A Suite of Engineered GFP Molecules for Oligomeric Scaffolding

Adams, 2010, PHENIX: a comprehensive Python-based system for macromolecular structure solution, Acta Crystallogr. D Biol. Crystallogr., 66, 213, 10.1107/S0907444909052925 Banatao, 2006, An approach to crystallizing proteins by synthetic symmetrization, Proc. Natl. Acad. Sci. USA, 103, 16230, 10.1073/pnas.0607674103 Cabantous, 2005, Protein tagging and detection with engineered self-assembling fragments of green fluorescent protein, Nat. Biotechnol., 23, 102, 10.1038/nbt1044 Cabantous, 2013, A new protein-protein interaction sensor based on tripartite split-GFP association, Sci. Rep., 3, 2854, 10.1038/srep02854 Carugo, 2005, When X-rays modify the protein structure: radiation damage at work, Trends Biochem. Sci., 30, 213, 10.1016/j.tibs.2005.02.009 Chruszcz, 2008, Analysis of solvent content and oligomeric states in protein crystals—does symmetry matter?, Protein Sci., 17, 623, 10.1110/ps.073360508 Colovos, 1993, Verification of protein structures: patterns of nonbonded atomic interactions, Protein Sci., 2, 1511, 10.1002/pro.5560020916 Conrado, 2008, Engineering the spatial organization of metabolic enzymes: mimicking nature’s synergy, Curr. Opin. Biotechnol., 19, 492, 10.1016/j.copbio.2008.07.006 Corsini, 2008, Thioredoxin as a fusion tag for carrier-driven crystallization, Protein Sci., 17, 2070, 10.1110/ps.037564.108 Davis, 2007, MolProbity: all-atom contacts and structure validation for proteins and nucleic acids, Nucleic Acids Res., 35, W375, 10.1093/nar/gkm216 Der, 2012, Metal-mediated affinity and orientation specificity in a computationally designed protein homodimer, J. Am. Chem. Soc., 134, 375, 10.1021/ja208015j Derewenda, 2006, Entropy and surface engineering in protein crystallization, Acta Crystallogr. D Biol. Crystallogr., 62, 116, 10.1107/S0907444905035237 Dueber, 2009, Synthetic protein scaffolds provide modular control over metabolic flux, Nat. Biotechnol., 27, 753, 10.1038/nbt.1557 Emsley, 2010, Features and development of Coot, Acta Crystallogr. D Biol. Crystallogr., 66, 486, 10.1107/S0907444910007493 Forse, 2011, Synthetic symmetrization in the crystallization and structure determination of CelA from Thermotoga maritima, Protein Sci., 20, 168, 10.1002/pro.550 Gibson, 1969, Chemistry of formic acid and its simple derivatives, Chem. Rev., 69, 673, 10.1021/cr60261a005 Gibson, 2009, Enzymatic assembly of DNA molecules up to several hundred kilobases, Nat. Methods, 6, 343, 10.1038/nmeth.1318 Good, 2011, Scaffold proteins: hubs for controlling the flow of cellular information, Science, 332, 680, 10.1126/science.1198701 Huang, 2009, Complementation and reconstitution of fluorescence from circularly permuted and truncated green fluorescent protein, Biochemistry, 48, 929, 10.1021/bi802027g Joosten, 2011, Automatic rebuilding and optimization of crystallographic structures in the Protein Data Bank, Bioinformatics, 27, 3392, 10.1093/bioinformatics/btr590 Kabsch, 2010, XDS, Acta Crystallogr. D Biol. Crystallogr., 66, 125, 10.1107/S0907444909047337 Katz, 1986, The crystallographically determined structures of atypical strained disulfides engineered into subtilisin, J. Biol. Chem., 261, 15480, 10.1016/S0021-9258(18)66737-7 Laganowsky, 2011, An approach to crystallizing proteins by metal-mediated synthetic symmetrization, Protein Sci., 20, 1876, 10.1002/pro.727 Lai, 2012, Principles for designing ordered protein assemblies, Trends Cell Biol., 22, 653, 10.1016/j.tcb.2012.08.004 Laskowski, 1993, Procheck—a program to check the stereochemical quality of protein structures, J. Appl. Crystallogr., 26, 283, 10.1107/S0021889892009944 Lee, 2012, Spatial organization of enzymes for metabolic engineering, Metab. Eng., 14, 242, 10.1016/j.ymben.2011.09.003 Luthy, 1992, Assessment of protein models with three-dimensional profiles, Nature, 356, 83, 10.1038/356083a0 March, 2003, Biotechnological applications of green fluorescent protein, Appl. Microbiol. Biotechnol., 62, 303, 10.1007/s00253-003-1339-y McCoy, 2007, Phaser crystallographic software, J. Appl. Crystallogr., 40, 658, 10.1107/S0021889807021206 Moon, 2010, A synergistic approach to protein crystallization: combination of a fixed-arm carrier with surface entropy reduction, Protein Sci., 19, 901, 10.1002/pro.368 Nguyen, 2014, Split green fluorescent protein as a modular binding partner for protein crystallization, Acta Crystallogr. D Biol. Crystallogr., 69, 2513, 10.1107/S0907444913024608 Painter, 2006, Optimal description of a protein structure in terms of multiple groups undergoing TLS motion, Acta Crystallogr. D Biol. Crystallogr., 62, 439, 10.1107/S0907444906005270 Pédelacq, 2006, Engineering and characterization of a superfolder green fluorescent protein, Nat. Biotechnol., 24, 79, 10.1038/nbt1172 Salgado, 2008, Metal-mediated self-assembly of protein superstructures: influence of secondary interactions on protein oligomerization and aggregation, J. Am. Chem. Soc., 130, 6082, 10.1021/ja8012177 Salgado, 2010, Metal templated design of protein interfaces, Proc. Natl. Acad. Sci. USA, 107, 1827, 10.1073/pnas.0906852107 Stacy, 2011, Structural genomics of infectious disease drug targets: the SSGCID, Acta Crystallogr. F Struct. Biol. Cryst. Commun., 67, 979, 10.1107/S1744309111029204 Studier, 2005, Protein production by auto-induction in high-density shaking cultures, Protein Expr. Purif., 41, 207, 10.1016/j.pep.2005.01.016 Sundstrom, 2006 Suzuki, 2010, Crystallization of small proteins assisted by green fluorescent protein, Acta Crystallogr. D Biol. Crystallogr., 66, 1059, 10.1107/S0907444910032944 Torres, 2011, The STARD9/Kif16a kinesin associates with mitotic microtubules and regulates spindle pole assembly, Cell, 147, 1309, 10.1016/j.cell.2011.11.020 Weik, 2000, Specific chemical and structural damage to proteins produced by synchrotron radiation, Proc. Natl. Acad. Sci. USA, 97, 623, 10.1073/pnas.97.2.623 Winn, 2011, Overview of the CCP4 suite and current developments, Acta Crystallogr. D Biol. Crystallogr., 67, 235, 10.1107/S0907444910045749 Zeke, 2009, Scaffolds: interaction platforms for cellular signalling circuits, Trends Cell Biol., 19, 364, 10.1016/j.tcb.2009.05.007 Zou, 2012, N-Terminal T4 lysozyme fusion facilitates crystallization of a G protein coupled receptor, PLoS One, 7, e46039, 10.1371/journal.pone.0046039