Incorporation of Partial Structure Information in Macromolecular Crystallographic Phasing

dc.contributor.advisorSu, Wu-Pei
dc.contributor.committeeMemberHor, Pei-Herng
dc.contributor.committeeMemberJackson, David R.
dc.contributor.committeeMemberLi, Liming
dc.contributor.committeeMemberWood, Lowell T.
dc.creatorFang, Hengrui 1988-
dc.creator.orcid0000-0001-5854-8341 2017 2017
dc.description.abstractSolving the phase problem can be a limiting step in the structure determination of macromolecular X-ray crystallography. Recent development of the iterative projection algorithm shows that it is a promising tool for phase retrieval. Two approaches for enhancing the iterative projection algorithm are proposed in this thesis for solving the macromolecular crystallographic phase problem. When using a homologous molecule in the molecular replacement method to determine a new macromolecular structure, even if a proper template structure is positioned, the insufficient similarity between the template and target structures may cause its resistance to the conventional molecular replacement method. A modified phasing method is presented with better convergence properties and can effectively overcome the difference between the template and target structures. This is illustrated by the reconstruction of one trial structure, which has also been solved and analyzed in several subsequent molecular replacement methods studies. Uniqueness of the phase problem in macromolecular crystallography limits the ab initio phasing. To enlarge the the radius of convergence of the iterative projection algorithm in macromolecular crystallography, an enhanced density modification method is proposed by incorporating partial structure information. Four trial calculations show a variety of potential applications of this method in novel structure determination and model validation.
dc.description.departmentPhysics, Department of
dc.format.digitalOriginborn digital
dc.identifier.citationPortions of this document appear in: He, Hongxing, Hengrui Fang, Mitchell D. Miller, George N. Phillips Jr, and W-P. Su. "Improving the efficiency of molecular replacement by utilizing a new iterative transform phasing algorithm." Acta Crystallographica Section A: Foundations and Advances 72, no. 5 (2016): 539-547.
dc.rightsThe author of this work is the copyright owner. UH Libraries and the Texas Digital Library have their permission to store and provide access to this work. UH Libraries has secured permission to reproduce any and all previously published materials contained in the work. Further transmission, reproduction, or presentation of this work is prohibited except with permission of the author(s).
dc.subjectX-ray crystallography
dc.subjectPhase problem
dc.subjectPartial structure
dc.subjectAb initio phasing
dc.titleIncorporation of Partial Structure Information in Macromolecular Crystallographic Phasing
dc.type.genreThesis of Natural Sciences and Mathematics, Department of of Houston of Philosophy


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