MolNFT v1 · #47825 · protein
Crystal structure of serine bound G336V mutant of E.COLI phosphoglycerate dehydrogenase
2PA3 · D-3-phosphoglycerate dehydrogenase: “Crystal structure of serine bound G336V mutant of E.COLI phosphoglycerate dehydrogenase”. X-ray diffraction, 2 ligands (SER, NAI), 3 pockets (best druggability 0.63). MolNFT v1 #47825 on…
- PDB
- 2PA3
- Type
- protein
- Length
- 406 residues
- Chains
- 1
- Method
- x-ray diffraction
- Collection
- MolNFT v1 / PDB
- Contract
- 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
- Owner
- 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
- Molecule
- D-3-phosphoglycerate dehydrogenase
- EC
- 1.1.1.95
- UniProt
- P0A9T0
- Ligands
- SER, NAI
- Pockets
- 3 · best druggability 0.63
Structure
x-ray diffraction · 1 distinct chain · 34% helix, 20% strand (DSSP).
| Chain | Molecule | Type | Residues | Secondary structure | UniProt |
|---|---|---|---|---|---|
| A | D-3-phosphoglycerate dehydrogenase (EC 1.1.1.95) | protein | 406 | 34% helix, 20% strand | P0A9T0 |
Ligands and binding sites
- SER · Serine · ligand · chains A
- NAI · 1,4-dihydronicotinamide adenine dinucleotide · ligand · 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 | 460 | 0.63 | 0.77 | 48 | NAI |
| 2 | 137 | 0.45 | 0.76 | 27 | empty |
| 3 | 111 | 0.40 | 0.75 | 19 | empty |
Compared structures
- 2PA3 · crystal structure of serine bound G336V mutant of E.coli phosphoglycerate dehydrogenase · the same entry in another collection · chain A against A, TM-score 1.00
- P0A9T0 · AlphaFold monomer V2.0 prediction for D-3-phosphoglycerate dehydrogenase (P0A9T0) · a predicted model of the same protein · chain A against A, TM-score 0.99
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 P0A9T0
- Elsewhere: RCSB PDB 2PA3 · PDBe 2PA3 · UniProt P0A9T0
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