wwPDB validation report of PDB entry 7AQM

Adenosine 5'-diphosphoric acid beta-[(3beta,4beta-dihydroxy-5beta-methoxytetrahydrofuran-2alpha-yl)methyl] estere

ADP-ribosylserine hydrolase ARH3 of Latimeria chalumnae in complex with alpha-1''-O-methyl-ADP-ribose (meADPr)

(chain A and (resid 8 through 34 or (resid 35 through 37 and (name N or name CA or name C or name O or name CB )) or resid 38 through 54 or (resid 55 through 56 and (name N or name CA or name C or name O or name CB )) or resid 57 through 77 or (resid 78 through 79 and (name N or name CA or name C or name O or name CB or name CG or name CD )) or resid 80 through 94 or (resid 95 through 96 and (name N or name CA or name C or name O or name CB or name CG )) or resid 97 through 151 or (resid 152 and (name N or name CA or name C or name O or name CB )) or resid 153 through 188 or resid 190 or (resid 191 through 193 and (name N or name CA or name C or name O or name CB )) or resid 194 through 209 or resid 230 through 236 or (resid 237 and (name N or name CA or name C or name O or name CB )) or resid 238 through 248 or (resid 249 through 250 and (name N or name CA or name C or name O or name CB )) or resid 251 through 277 or (resid 278 and (name N or name CA or name C or name O or name CB )) or resid 280 through 339 or resid 341 through 346 or resid 348 through 353 or resid 401 through 501))

(chain B and (resid 8 through 53 or (resid 54 through 56 and (name N or name CA or name C or name O or name CB )) or resid 57 through 82 or (resid 83 and (name N or name CA or name C or name O or name CB )) or resid 84 through 113 or (resid 114 and (name N or name CA or name C or name O or name CB )) or resid 115 through 116 or (resid 117 and (name N or name CA or name C or name O or name CB )) or resid 118 through 129 or (resid 130 and (name N or name CA or name C or name O or name CB )) or resid 131 through 188 or resid 190 through 201 or (resid 202 and (name N or name CA or name C or name O or name CB )) or resid 203 through 205 or (resid 206 and (name N or name CA or name C or name O or name CB )) or resid 207 through 209 or resid 230 through 235 or (resid 236 through 237 and (name N or name CA or name C or name O or name CB )) or resid 238 or (resid 239 through 240 and (name N or name CA or name C or name O or name CB )) or resid 241 through 259 or (resid 260 through 262 and (name N or name CA or name C or name O or name CB )) or resid 263 through 278 or resid 280 through 339 or resid 341 through 343 or (resid 344 and (name N or name CA or name C or name O or name CB or name CG )) or resid 345 through 346 or resid 348 through 350 or (resid 351 and (name N or name CA or name C or name O or name CB )) or resid 352 through 353 or resid 401 through 501))

The analyses of the Patterson function reveals a significant off-origin peak that is 38.95 % of the origin peak, indicating pseudo-translational symmetry. The chance of finding a peak of this or larger height by random in a structure without pseudo-translational symmetry is equal to 3.4163e-04. The detected translational NCS is most likely also responsible for the elevated intensity ratio. See the relevant section of the logfile for more details.

structure factor analysis and validation

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

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