Iterative-build OMIT maps: map improvement by iterative model building and refinement without model bias.
A procedure for carrying out iterative model building, density modification and refinement is presented in which the density in an OMIT region is essentially unbiased by an atomic model. Density from a set of overlapping OMIT regions can be combined to create a composite 'iterative-build' OMIT map that is everywhere unbiased by an atomic model but also everywhere benefiting from the model-based information present elsewhere in the unit cell. The procedure may have applications in the validation of specific features in atomic models as well as in overall model validation. The procedure is demonstrated with a molecular-replacement structure and with an experimentally phased structure and a variation on the method is demonstrated by removing model bias from a structure from the Protein Data Bank.
Terwilliger
Thomas C
TC
Los Alamos National Laboratory, Los Alamos, NM 87545, USA. terwilliger@lanl.gov
Grosse-Kunstleve
Ralf W
RW
Afonine
Pavel V
PV
Moriarty
Nigel W
NW
Adams
Paul D
PD
Read
Randy J
RJ
Zwart
Peter H
PH
Hung
Li-Wei
LW
D018360:Crystallography, X-Ray / Q000379:methods; D008958:Models, Molecular; D017433:Protein Structure, Secondary; D012996:Solutions; D000515:alpha 1-Antitrypsin / Q000737:chemistry
D012996:Solutions; D000515:alpha 1-Antitrypsin