The Structural Genomics of Pathogenic Protozoa (SGPP) consortium aims to achieve high-throughput determination of protein structures from pathogenic protozoa of major global medical relevance. These include several species of Trypanosomatids, responsible for sleeping sickness, Chagas' disease, and cutaneous, visceral and mucocutaneous leishmaniasis; and Plasmodium falciparum, the causative agent of lethal malaria with several hundred million cases annually and one to two million deaths, mainly children. These organisms are only distantly related to other species and characterized by many unique biological features.
We aim to determine a total of NN soluble, heteromultimeric and membrane proteins. Special characteristics of the proposed research are: 1. Using protein structure prediction methods and medical relevance in target selection; 2. Rapid evaluation of expression levels and solubility of thousands of variants of proteins obtained by scrambled sequences from different strains; 3. Using two-hybrid methods to discover and solve structures of soluble heteromultimers; 4. Significant emphasis on membrane proteins with discovery, by two-hybrid methods and Fv phage libraria,of interacting soluble partner proteins to be used for co-crystallization and MAD phasing; 5. Intensive use of robotics in the crystallization, crystal mounting, data collection steps; 6. Development of bromine-containing co-crystallant libraries; 7. Exploring the power of crystal annealing in improving mosaicity and resolution; 8. Using predicted protein structures in electron density interpretation; 9. Using ligand docking procedures, deep sequence family alignments and very weak structural homologies to derive function from structure; 10. Create a SGPP website and a SGPP relational data base by which protocols for protein expression, purification, crystallization and structure determination, as well as coordinates and structure factors are made available to the public.

Agency
National Institute of Health (NIH)
Institute
National Institute of General Medical Sciences (NIGMS)
Type
Specialized Center (P50)
Project #
5P50GM064655-02
Application #
6526277
Study Section
Special Emphasis Panel (ZGM1-PS-0 (PS))
Program Officer
Norvell, John C
Project Start
2001-09-28
Project End
2005-08-31
Budget Start
2002-09-01
Budget End
2003-08-31
Support Year
2
Fiscal Year
2002
Total Cost
$5,792,549
Indirect Cost
Name
University of Washington
Department
Anatomy/Cell Biology
Type
Schools of Medicine
DUNS #
135646524
City
Seattle
State
WA
Country
United States
Zip Code
98195
Vu, Hoan; Pedro, Liliana; Mak, Tin et al. (2018) Fragment-Based Screening of a Natural Product Library against 62 Potential Malaria Drug Targets Employing Native Mass Spectrometry. ACS Infect Dis 4:431-444
Bosch, Jurgen; Paige, Matthew H; Vaidya, Akhil B et al. (2012) Crystal structure of GAP50, the anchor of the invasion machinery in the inner membrane complex of Plasmodium falciparum. J Struct Biol 178:61-73
Zucker, Frank H; Kim, Hae Young; Merritt, Ethan A (2012) PROSPERO: online prediction of crystallographic success from experimental results and sequence. J Appl Crystallogr 45:598-602
Shibata, Sayaka; Zhang, Zhongsheng; Korotkov, Konstantin V et al. (2011) Screening a fragment cocktail library using ultrafiltration. Anal Bioanal Chem 401:1585-91
Ojo, Kayode K; Arakaki, Tracy L; Napuli, Alberto J et al. (2011) Structure determination of glycogen synthase kinase-3 from Leishmania major and comparative inhibitor structure-activity relationships with Trypanosoma brucei GSK-3. Mol Biochem Parasitol 176:98-108
Brown, Hakeenah F; Wang, Ling; Khadka, Sudip et al. (2011) A densely overlapping gene fragmentation approach improves yeast two-hybrid screens for Plasmodium falciparum proteins. Mol Biochem Parasitol 178:56-9
Zucker, Frank H; Stewart, Christine; dela Rosa, Jaclyn et al. (2010) Prediction of protein crystallization outcome using a hybrid method. J Struct Biol 171:64-73
Larson, Eric T; Mudeppa, Devaraja G; Gillespie, J Robert et al. (2010) The crystal structure and activity of a putative trypanosomal nucleoside phosphorylase reveal it to be a homodimeric uridine phosphorylase. J Mol Biol 396:1244-59
LaCount, Douglas J; Schoenfeld, Lori W; Fields, Stanley (2009) Selection of yeast strains with enhanced expression of Plasmodium falciparum proteins. Mol Biochem Parasitol 163:119-22
Crowther, Gregory J; Napuli, Alberto J; Thomas, Andrew P et al. (2009) Buffer optimization of thermal melt assays of Plasmodium proteins for detection of small-molecule ligands. J Biomol Screen 14:700-7

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