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Crystal structure of (S)-3-O-geranylgeranylglyceryl phosphate synthase from thermoplasma acidophilum in complex with substrate sn-glycerol- 1-phosphate

Analyse Crystal structure of (S)-3-O-geranylgeranylglyceryl phosphate synthase from… in the GL1X research workbench: secondary structure, accessibility, pockets, interfaces, conservation, variants, modifications, peptides, crosslinks and neighbours on the 3D structure.

PDB: 6JO3
Type: protein
Length: 247 residues
Chains: 1
Method: x-ray diffraction
Collection: MolNFT v1 / PDB
Contract: 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
Owner: 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
Molecule: Geranylgeranylglyceryl phosphate synthase
EC: 2.5.1.41
UniProt: Q9HJH3
Ligands: 1GP
Pockets: 1 · best druggability 0.78

Structure

x-ray diffraction · 1 distinct chain · 45% helix, 19% strand (DSSP).

Chain	Molecule	Type	Residues	Secondary structure	UniProt
A	Geranylgeranylglyceryl phosphate synthase (EC 2.5.1.41)	protein	247	45% helix, 19% strand	Q9HJH3

Ligands and binding sites

1GP · Sn-glycerol-1-phosphate · ligand · chains A

Binding sites are the residues within 4.5 Å of a ligand's heavy atoms.

Pockets

1 pocket found on a 1 Å grid, 1 with a druggability of 0.5 or more.

Pocket	Volume (Å³)	Druggability	Buriedness	Lining residues	Inside
1	314	0.78	0.89	52	1GP

Compared structures

6JO3 · Crystal structure of (S)-3-O-geranylgeranylglyceryl phosphate synthase from Thermoplasma… · the same entry in another collection · chain A against A, TM-score 1.00
Q9HJH3 · AlphaFold monomer V2.0 prediction for geranylgeranylglyceryl phosphate synthase (Q9HJH3) · 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 Q9HJH3
Elsewhere: RCSB PDB 6JO3 · PDBe 6JO3 · UniProt Q9HJH3

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