wwPDB validation report of PDB entry 3OKA

GDP-mannose-dependent alpha-(1-6)-phosphatidylinositol monomannoside mannosyltransferase

Guanosine diphosphomannose-phosphatidyl-inositol alpha-mannosyltransferase, Phosphatidylinositol alpha-mannosyltransferase, PI alpha-mannosyltransferase, Alpha-mannosyltransferase, Alpha-manT, Alpha-D-mannose-alpha-(1-6)-phosphatidylmyo-inositol-mannosyltransferase

PimB' bound to GDP (orthorhombic crystal form)

PimB' bound to GDP-Man (orthorhombic crystal form)

AUTHORS EXPLAIN THAT THE EXPRESSION TAGS ARE NOT CLEAVED, BUT THERE IS NO CONTINUOUS DENSITY BETWEEN THE C-TERMINAL RESIDUE OF THE TAG AND THE N-TERMINUS OF THE ACTUAL PROTEIN SEQUENCE. WHILE A BIT ARBITRARY, THE AUTHORS GAVE THE SEQUENCE TAGS SEPARATE CHAIN IDS. IT WAS NOT POSSIBLE TO DETERMINE TO WHICH OF THE TWO PROTEIN CHAINS (A OR B) TAG-CHAINS C AND D BELONGED

HYDROGENS HAVE BEEN ADDED IN THE RIDING POSITIONS

GDP-mannose-dependent alpha-(1-6)-phosphatidylinositol monomannoside mannosyltransferase (E.C.2.4.1.57), N-terminal His-affinity tag
Crystal structure of Corynebacterium glutamicum PimB' in complex with GDP-Man (triclinic crystal form)

The largest off-origin peak in the Patterson function is 6.20% 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