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Xanthomonas citri Phospho-PGM in complex with glucopyranosyl-1-methyl-phosphonic acid at room temperature

Analyse Xanthomonas citri Phospho-PGM in complex with… in the GL1X research workbench: secondary structure, accessibility, pockets, interfaces, conservation, variants, modifications, peptides, crosslinks and neighbours on the 3D structure.

PDB: 6NQG
Type: protein
Length: 448 residues
Chains: 1
Method: x-ray diffraction
Collection: MolNFT v2 / PDB Bank
Contract: 0xd58B01f6C18086e5202cdC5D7Ad3E41790360102
Owner: 0xF4e1AA6f26B7DA48EeAD9B24a97927303eeA07b8
Resolution: 2.05
Source: Xanthomonas axonopodis pv. citri (strain 306)
Molecule: Phosphoglucomutase
UniProt: Q8PGN7
Ligands: GPM, CA
Pockets: 2 · best druggability 0.69

Structure

x-ray diffraction · resolution 2.05 · 1 distinct chain · 40% helix, 21% strand (DSSP).

Chain	Molecule	Type	Residues	Secondary structure	UniProt
A	Phosphoglucomutase	protein	448	40% helix, 21% strand	Q8PGN7

Ligands and binding sites

GPM · (1S)-1,5-anhydro-1-(phosphonomethyl)-D-glucitol · sugar · chains A
CA · Calcium ion · metal · chains A

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

Pockets

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

Pocket	Volume (Å³)	Druggability	Buriedness	Lining residues	Inside
1	326	0.69	0.83	40	GPM
2	58	0.32	0.76	15	empty

Modifications

Observed in the structure: 1 modified (phosphorylation).

Compared structures

6NQG · Xanthomonas citri phospho-pgm in complex with glucopyranosyl-1-methyl- phosphonic acid at… · 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 Q8PGN7
Elsewhere: RCSB PDB 6NQG · PDBe 6NQG · UniProt Q8PGN7

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