MolNFT v1 · #141695 · protein
Crystal structure of triosephosphate isomerase sad deletion and N115A mutant from opisthorchis viverrini
5ZGA: “Crystal structure of triosephosphate isomerase sad deletion and N115A mutant from opisthorchis viverrini”. X-ray diffraction, 9 pockets (best druggability 0.81). MolNFT v1 #141695 on GenesisL1: 3D structure, binding sites and…
- PDB
- 5ZGA
- Type
- protein
- Length
- 972 residues
- Chains
- 4
- Method
- x-ray diffraction
- Collection
- MolNFT v1 / PDB
- Contract
- 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
- Owner
- 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
- Molecule
- Triosephosphate isomerase
- EC
- 5.3.1.1
- UniProt
- A0A074Z863
- Pockets
- 9 · best druggability 0.81
Structure
x-ray diffraction · 2 distinct chains · 44% helix, 16% strand (DSSP).
| Chain | Molecule | Type | Residues | Secondary structure | UniProt |
|---|---|---|---|---|---|
| A, C | Triosephosphate isomerase (EC 5.3.1.1) | protein | 241 | 43% helix, 17% strand | A0A074Z863 |
| B, D | Triosephosphate isomerase (EC 5.3.1.1) | protein | 245 | 44% helix, 16% strand | A0A074Z863 |
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 | 953 | 0.81 | 0.82 | 126 | empty |
| 2 | 269 | 0.77 | 0.90 | 43 | empty |
| 3 | 98 | 0.76 | 0.97 | 28 | empty |
| 4 | 87 | 0.75 | 0.98 | 26 | empty |
| 5 | 69 | 0.44 | 0.81 | 23 | empty |
Interfaces
5 interfaces between chains.
- C–D · 1679 Ų buried · 27 hydrogen bonds · protein-protein
- A–B · 1645 Ų buried · 28 hydrogen bonds · protein-protein
- A–D · 617 Ų buried · 8 hydrogen bonds · protein-protein
- B–C · 601 Ų buried · 10 hydrogen bonds · protein-protein
- A–C · 360 Ų buried · 2 hydrogen bonds · protein-protein
Compared structures
- 5ZGA · Crystal Structure of Triosephosphate isomerase SAD deletion and N115A mutant from… · 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 A0A074Z863
- Elsewhere: RCSB PDB 5ZGA · PDBe 5ZGA · UniProt A0A074Z863
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