MolNFT v1 · #99069 · protein
Crystal structure of a glycosomal glyceraldehyde-3-phosphate dehydrogenase from trypanosoma cruzi
4LSM · Glyceraldehyde 3-phosphate dehydrogenase, cytosolic: “Crystal structure of a glycosomal glyceraldehyde-3-phosphate dehydrogenase from trypanosoma cruzi”. X-ray diffraction, 1 ligand (NAD), 4 pockets (best druggability 0.66). MolNFT…
- PDB
- 4LSM
- Type
- protein
- Length
- 662 residues
- Chains
- 2
- Method
- x-ray diffraction
- Collection
- MolNFT v1 / PDB
- Contract
- 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
- Owner
- 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
- Molecule
- Glyceraldehyde 3-phosphate dehydrogenase, cytosolic
- EC
- 1.2.1.12
- UniProt
- Q4DZT1
- Ligands
- NAD
- Pockets
- 4 · best druggability 0.66
Structure
x-ray diffraction · 1 distinct chain · 31% helix, 28% strand (DSSP).
| Chain | Molecule | Type | Residues | Secondary structure | UniProt |
|---|---|---|---|---|---|
| A, B | Glyceraldehyde 3-phosphate dehydrogenase, cytosolic (EC 1.2.1.12) | protein | 331 | 31% helix, 28% strand | Q4DZT1 |
Ligands and binding sites
- NAD · Nicotinamide-adenine-dinucleotide · ligand · 2 copies · chains A, B
- EDO · 1,2-ethanediol · additive · 6 copies · chains A, B
Binding sites are the residues within 4.5 Å of a ligand's heavy atoms.
Pockets
4 pockets found on a 1 Å grid, 2 with a druggability of 0.5 or more.
| Volume (ų) | Druggability | Buriedness | Lining residues | Inside | |
|---|---|---|---|---|---|
| 1 | 546 | 0.66 | 0.77 | 69 | NAD |
| 2 | 469 | 0.64 | 0.77 | 55 | NAD, EDO |
| 3 | 54 | 0.31 | 0.77 | 14 | NAD |
| 4 | 70 | 0.30 | 0.74 | 16 | empty |
Interfaces
1 interface between chains.
- A–B · 1998 Ų buried · 32 hydrogen bonds · protein-protein
Compared structures
- 4LSM · Crystal structure of a glycosomal glyceraldehyde-3-phosphate dehydrogenase 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 Q4DZT1
- Elsewhere: RCSB PDB 4LSM · PDBe 4LSM · UniProt Q4DZT1
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