wwPDB validation report of PDB entry 2Y4M

C-TERMINAL TRUNCATION OF LAST 15 RESIDUES.

GUANOSINE 5'-(TRIHYDROGEN DIPHOSPHATE), P'-D-MANNOPYRANOSYL ESTER

MANNOSYLGLYCERATE SYNTHASE IN COMPLEX WITH MANGANESE AND GDP

MANNOSYLGLYCERATE SYNTHASE IN COMPLEX WITH LACTATE

MANNOSYLGLYCERATE SYNTHASE IN COMPLEX WITH MG-GDP

ENGINEERED RESIDUE IN CHAIN A, GLN 201 TO ALA ENGINEERED RESIDUE IN CHAIN B, GLN 201 TO ALA ENGINEERED RESIDUE IN CHAIN A, GLN 202 TO ALA ENGINEERED RESIDUE IN CHAIN B, GLN 202 TO ALA

ETHYLENE GLYCOL (EDO): ETHYLENE GLYCOL WAS THE
CRYOPROTECTANT
GUANOSINE 5'-(TRIHYDROGEN DIPHOSPHATE), P'-D-MANNOPYRANOSYL
ESTER (GDX): GDP-MANNOSE IS THE SUGAR DONOR SUBSTRATE FOR
MGS
CHLORIDE (CL): CHLORIDE OCCUPIES THE POSITION OF THE SUGAR
ACCEPTOR OF MGS

C-TERMINAL TRUNCATION OF LAST 15 RESIDUES. Q201 AND Q202 WERE BOTH MUTATED TO ALANINES FOR SURFACE ENTROPY MINIMIZATION.

HYDROGENS HAVE BEEN ADDED IN THE RIDING POSITIONS. U VALUES REFINED INDIVIDUALLY

MANNOSYLGLYCERATE SYNTHASE (E.C.2.4.1.217)
MANNOSYLGLYCERATE SYNTHASE IN COMPLEX WITH GDP-Mannose

The largest off-origin peak in the Patterson function is 2.85% of the height of the origin peak. No significant pseudotranslation is detected.

20191225.v01 (using entries in the PDB archive December 25th 2019)

structure factor analysis and validation

geometric validation package for ligand chemistry in protein x-ray structures