MolNFT v1 · #141829 · protein
Crystal structure of N-terminal domain of plasmodium vivax P43 in space group P21
5ZKF · Aminoacyl tRNA synthetase complex-interacting…: “Crystal structure of N-terminal domain of plasmodium vivax P43 in space group P21”. X-ray diffraction, 10 pockets (best druggability 0.76). MolNFT v1 #141829 on GenesisL1: 3D…
- PDB
- 5ZKF
- Type
- protein
- Length
- 686 residues
- Chains
- 4
- Method
- x-ray diffraction
- Collection
- MolNFT v1 / PDB
- Contract
- 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
- Owner
- 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
- Molecule
- Aminoacyl tRNA synthetase complex-interacting multifunctional protein P43
- UniProt
- A0A1G4HHT8
- Pockets
- 10 · best druggability 0.76
Structure
x-ray diffraction · 3 distinct chains · 55% helix, 10% strand (DSSP).
| Chain | Molecule | Type | Residues | Secondary structure | UniProt |
|---|---|---|---|---|---|
| B, D | Aminoacyl tRNA synthetase complex-interacting multifunctional protein P43 | protein | 174 | 53% helix, 10% strand | A0A1G4HHT8 |
| A | Aminoacyl tRNA synthetase complex-interacting multifunctional protein P43 | protein | 168 | 54% helix, 11% strand | A0A1G4HHT8 |
| C | Aminoacyl tRNA synthetase complex-interacting multifunctional protein P43 | protein | 170 | 59% helix, 11% strand | A0A1G4HHT8 |
Pockets
10 pockets found on a 1 Å grid, 2 with a druggability of 0.5 or more.
| Volume (ų) | Druggability | Buriedness | Lining residues | Inside | |
|---|---|---|---|---|---|
| 1 | 1161 | 0.76 | 0.79 | 87 | empty |
| 2 | 256 | 0.65 | 0.82 | 38 | empty |
| 3 | 99 | 0.41 | 0.77 | 18 | empty |
| 4 | 55 | 0.36 | 0.79 | 15 | empty |
| 5 | 56 | 0.35 | 0.78 | 13 | empty |
Interfaces
5 interfaces between chains.
- B–A · 1012 Ų buried · 5 hydrogen bonds · protein-protein
- C–D · 605 Ų buried · 0 hydrogen bonds · protein-protein
- A–D · 181 Ų buried · 3 hydrogen bonds · protein-protein
- A–C · 115 Ų buried · 0 hydrogen bonds · protein-protein
- B–C · 102 Ų buried · 1 hydrogen bond · protein-protein
Modifications
Observed in the structure: 4 modified (alkylation).
Compared structures
- 5ZKF · Crystal Structure of N-terminal Domain of Plasmodium vivax p43 in space group P21 · the same entry in another collection · chain B against B, 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 A0A1G4HHT8
- Elsewhere: RCSB PDB 5ZKF · PDBe 5ZKF · UniProt A0A1G4HHT8
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