 | 0.74 | 15 | EDO |
Interfaces
1 interface between chains.
- A–B · 566 Ų buried · 11 hydrogen bonds · protein-protein
Compared structures
- 3CVN · 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
- P22512 · AlphaFold monomer V2.0 prediction for glyceraldehyde-3-phosphate dehydrogenase… · a predicted model of the same protein · chain B against A, TM-score 0.76
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 Q57W55
- Every structure of UniProt P22512
- Elsewhere: RCSB PDB 3CVN · PDBe 3CVN · UniProt Q57W55 · UniProt P22512
GL1X is a live explorer of the GenesisL1 blockchain. Turn on JavaScript for search, charts and interactive views.