MBP-binding DARPins facilitate the crystallization of an MBP fusion protein

Gumpena, Rajesh; Lountos, George T.; Waugh, David S.

doi:10.1107/S2053230X18009901

Title: MBP-binding DARPins facilitate the crystallization of an MBP fusion protein

Journal Article · Wed Aug 29 00:00:00 EDT 2018 · Acta Crystallographica. Section F, Structural Biology Communications

DOI:https://doi.org/10.1107/S2053230X18009901· OSTI ID:1467532

Gumpena, Rajesh; Lountos, George T.; Waugh, David S.

The production of high-quality crystals is the main bottleneck in determining the structures of proteins using X-ray crystallography. In addition to being recognized as a very effective solubility-enhancing fusion partner, Escherichia coli maltose-binding protein (MBP) has also been successfully employed as a `fixed-arm' crystallization chaperone in more than 100 cases. Here, it is reported that designed ankyrin-repeat proteins (DARPins) that bind with high affinity to MBP can promote the crystallization of an MBP fusion protein when the fusion protein alone fails to produce diffraction-quality crystals. As a proof of principle, three different co-crystal structures of MBP fused to the catalytic domain of human dual-specificity phosphatase 1 in complex with DARPins are reported.

View Journal Article

Cite

Export

Save

Sponsoring Organization:: USDOE

OSTI ID:: 1467532

Journal Information:: Acta Crystallographica. Section F, Structural Biology Communications, Journal Name: Acta Crystallographica. Section F, Structural Biology Communications Vol. 74 Journal Issue: 9; ISSN 2053-230X

Publisher:: International Union of Crystallography (IUCr)Copyright Statement

Country of Publication:: United Kingdom

Language:: English

Citation Metrics:

Cited by: 3 works

Citation information provided by
Web of Science

References (27)

Protein-protein crystal-packing contacts Carugo, Oliviero; Argos, Patrick Protein Science, Vol. 6, Issue 10 https://doi.org/10.1002/pro.5560061021	journal	October 1997
A synergistic approach to protein crystallization: Combination of a fixed-arm carrier with surface entropy reduction Moon, Andrea F.; Mueller, Geoffrey A.; Zhong, Xuejun Protein Science https://doi.org/10.1002/pro.368	journal	January 2010
A Dominant Conformational Role for Amino Acid Diversity in Minimalist Protein–Protein Interfaces Gilbreth, Ryan N.; Esaki, Kaori; Koide, Akiko Journal of Molecular Biology, Vol. 381, Issue 2 https://doi.org/10.1016/j.jmb.2008.06.014	journal	August 2008
A Maltose-Binding Protein Fusion Construct Yields a Robust Crystallography Platform for MCL1 Clifton, Matthew C.; Dranow, David M.; Leed, Alison PLOS ONE, Vol. 10, Issue 4 https://doi.org/10.1371/journal.pone.0125010	journal	April 2015
The family-wide structure and function of human dual-specificity protein phosphatases Jeong, Dae Gwin; Wei, Chun Hua; Ku, Bonsu Acta Crystallographica Section D Biological Crystallography, Vol. 70, Issue 2 https://doi.org/10.1107/S1399004713029866	journal	January 2014
Sgf29 binds histone H3K4me2/3 and is required for SAGA complex recruitment and histone H3 acetylation: Sgf29 functions as an H3K4me2/3 binder in SAGA Bian, Chuanbing; Xu, Chao; Ruan, Jianbin The EMBO Journal, Vol. 30, Issue 14 https://doi.org/10.1038/emboj.2011.193	journal	June 2011
HKL -3000: the integration of data reduction and structure solution – from diffraction images to an initial model in minutes Minor, Wladek; Cymborowski, Marcin; Otwinowski, Zbyszek Acta Crystallographica Section D Biological Crystallography, Vol. 62, Issue 8 https://doi.org/10.1107/S0907444906019949	journal	July 2006
Enhanced Crystallizability by Protein Engineering Approaches: A General Overview Ruggiero, Alessia; Smaldone, Giovanni; Squeglia, Flavia Protein & Peptide Letters, Vol. 19, Issue 7 https://doi.org/10.2174/092986612800793172	journal	May 2012
MolProbity : all-atom structure validation for macromolecular crystallography Chen, Vincent B.; Arendall, W. Bryan; Headd, Jeffrey J. Acta Crystallographica Section D Biological Crystallography, Vol. 66, Issue 1 https://doi.org/10.1107/S0907444909042073	journal	December 2009
Coot model-building tools for molecular graphics Emsley, Paul; Cowtan, Kevin Acta Crystallographica Section D Biological Crystallography, Vol. 60, Issue 12, p. 2126-2132 https://doi.org/10.1107/S0907444904019158	journal	November 2004
Towards automated crystallographic structure refinement with phenix.refine Afonine, Pavel V.; Grosse-Kunstleve, Ralf W.; Echols, Nathaniel Acta Crystallographica Section D Biological Crystallography, Vol. 68, Issue 4 https://doi.org/10.1107/S0907444912001308	journal	March 2012
PROCHECK: a program to check the stereochemical quality of protein structures Laskowski, R. A.; MacArthur, M. W.; Moss, D. S. Journal of Applied Crystallography, Vol. 26, Issue 2 https://doi.org/10.1107/S0021889892009944	journal	April 1993
The structure of the dust mite allergen Der p 7 reveals similarities to innate immune proteins Mueller, Geoffrey A.; Edwards, Lori L.; Aloor, Jim J. Journal of Allergy and Clinical Immunology, Vol. 125, Issue 4 https://doi.org/10.1016/j.jaci.2009.12.016	journal	April 2010
Crystal structures of MBP fusion proteins: Structures of MBP Fusion Proteins Waugh, David S. Protein Science, Vol. 25, Issue 3 https://doi.org/10.1002/pro.2863	journal	January 2016
Toward a Molecular Understanding of the Interaction of Dual Specificity Phosphatases with Substrates: Insights from Structure-Based Modeling and High Throughput Screening Bakan, Ahmet; Lazo, John; Wipf, Peter Current Medicinal Chemistry, Vol. 15, Issue 25 https://doi.org/10.2174/092986708785909003	journal	October 2008
Protein crystallization by rational mutagenesis of surface residues: Lys to Ala mutations promote crystallization of RhoGDI Longenecker, Kenton L.; Garrard, Sarah M.; Sheffield, Peter J. Acta Crystallographica Section D Biological Crystallography, Vol. 57, Issue 5 https://doi.org/10.1107/S0907444901003122	journal	April 2001
Crystal structure of the human dual specificity phosphatase 1 catalytic domain: Crystal Structure of the DUSP1 Catalytic Domain Gumpena, Rajesh; Lountos, George T.; Raran-Kurussi, Sreejith Protein Science, Vol. 27, Issue 2 https://doi.org/10.1002/pro.3328	journal	November 2017
Protein crystallization by surface entropy reduction: optimization of the SER strategy Cooper, David R.; Boczek, Tomasz; Grelewska, Katarzyna Acta Crystallographica Section D Biological Crystallography, Vol. 63, Issue 5 https://doi.org/10.1107/S0907444907010931	journal	April 2007
Inference of Macromolecular Assemblies from Crystalline State Krissinel, Evgeny; Henrick, Kim Journal of Molecular Biology, Vol. 372, Issue 3 https://doi.org/10.1016/j.jmb.2007.05.022	journal	September 2007
LigPlot+: Multiple Ligand–Protein Interaction Diagrams for Drug Discovery Laskowski, Roman A.; Swindells, Mark B. Journal of Chemical Information and Modeling, Vol. 51, Issue 10 https://doi.org/10.1021/ci200227u	journal	October 2011
High-affinity binders selected from designed ankyrin repeat protein libraries Binz, H. Kaspar; Amstutz, Patrick; Kohl, Andreas Nature Biotechnology, Vol. 22, Issue 5, p. 575-582 https://doi.org/10.1038/nbt962	journal	April 2004
The protein as a variable in protein crystallization Dale, Glenn E.; Oefner, Christian; D’Arcy, Allan Journal of Structural Biology, Vol. 142, Issue 1 https://doi.org/10.1016/S1047-8477(03)00041-8	journal	April 2003
Crystal structure of the catalytic domain of human MKP-2 reveals a 24-mer assembly Jeong, Dae Gwin; Jung, Suk-Kyeong; Yoon, Tae-Sung Proteins: Structure, Function, and Bioinformatics, Vol. 76, Issue 3 https://doi.org/10.1002/prot.22423	journal	August 2009
Design of an expression system to enhance MBP-mediated crystallization Jin, Tengchuan; Chuenchor, Watchalee; Jiang, Jiansheng Scientific Reports, Vol. 7, Issue 1 https://doi.org/10.1038/srep40991	journal	January 2017
Phaser crystallographic software McCoy, Airlie J.; Grosse-Kunstleve, Ralf W.; Adams, Paul D. Journal of Applied Crystallography, Vol. 40, Issue 4 https://doi.org/10.1107/S0021889807021206	journal	July 2007
To fuse or not to fuse: What is your purpose?: Protein Fusion Technology Bell, Mark R.; Engleka, Mark J.; Malik, Asim Protein Science, Vol. 22, Issue 11 https://doi.org/10.1002/pro.2356	journal	September 2013
Distinct Binding Determinants for ERK2/p38α and JNK MAP Kinases Mediate Catalytic Activation and Substrate Selectivity of MAP Kinase Phosphatase-1 Slack, David N.; Seternes, Ole-Morten; Gabrielsen, Mads Journal of Biological Chemistry, Vol. 276, Issue 19 https://doi.org/10.1074/jbc.M010966200	journal	January 2001

Similar Records

MBP-binding DARPins facilitate the crystallization of an MBP fusion protein

Journal Article · Wed Aug 29 00:00:00 EDT 2018 · Acta Crystallographica. Section F, Structural Biology Communications · OSTI ID:1467532

Gumpena, Rajesh; Lountos, George T.; Waugh, David S.

Structure, function, and evolution of bacterial ATP-binding cassette systems

Journal Article · Tue Jul 27 00:00:00 EDT 2010 · Microbiol. Mol. Biol R. · OSTI ID:1467532

Davidson, A L; Dassa, E; Orelle, C; +1 more

Galectin-1 as a fusion partner for the production of soluble and folded human {beta}-1,4-galactosyltransferase-T7 in E. coli

Journal Article · Fri Apr 09 00:00:00 EDT 2010 · Biochemical and Biophysical Research Communications · OSTI ID:1467532

Pasek, Marta; Boeggeman, Elizabeth; Ramakrishnan, Boopathy

Title: MBP-binding DARPins facilitate the crystallization of an MBP fusion protein

Citation Formats

References (27)

Similar Records

Related Subjects