Research workbench
Apo form of a NADP dependent aldehyde dehydrogenase from streptococcus mutans
Analyse Apo form of a NADP dependent aldehyde dehydrogenase from streptococcus mutans in the GL1X research workbench: secondary structure, accessibility, pockets, interfaces, conservation, variants, modifications, peptides, crosslinks and neighbours on the 3D structure.
- PDB
- 1EUH
- Type
- protein
- Length
- 1,896 residues
- Chains
- 4
- Method
- x-ray diffraction
- Collection
- MolNFT v1 / PDB
- Contract
- 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
- Owner
- 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
- Molecule
- NADP dependent non phosphorylating glyceraldehyde-3-phosphate dehydrogenase
- EC
- 1.2.1.9
- UniProt
- Q59931
- Ligands
- SO4
- Pockets
- 20 · best druggability 0.85
Structure
x-ray diffraction · 1 distinct chain · 43% helix, 23% strand (DSSP).
| Chain | Molecule | Type | Residues | Secondary structure | UniProt |
|---|---|---|---|---|---|
| A, B, C, D | NADP dependent non phosphorylating glyceraldehyde-3-phosphate dehydrogenase (EC 1.2.1.9) | protein | 474 | 43% helix, 23% strand | Q59931 |
Ligands and binding sites
- SO4 · Sulfate ion · ion · 10 copies · chains A, B, C, D
Binding sites are the residues within 4.5 Å of a ligand's heavy atoms.
Pockets
20 pockets found on a 1 Å grid, 17 with a druggability of 0.5 or more.
| Volume (ų) | Druggability | Buriedness | Lining residues | Inside | |
|---|---|---|---|---|---|
| 1 | 871 | 0.85 | 0.87 | 86 | empty |
| 2 | 777 | 0.83 | 0.86 | 82 | empty |
| 3 | 337 | 0.72 | 0.85 | 36 | empty |
| 4 | 150 | 0.69 | 0.89 | 26 | empty |
| 5 | 145 | 0.69 | 0.89 | 27 | empty |
Interfaces
6 interfaces between chains.
- C–D · 2531 Ų buried · 31 hydrogen bonds · protein-protein
- A–B · 2497 Ų buried · 29 hydrogen bonds · protein-protein
- A–D · 1155 Ų buried · 20 hydrogen bonds · protein-protein
- B–C · 1154 Ų buried · 20 hydrogen bonds · protein-protein
- A–C · 851 Ų buried · 10 hydrogen bonds · protein-protein
Compared structures
- 1EUH · Apo form of a NADP dependent aldehyde dehydrogenase from streptococcus mutans · the same entry in another collection · chain D against D, TM-score 1.00
- Q59931 · AlphaFold monomer V2.0 prediction for NADP-dependent glyceraldehyde-3-phosphate… · a predicted model of the same protein · chain C 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 Q59931
- Elsewhere: RCSB PDB 1EUH · PDBe 1EUH · UniProt Q59931
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