wwPDB validation report of PDB entry 3I38

Structure of a putative chaperone protein dnaj from klebsiella pneumoniae subsp. pneumoniae mgh 78578

AUTHORS HAD THE FOLLOWING COMMENTS ON THE SUPERHELICCAL STRUCTURE IN ASYMMETRIC UNIT: FIRST OF ALL, THE PROTEIN IS A SMALL PART OF A LARGE PROTEIN WHICH CONSISTS OF THREE DOMAINS. THEREFORE IT IS HARD TO PREDICT WHETHER THE FULL LENGTH PROTEIN WILL FORM A SIMILAR SUPERHELICAL STRUCTURE. LIGHT SCATTERING ANALYSIS CONFIRMS THAT THE PROTEIN DOMAIN FORMS A DIMER IN SOLUTION. AUTHORS ASSUME THAT THE SUPERHELICAL STRUCTURE IS AN ARTIFACT AND CREATED BY CRYSTAL PACKING. THIS IS THE VERY INTERESTING PATTERN BUT FROM FUNCTIONAL POINT OF VIEW WE DO NOT KNOW IF IT IS PHYSIOLOGICALLY RELEVANT.

The largest off-origin peak in the Patterson function is 14.74% 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