PROTEIN DOWNSTREAM PROCESSING design, development and application of high. PDF
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Methods in Molecular Biology 2178 Nikolaos E. Labrou Editor Protein Downstream Processing Design, Development, and Application of High and Low-Resolution Methods Second Edition M M B ETHODS IN OLECULAR IO LO GY SeriesEditor JohnM.Walker School of Lifeand MedicalSciences University ofHertfordshire Hatfield, Hertfordshire, UK Forfurther volumes: http://www.springer.com/series/7651 For over 35 years, biological scientists have come to rely on the research protocols and methodologiesinthecriticallyacclaimedMethodsinMolecularBiologyseries.Theserieswas thefirsttointroducethestep-by-stepprotocolsapproachthathasbecomethestandardinall biomedicalprotocolpublishing.Eachprotocolisprovidedinreadily-reproduciblestep-by- step fashion, opening with an introductory overview, a list of the materials and reagents neededtocompletetheexperiment,andfollowedbyadetailedprocedurethatissupported with a helpful notes section offering tips and tricks of the trade as well as troubleshooting advice. These hallmark features were introduced by series editor Dr. John Walker and constitutethekeyingredientineachandeveryvolumeoftheMethodsinMolecularBiology series. Tested and trusted, comprehensive and reliable, all protocols from the series are indexedinPubMed. Protein Downstream Processing Design, Development, and Application of High and Low-Resolution Methods Second Edition Edited by Nikolaos E. Labrou Laboratory of Enzyme Technology, Department of Biotechnology, School of Applied Biology and Biotechnology, Agricultural University of Athens, Athens, Greece Editor NikolaosE.Labrou LaboratoryofEnzymeTechnology DepartmentofBiotechnology SchoolofAppliedBiology andBiotechnology AgriculturalUniversityofAthens Athens,Greece ISSN1064-3745 ISSN1940-6029 (electronic) MethodsinMolecularBiology ISBN978-1-0716-0774-9 ISBN978-1-0716-0775-6 (eBook) https://doi.org/10.1007/978-1-0716-0775-6 ©SpringerScience+BusinessMedia,LLC,partofSpringerNature2021 Thisworkissubjecttocopyright.AllrightsarereservedbythePublisher,whetherthewholeorpartofthematerialis concerned,specificallytherightsoftranslation,reprinting,reuseofillustrations,recitation,broadcasting,reproduction onmicrofilmsorinanyotherphysicalway,andtransmissionorinformationstorageandretrieval,electronicadaptation, computersoftware,orbysimilarordissimilarmethodologynowknownorhereafterdeveloped. Theuseofgeneraldescriptivenames,registerednames,trademarks,servicemarks,etc.inthispublicationdoesnotimply, evenintheabsenceofaspecificstatement,thatsuchnamesareexemptfromtherelevantprotectivelawsandregulations andthereforefreeforgeneraluse. Thepublisher,theauthors,andtheeditorsaresafetoassumethattheadviceandinformationinthisbookarebelievedto betrueandaccurateatthedateofpublication.Neitherthepublishernortheauthorsortheeditorsgiveawarranty, expressedorimplied,withrespecttothematerialcontainedhereinorforanyerrorsoromissionsthatmayhavebeen made.Thepublisherremainsneutralwithregardtojurisdictionalclaimsinpublishedmapsandinstitutionalaffiliations. ThisHumanaimprintispublishedbytheregisteredcompanySpringerScience+BusinessMedia,LLC,partofSpringer Nature. Theregisteredcompanyaddressis:1NewYorkPlaza,NewYork,NY10004,U.S.A. Preface Proteinsarethemostdiversegroupofbiomoleculesthatarevitalforcellularstructureand function. The technological advances in the omics area and the efforts in proteomics researchhaveincreasedtherateofdiscoveringmanynewproteinswithunknownstructure andfunction.Thesenewlydiscoveredproteinspresentenormousopportunitiesforresearch andindustrialapplication.Thekeyfactor for theircommercialexploitationdependsonthe development ofan efficientand effective purificationprocedure. However, with thousands of proteins—each displaying unique characteristics—the development of purification stra- tegiesthatdelivertherequiredpurityneededfordownstreamapplicationsisimportant.The challenge,therefore,istoseparatetheproteinofinterestfromalloftheothercomponentsin the cell, especially the unwanted contaminating proteins, with reasonable efficiency, speed, and yield, while retaining the biological activity and chemical integrity of the polypeptide. Theincreasingrequirementfortheproductionofpureproteinsisforcingscientiststogaina thorough understanding of protein purification methods and gain abilities and knowledge toimprovecurrentanddevelopnewandmoreeffectivepurificationmethodsandprotocols. This volume, which is the second edition of Vol. 1129 (2014), is designed to give the laboratoryworkertheinformationneededtodesignandimplementasuccessfulpurification strategy.Itpresentsreliableandrobustprotocolsinaconciseform,emphasizingthecritical aspects on practical problems and questions encountered at the lab bench. Written in the highlysuccessfulMethodsinMolecularBiologyseriesformat,eachchapterprovidesintro- ductory material with an overview of the topic of interest; a description of methods, materials, and reagents; readily reproducible step-by-step protocols, a Notes section for tips on troubleshooting; and a collection of published data with an extensive list of refer- encesfor furtherdetails. This volume consists of thirty chapters. It is divided in five parts (I–V), each of which dealingwithdifferentapproachesandmethods.PartI startswithanoverviewofscreening anddesignofpurificationstrategiesandcoversinitialaspectsonhigh-throughputscreening, methodsdevelopment,andmediaselection.PartsIIandIIIofthisvolumeconcentrateon low-andhigh-resolutionproteinpurificationmethodsthatcurrentlyenjoyfrequentcitation intheliteraturewiththeemphasisbeingonaffinitychromatography.Informationonscale- upconsiderationsisgivenwhereappropriate.Asidefrommethodsrelateddirectlytopurifi- cation, this volume includes a description of analytical techniques of value in protein preparation.Forexample,muchspacehasbeenallowedinPartIVoncutting-edgeanalytical techniques of purified proteins. The last section (Part V) presents a few selected examples andcasestudies. It is impossible for a single book volume to cover all of the different methods, techni- ques, and applications of protein purification in which scientists have made significant progress. Thus, I have selected key examples covering a wide range of diverge scientific disciplinesandstate-of-the-artexperimentalapproaches,inordertoprovidethereaderwith arepresentativesampleofcurrentstatusofthefield. The present book would definitely be an ideal source of scientific information to advanced students, junior researchers, and scientists involved in health sciences, cellular andmolecularbiology,biochemistry,biotechnology,andotherrelatedareasinbothacade- miaandindustry. v vi Preface Isincerelyhopethatthereaderwillenjoytheinformationprovidedinthisbookandfind its contents interesting and scientifically stimulating. I also hope that I have established a successful compilation of chapters within the exciting area of protein purification. I would like to thank all contributing authors for their enthusiasm and for the time they spent preparingthechaptersfor thisbook.Iwouldalsoliketo thankDr.JohnWalker,theseries editor, for putting forward the idea of the book and for his help and encouragement, and everybodyatSpringer for theirhelpfuladvice,support,andprofessionalism.Withouttheir cooperation,thisvolumewouldhavenotseenthelight.Lastbutnotleast,Iwouldespecially like to thank my family for their understanding and patience during the editing and organizationofthechapters. Athens,Greece NikolaosE.Labrou Contents Preface ..................................................................... v Contributors................................................................. xi PART I SCREENING AND DESIGN PURIFICATION STRATEGIES 1 ProteinPurificationTechnologies......................................... 3 NikolaosE.Labrou 2 High-ThroughputProcessDevelopment:I—ProcessChromatography........ 11 AnuragS.RathoreandR.Bhambure 3 High-ThroughputProcessDevelopment:II—MembraneChromatography.... 21 AnuragS.RathoreandS.Muthukumar 4 MediaSelectioninIonExchangeChromatographyinaSingleMicroplate ..... 27 CharlotteCabanneandXavierSantarelli 5 High-ThroughputScreeningofDye-LigandsforChromatography ........... 35 SunilKumarandNarayanS.Punekar 6 TechnicalOptimizationfor theHigh-ThroughputPurification ofAntibodiesonAutomatedLiquidHandlers.............................. 49 PeterM.Schmidt PART II LOW-RESOLUTION PROTEIN PURIFICATION METHODS 7 AqueousTwo-PhaseSystemsforCleanupandRecovery ofEnzymesfromPlantsandPlant-DerivedExtracts......................... 65 OscarAguilar,ErickHeredia-Olea,EstherPerez-Carrillo, andMarcoRito-Palomares 8 AqueousTwo-Phase-AssistedPrecipitationofProteins:APlatform forIsolationofProcess-RelatedImpuritiesfromTherapeuticProteins......... 81 AnuragS.RathoreandR.Bhambure 9 RecombinantProteinsCo-ExpressedandCo-PurifiedinthePresence ofAntibodyFragments .................................................. 93 AriodeMarco PART III HIGH-RESOLUTION PROTEIN PURIFICATION METHODS 10 AffinityTagsinProteinPurificationandPeptideEnrichment: AnOverview........................................................... 107 AnaSofiaPina,I´risL.Batalha,AnaM.G.C.Dias, andAnaCecı´liaA.Roque 11 SyntheticLigandAffinityChromatographyPurificationofHumanSerum AlbuminandRelatedFusionProteins ..................................... 133 SharonWilliams,PhilMorton,andDevBaines vii viii Contents 12 Z :APurificationTagforSelectiveIon-ExchangeRecovery............... 149 basic MyHedhammar,JohanNilvebrant,andSophiaHober 13 AnOrthogonalFusionTagforEfficientProteinPurification................. 159 ˚ JohanNilvebrant,MikaelAstrand,andSophiaHober 14 BiomimeticAffinityLigandsforProteinPurification ........................ 167 ˆ IsabelT.SousaandM.AngelaTaipa 15 SynthesisandEvaluationofDye-LigandAffinityAdsorbents forProteinPurification.................................................. 201 EvangeliaG.Chronopoulou,GeorgiosPremetis,ChristinaVarotsou, NikolaosGeorgakis,ElisavetIoannou,andNikolaosE.Labrou 16 DesignofAffinityChromatographyPeptideLigandsThrough CombinatorialPeptideLibraryScreening.................................. 217 G.R.Barredo,S.L.Saavedra,M.C.Martı´nez-Ceron, S.L.Giudicessi,M.M.Marani,F.Albericio,O.Cascone, andS.A.Camperi 17 Z :AProteinA-DerivedDomainwithCalcium-Dependent Ca AffinityforMildAntibodyPurification .................................... 245 JuliaScheffel,SaraKanje,andSophiaHober 18 MacroporousPolymerMonolithsforAffinityChromatography andSolid-PhaseEnzymeProcessing....................................... 251 E.G.Korzhikova-Vlakh,G.A.Platonova,andT.B.Tennikova 19 SampleDisplacementBatchChromatographyofProteins.................... 285 LauraHeikaus,SitiHidayah,ManasiaGaikwad,MartaKotasinska, VerenaRichter,MarcelKwiatkowski,andHartmutSchlu¨ter 20 LectinAffinityChromatography:AnEfficientMethod toPurifyHorseIgG3 ................................................... 301 Salvatore G.De-SimoneandDavidW.ProvanceJr. 21 Heparin-BindingAffinityTag:ANovelAffinityTagforSimple andEfficientPurificationofRecombinantProteins.......................... 311 SanhitaMaity,MusaabAl-Ameer,RaviKumarGundampati,Shilpi Agrawal,andThallapuranamKrishnaswamySureshKumar 22 ExpressionandPurificationofRecombinantProteinsinEscherichia coliTaggedwiththeMetal-BindingProteinsSmbPandCusF3H+............ 329 JessicaJ.Gomez-Lugo,BryanD.Santos,DavidA.Perez-Perez,JorgeM. Montfort-Gardeazabal,MeganM.McEvoy,andXristoZarate 23 AntibodyAggregateRemovalUsingaMixed-ModeChromatography Resin.................................................................. 345 TaoChen,GailiGuo,GuoqingTan,YingWang,andYifengLi PART IV ASSESSING PROTEIN STRUCTURAL INTEGRITY, PURITY, AND STABILIZATION 24 ProteomicAnalysisofFoodAllergensbyMALDITOF/TOF MassSpectrometry...................................................... 357 CosimaD.Calvano,MariachiaraBianco,IlarioLosito, andTommasoR.I.Cataldi Contents ix 25 ProteinStructureAnalysisandValidationwithX-RayCrystallography......... 377 AnastassiosC.Papageorgiou,NirmalPoudel,andJesseMattsson 26 MeasuringBindingConstantsofHis-TaggedProteinsUsingAffinity ChromatographyandNi-NTAImmobilizedEnzymes....................... 405 AnnetteC.Moser,BenjaminWhite,andFrankA.Kovacs 27 StabilizationofProteinsbyFreeze-DryinginthePresenceofTrehalose: ACaseStudyofTubulin................................................. 417 PavelDra´ber,VadymSulimenko,TetyanaSulimenko,andEduarda Dra´berova´ PART V APPLICATIONS/CASE STUDIES 28 G-Protein-CoupledReceptorExpressionandPurification ................... 439 KarolinaCorin,LottaT.Tegler,andSotiriosKoutsopoulos 29 (Hyper)ThermophilicEnzymes:ProductionandPurification................. 469 PierpaoloFalcicchio,MarkLevisson,Serve´W.M.Kengen,Sotirios Koutsopoulos,andJohnvanderOost 30 ScreeningofRecombinantLignocellulolyticEnzymesThrough RapidPlateAssays ...................................................... 479 AnthiKarnaouri,AnastasiaZerva,PaulChristakopoulos, andEvangelosTopakas Index ...................................................................... 505
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