MolNFT v1 · #114350 · protein
Crystal structure of T75V mutant of triosephosphate isomerase from plasmodium falciparum
5BMW: “Crystal structure of T75V mutant of triosephosphate isomerase from plasmodium falciparum”. X-ray diffraction, 2 ligands (NA, CA), 3 pockets (best druggability 0.79). MolNFT v1 #114350 on GenesisL1: 3D structure, binding sites and…
- PDB
- 5BMW
- Type
- protein
- Length
- 493 residues
- Chains
- 2
- Method
- x-ray diffraction
- Collection
- MolNFT v1 / PDB
- Contract
- 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
- Owner
- 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
- Molecule
- Triosephosphate isomerase
- EC
- 5.3.1.1
- UniProt
- Q07412
- Ligands
- NA, CA
- Pockets
- 3 · best druggability 0.79
Structure
x-ray diffraction · 2 distinct chains · 44% helix, 16% strand (DSSP).
| Chain | Molecule | Type | Residues | Secondary structure | UniProt |
|---|---|---|---|---|---|
| A | Triosephosphate isomerase (EC 5.3.1.1) | protein | 246 | 44% helix, 17% strand | Q07412 |
| B | Triosephosphate isomerase (EC 5.3.1.1) | protein | 247 | 44% helix, 15% strand | Q07412 |
Ligands and binding sites
- NA · Sodium ion · metal · 2 copies · chains A, B
- CA · Calcium ion · metal · chains A
- EDO · 1,2-ethanediol · additive · 8 copies · chains A, B
- MES · 2-(N-morpholino)-ethanesulfonic acid · additive · chains A
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 | 254 | 0.79 | 0.92 | 41 | EDO |
| 2 | 80 | 0.42 | 0.80 | 17 | EDO |
| 3 | 79 | 0.41 | 0.79 | 18 | EDO |
Interfaces
1 interface between chains.
- A–B · 1722 Ų buried · 24 hydrogen bonds · protein-protein
Compared structures
- 5BMW · Crystal structure of T75V mutant of Triosephosphate isomerase from Plasmodium falciparum · the same entry in another collection · chain A against A, TM-score 1.00
- Q07412 · AlphaFold monomer V2.0 prediction for triosephosphate isomerase (Q07412) · a predicted model of the same protein · chain B 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 Q07412
- Elsewhere: RCSB PDB 5BMW · PDBe 5BMW · UniProt Q07412
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