wwPDB validation report of PDB entry 5L03

2-C-methyl-D-erythritol 2,4-cyclodiphosphate synthase

2-C-methyl-D-erythritol 2,4-cyclodiphosphate synthase (E.C.4.6.1.12)
Crystal structure of 2-C-METHYL-D-ERYTHRITOL 2,4-CYCLODIPHOSPHATE Synthase from BURKHOLDERIA PSEUDOMALLEI bound to L-tryptophan hydroxamate

(chain A and ((resid 1 and (name N or name CA or name C or name O or name CB )) or (resid 2 and (name N or name CA or name C or name O or name CB or name CG or name OD1)) or resseq 3:13 or (resid 14 and (name N or name CA or name C or name O or name CB or name CG or name CD1)) or resseq 15:17 or resseq 19:27 or (resid 28 and (name N or name CA or name C or name O or name CB )) or resseq 29 or (resid 30 and (name N or name CA or name C or name O or name CB )) or (resid 31 and (name N or name CA or name C or name O or name CB )) or resseq 32 or (resid 33 and (name N or name CA or name C or name O or name CB )) or (resid 34 and (name N or name CA or name C or name O or name CB )) or resseq 39:47 or (resid 48 and (name N or name CA or name C or name O or name CB or name CG or name OD1)) or resseq 49:60 or (resid 61 and (name N or name CA or name C or name O or name CB )) or resseq 62 or (resid 74 and (name N or name CA or name C or name O or name CB or name CG or name OD1)) or resseq 75:87 or (resid 88 and (name N or name CA or name C or name O or name CB or name CG or name CD or name NE2)) or resseq 89:90 or (resid 91 and (name N or name CA or name C or name O or name CB or name CG or name CD1 or name CE1 or name CZ )) or resseq 92:96 or (resid 97 and (name N or name CA or name C or name O or name CB or name CG or name OD1)) or resseq 98:102 or resseq 104:105 or (resid 106 and (name N or name CA or name C or name O or name CB )) or resseq 107:111 or (resid 112 and (name N or name CA or name C or name O or name CB or name CG or name OD1)) or resseq 113:114 or resseq 116:137 or (resid 138 and (name N or name CA or name C or name O or name CB )) or resseq 139:157 or (resid 158 and (name N or name CA or name C or name O or name CB )) or resseq 163))

(chain B and (resseq 1 or (resid 2 and (name N or name CA or name C or name O or name CB or name CG or name OD1)) or resseq 3:13 or (resid 14 and (name N or name CA or name C or name O or name CB or name CG or name CD1)) or resseq 15:17 or resseq 19:34 or resseq 39:47 or (resid 48 and (name N or name CA or name C or name O or name CB or name CG or name OD1)) or resseq 49:62 or (resid 74 and (name N or name CA or name C or name O or name CB or name CG or name OD1)) or resseq 75:87 or (resid 88 and (name N or name CA or name C or name O or name CB or name CG or name CD or name NE2)) or resseq 89:90 or (resid 91 and (name N or name CA or name C or name O or name CB or name CG or name CD1 or name CE1 or name CZ )) or resseq 92:96 or (resid 97 and (name N or name CA or name C or name O or name CB or name CG or name OD1)) or resseq 98:102 or resseq 104:111 or (resid 112 and (name N or name CA or name C or name O or name CB or name CG or name OD1)) or resseq 113:114 or resseq 116:158 or resseq 163))

(chain C and (resseq 1 or (resid 2 and (name N or name CA or name C or name O or name CB or name CG or name OD1)) or resseq 3:13 or (resid 14 and (name N or name CA or name C or name O or name CB or name CG or name CD1)) or resseq 15:17 or resseq 19:27 or (resid 28 and (name N or name CA or name C or name O or name CB )) or resseq 29:30 or (resid 31 and (name N or name CA or name C or name O or name CB )) or resseq 32 or (resid 33 and (name N or name CA or name C or name O or name CB )) or (resid 34 and (name N or name CA or name C or name O or name CB )) or resseq 39:47 or (resid 48 and (name N or name CA or name C or name O or name CB or name CG or name OD1)) or resseq 49:62 or (resid 74 and (name N or name CA or name C or name O or name CB or name CG or name OD1)) or resseq 75:87 or (resid 88 and (name N or name CA or name C or name O or name CB or name CG or name CD or name NE2)) or resseq 89:90 or (resid 91 and (name N or name CA or name C or name O or name CB or name CG or name CD1 or name CE1 or name CZ )) or resseq 92:96 or (resid 97 and (name N or name CA or name C or name O or name CB or name CG or name OD1)) or resseq 98:102 or resseq 104:111 or (resid 112 and (name N or name CA or name C or name O or name CB or name CG or name OD1)) or resseq 113:114 or resseq 116:158 or resseq 163))

The largest off-origin peak in the Patterson function is 6.46% 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