Abstract
Transport of solutes across biological membranes is essential for cellular life. This process is mediated by membrane transport proteins which move nutrients, waste products, certain drugs and ions into and out of cells. Secondary active transporters couple the transport of substrates against their concentration gradients with the transport of other solutes down their concentration gradients. The alternating access model of membrane transporters and the coupling mechanism of secondary active transporters are introduced in this book chapter. Structural studies have identified typical protein folds for transporters that we exemplify by the major facilitator superfamily (MFS) and LeuT folds. Finally, substrate binding and substrate translocation of the transporters LacY of the MFS and AdiC of the amino acid-polyamine-organocation (APC) superfamily are described.
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References
Abramson J, Wright EM (2009) Structure and function of Na+-symporters with inverted repeats. Curr Opin Struct Biol 19:425–432
Abramson J, Smirnova I, Kasho V, Verner G, Kaback HR, Iwata S (2003) Structure and mechanism of the lactose permease of Escherichia coli. Science 301:610–615
Andersson M, Bondar A-N, Freites JA, Tobias DJ, Kaback HR, White SH (2012) Proton-coupled dynamics in lactose permease. Structure 20:1893–1904
Blattner FR (1997) The complete genome sequence of Escherichia coli K-12. Science 277:1453–1462
Boggavarapu R, Jeckelmann J-M, Harder D, Ucurum Z, Fotiadis D (2015) Role of electrostatic interactions for ligand recognition and specificity of peptide transporters. BMC Biol 13:58
Busch W, Saier MH (2008) The transporter classification (TC) system, 2002. Crit Rev Biochem Mol Biol 37:287–337
Carrasco N, Antes LM, Poonian MS, Kaback HR (1986a) Lac permease of Escherichia coli: histidine-322 and glutamic acid-325 may be components of a charge-relay system. Biochemistry 25:4486–4488
Carrasco N, Puttner IB, Antes LM, Lee JA, Larigan JD, Lolkema JS, Roepe PD, Kaback HR (1986b) Characterization of site-directed mutants in the lac permease of Escherichia coli. 2. Glutamate-325 replacements. Biochemistry 28:2533–2539
Casagrande F, Ratera M, Schenk AD, Chami M, Valencia E, Lopez JM, Torrents D, Engel A, Palacin M, Fotiadis D (2008) Projection structure of a member of the amino acid/polyamine/organocation transporter superfamily. J Biol Chem 283:33240–33248
Chaptal V, Kwon S, Sawaya MR, Guan L, Kaback HR, Abramson J (2011) Crystal structure of lactose permease in complex with an affinity inactivator yields unique insight into sugar recognition. Proc Natl Acad Sci USA 108:9361–9366
Dang S, Sun L, Huang Y, Lu F, Liu Y, Gong H, Wang J, Yan N (2010) Structure of a fucose transporter in an outward-open conformation. Nature 467:734–738
Doki S, Kato HE, Solcan N, Iwaki M, Koyama M, Hattori M, Iwase N, Tsukazaki T, Sugita Y, Kandori H, Newstead S, Ishitani R, Nureki O (2013) Structural basis for dynamic mechanism of proton-coupled symport by the peptide transporter POT. Proc Natl Acad Sci USA 110:11343–11348
Dougherty DA (1996) Cation–π interactions in chemistry and biology: a new view of benzene, Phe, Tyr, and Trp. Science 271:163–168
Dougherty DA (2013) The Cation–π interaction. Acc Chem Res 46:885–893
Drew D, Boudker O (2016) Shared molecular mechanisms of membrane transporters. Annu Rev Biochem 85:543–572
Erni B (2013) The bacterial phosphoenolpyruvate: sugar phosphotransferase system (PTS): an interface between energy and signal transduction. J Iran Chem Soc 10:593–630
Ethayathulla AS, Yousef MS, Amin A, Leblanc G, Kaback HR, Guan L (2014) Structure-based mechanism for Na+/melibiose symport by MelB. Nat Commun 5:3009
Fang Y, Jayaram H, Shane T, Kolmakova-Partensky L, Wu F, Williams C, Xiong Y, Miller C (2009) Structure of a prokaryotic virtual proton pump at 3.2 Å resolution. Nature 460:1040–1043
Forrest LR, Rudnick G (2009) The rocking bundle: a mechanism for ion-coupled solute flux by symmetrical transporters. Physiology 24:377–386
Forrest LR, Krämer R, Ziegler C (2011) The structural basis of secondary active transport mechanisms. Biochim Biophys Acta 1807:167–188
Foster JW (2004) Escherichia coli acid resistance: tales of an amateur acidophile. Nat Rev Micro 2:898–907
Fowler PW, Orwick-Rydmark M, Radestock S, Solcan N, Dijkman PM, Lyons JA, Kwok J, Caffrey M, Watts A, Forrest LR, Newstead S (2015) Gating topology of the proton-coupled oligopeptide symporters. Structure 23:290–301
Frillingos S, Sahin-Tóth M, Wu J, Kaback HR (1998) Cys-scanning mutagenesis: a novel approach to structure–function relationships in polytopic membrane proteins. FASEB J 12:1281–1299
Fukuda M, Takeda H, Kato HE, Doki S, Ito K, Maturana AD, Ishitani R, Nureki O (2015) Structural basis for dynamic mechanism of nitrate/nitrite antiport by NarK. Nat Commun 6:190
Gallivan JP, Dougherty DA (1999) Cation–π interactions in structural biology. Proc Natl Acad Sci USA 96:9459–9464
Gao X, Lu F, Zhou L, Dang S, Sun L, Li X, Wang J, Shi Y (2009) Structure and mechanism of an amino acid antiporter. Science 324:1565–1568
Gao X, Zhou L, Jiao X, Lu F, Yan C, Zeng X, Wang J, Shi Y (2010) Mechanism of substrate recognition and transport by an amino acid antiporter. Nature 463:828–832
Griffith JK, Baker ME, Rouch DA, Page MGP, Skurray RA, Paulsen IT, Chater KF, Baldwin SA, Henderson PJF (1992) Membrane transport proteins: implications of sequence comparisons. Curr Opin Cell Biol 4:684–695
Guan L, Kaback HR (2004) Binding affinity of lactose permease is not altered by the H+ electrochemical gradient. Proc Natl Acad Sci USA 101:12148–12152
Guan L, Kaback HR (2006) Lessons from lactose permease. Annu Rev Biophys Biomol Struct 35:67–91
Guan L, Hu Y, Kaback HR (2003) Aromatic stacking in the sugar binding site of the lactose permease. Biochemistry 42:1377–1382
Guan L, Mirza O, Verner G, Iwata S, Kaback HR (2007) Structural determination of wild-type lactose permease. Proc Natl Acad Sci USA 104:15294–15298
Guettou F, Quistgaard EM, Tresaugues L, Moberg P, Jegerschold C, Zhu L, Jong AJO, Nordlund P, Löw C (2013) Structural insights into substrate recognition in proton-dependent oligopeptide transporters. EMBO Rep 14:804–810
Guettou F, Quistgaard EM, Raba M, Moberg P, Löw C, Nordlund P (2014) Selectivity mechanism of a bacterial homolog of the human drug-peptide transporters PepT1 and PepT2. Nat Struct Mol Biol 21:728–731
Henderson PJF (1990) Proton-linked sugar transport systems in bacteria. J Bioenerg Biomembr 22:525–569
Henderson PJF, Maiden MCJ (1990) Homologous sugar transport proteins in Escherichia coli and their relatives in both prokaryotes and eukaryotes. Philos Trans R Soc Lond B Biol Sci 326:391–410
Heng J, Zhao Y, Liu M, Liu Y, Fan J, Wang X, Zhao Y, Zhang XC (2015) Substrate-bound structure of the E. coli multidrug resistance transporter MdfA. Cell Res 25:1060–1073
Huang Y, Lemieux MJ, Song J, Auer M, Wang D-N (2003) Structure and mechanism of the glycerol-3-phosphate transporter from Escherichia coli. Science 301:616–620
Huang C-Y, Olieric V, Ma P, Panepucci E, Diederichs K, Wang M, Caffrey M (2015) In meso in situ serial X-ray crystallography of soluble and membrane proteins. Acta Crystallogr D Biol Crystallogr 71:1238–1256
Iancu CV, Zamoon J, Woo SB, Aleshin A, Choe JY (2013) Crystal structure of a glucose/H+ symporter and its mechanism of action. Proc Natl Acad Sci USA 110:17862–17867
Ilgü H, Jeckelmann J-M, Gapsys V, Ucurum Z, de Groot BL, Fotiadis D (2016) Insights into the molecular basis for substrate binding and specificity of the wild-type l-arginine/agmatine antiporter AdiC. Proc Natl Acad Sci USA 113:10358–10363
Jack DL, Paulsen IT, Saier MH (2000) The amino acid/polyamine/organocation (APC) superfamily of transporters specific for amino acids, polyamines and organocations. Microbiology 146:1797–1814
Jardetzky O (1966) Simple allosteric model for membrane pumps. Nature 211:969–970
Jiang D, Zhao Y, Wang X, Fan J, Heng J, Liu X, Feng W, Kang X, Huang B, Liu J, Zhang XC (2013) Structure of the YajR transporter suggests a transport mechanism based on the conserved motif A. Proc Natl Acad Sci USA 110:14664–14669
Jiang X, Villafuerte MKR, Andersson M, White SH, Kaback HR (2014) Galactoside-binding site in LacY. Biochemistry 53:1536–1543
Jiang X, Smirnova I, Kasho V, Wu J, Hirata K, Ke M, Pardon E, Steyaert J, Yan N, Kaback HR (2016) Crystal structure of a LacY-nanobody complex in a periplasmic-open conformation. Proc Natl Acad Sci USA 113:12420–12425
Kaback HR, Sahin-Tóth M, Weinglass AB (2001) The kamikaze approach to membrane transport. Nat Rev Mol Cell Biol 2:610–620
Karpowich NK, Wang D-N (2008) Symmetric transporters for asymmetric transport. Science 321:781–782
Khafizov K, Staritzbichler R, Stamm M, Forrest LR (2010) A study of the evolution of inverted-topology repeats from LeuT-fold transporters using AlignMe. Biochemistry 49:10702–10713
Kowalczyk L, Ratera M, Paladino A, Bartoccioni P, Errasti-Murugarren E, Valencia E, Portella G, Bial S, Zorzano A, Fita I, Orozco M, Carpena X, Vázquez-Ibar J, PalacÃn M (2011) Molecular basis of substrate-induced permeation by an amino acid antiporter. Proc Natl Acad Sci USA 108:3935–3940
Kumar H, Kasho V, Smirnova I, Finer-Moore JS, Kaback HR, Stroud RM (2014) Structure of sugar-bound LacY. Proc Natl Acad Sci USA 111:1784–1788
Kumar H, Finer-Moore JS, Kaback HR, Stroud RM (2015) Structure of LacY with an α-substituted galactoside: connecting the binding site to the protonation site. Proc Natl Acad Sci USA 112:9004–9009
Kumar H, Finer-Moore JS, Jiang X, Smirnova I, Kasho V, Pardon E, Steyaert J, Kaback HR, Stroud RM (2018) Crystal Structure of a ligand-bound LacY-nanobody complex. Proc Natl Acad Sci USA 115:8769–8774
Lyons JA, Parker JL, Solcan N, Brinth A, Li D, Shah ST, Caffrey M, Newstead S (2014) Structural basis for polyspecificity in the POT family of proton-coupled oligopeptide transporters. EMBO Rep 15:886–893
Ma P, Weichert D, Aleksandrov LA, Jensen TJ, Riordan JR, Liu X, Kobilka BK, Caffrey M (2017) The cubicon method for concentrating membrane proteins in the cubic mesophase. Nat Protoc 12:1745–1762
Madej MG (2014) Function, structure, and evolution of the major facilitator superfamily: the LacY manifesto. Adv Biol 2014:20
Madej MG, Kaback HR (2013) Evolutionary mix-and-match with MFS transporters II. Proc Natl Acad Sci USA 110:4831–4838
Madej MG, Soro SN, Kaback HR (2012) Apo-intermediate in the transport cycle of lactose permease (LacY). Proc Natl Acad Sci USA 109:2970–2978
Madej MG, Dang S, Yan N, Kaback HR (2013) Evolutionary mix-and-match with MFS transporters. Proc Nat Acad Sci USA 110:5870–5874
Madej MG, Sun L, Yan N, Kaback HR (2014) Functional architecture of MFS d-glucose transporters. Proc Natl Acad Sci USA 111:719–727
Martinez Molledo M, Quistgaard EM, Flayhan A, Pieprzyk J, Löw C (2018) Multispecific substrate recognition in a proton-dependent oligopeptide transporter. Structure 26:467–476
Minhas GS, Bawdon D, Herman R, Rudden M, Stone AP, James AG, Thomas GH, Newstead S (2018) Structural basis of malodour precursor transport in the human axilla. eLife 7:e34995
Mirza O, Guan L, Verner G, Iwata S, Kaback HR (2006) Structural evidence for induced fit and a mechanism for sugar/H+ symport in LacY. EMBO J 25:1177–1183
Nagarathinam K, Nakada-Nakura Y, Parthier C, Terada T, Juge N, Jaenecke F, Liu K, Hotta Y, Miyaji T, Omote H, Iwata S, Nomura N, Stubbs MT, Tanabe M (2018) Outward open conformation of a Major Facilitator Superfamily multidrug/H+ antiporter provides insights into switching mechanism. Nat Commun 9:4005
Newstead S, Drew D, Cameron AD, Postis VLG, Xia X, Fowler PW, Ingram JC, Carpenter EP, Sansom MSP, McPherson MJ, Baldwin SA, Iwata S (2011) Crystal structure of a prokaryotic homologue of the mammalian oligopeptide-proton symporters, PepT1 and PepT2. EMBO J 30:417–426
Nie Y, Smirnova I, Kasho V, Kaback HR (2006) Energetics of ligand-induced conformational flexibility in the lactose permease of Escherichia coli. J Biol Chem 281:35779–35784
Padan E, Sarkar HK, Viitanen PV, Poonian MS, Kaback HR (1985) Site-specific mutagenesis of histidine residues in the lac permease of Escherichia coli. Proc Natl Acad Sci USA 82:6765–6768
Pao SS, Paulsen IT, Saier MH (1998) Major facilitator superfamily. Microbiol Mol Biol Rev 62:1–34
Parker JL, Li C, Brinth A, Wang Z, Vogeley L, Solcan N, Ledderboge-Vucinic G, Swanson JMJ, Caffrey M, Voth GA, Newstead S (2017) Proton movement and coupling in the POT family of peptide transporters. Proc Natl Acad Sci USA 114:13182–13187
Püttner IB, Sarkar HK, Poonian MS, Kaback HR (2002) Lac permease of Escherichia coli: histidine-205 and histidine-322 play different roles in lactose/protein symport. Biochemistry 25:4483–4485
Quistgaard EM, Löw C, Moberg P, Tresaugues L, Nordlund P (2013) Structural basis for substrate transport in the GLUT-homology family of monosaccharide transporters. Nat Struct Mol Biol 20:766–768
Quistgaard EM, Martinez Molledo M, Löw C (2017) Structure determination of a major facilitator peptide transporter: Inward facing PepTSt from Streptococcus thermophilus crystallized in space group P3121. PLoS ONE 12:e0173126
Reddy VS, Shlykov MA, Castillo R, Sun EI, Saier MH (2012) The major facilitator superfamily (MFS) revisited. FEBS J 279:2022–2035
Ren Q, Paulsen IT (2007) Large-scale comparative genomic analyses of cytoplasmic membrane transport systems in prokaryotes. J Mol Microbiol Biotechnol 12:165–179
Robertson DE, Kaczorowski GJ, Garcia ML, Kaback HR (1980) Active transport in membrane vesicles from Escherichia coli: the electrochemical proton gradient alters the distribution of the lac carrier between two different kinetic states. Biochemistry 19:5692–5702
Sahin-Tóth M, Kaback HR (2001) Arg-302 facilitates deprotonation of Glu-325 in the transport mechanism of the lactose permease from Escherichia coli. Proc Natl Acad Sci USA 98:6068–6073
Sahin-Tóth M, le Coutre J, Kharabi D, le Maire G, Lee JC, Kaback HR (1999) Characterization of Glu126 and Arg144, two residues that are indispensable for substrate binding in the lactose permease of Escherichia coli. Biochemistry 38:813–819
Sahin-Tóth M, Karlin A, Kaback HR (2000) Unraveling the mechanism of the lactose permease of Escherichia coli. Proc Natl Acad Sci USA 97:10729–10732
Shi Y (2013) Common folds and transport mechanisms of secondary active transporters. Annu Rev Biophys 42:51–72
Smirnova I, Kasho V, Kaback HR (2008) Protonation and sugar binding to LacY. Proc Natl Acad Sci USA 105:8896–8901
Smirnova I, Kasho V, Sugihara J, Choe J-Y, Kaback HR (2009) Residues in the H+ translocation site define the pKa for sugar binding to LacY. Biochemistry 48:8852–8860
Smirnova I, Kasho V, Sugihara J, Kaback HR (2013) Trp replacements for tightly interacting Gly–Gly pairs in LacY stabilize an outward-facing conformation. Proc Natl Acad Sci USA 110:8876–8881
Solcan N, Kwok J, Fowler PW, Cameron AD, Drew D, Iwata S, Newstead S (2012) Alternating access mechanism in the POT family of oligopeptide transporters. EMBO J 31:3411–3421
Sun L, Zeng X, Yan C, Sun X, Gong X, Rao Y, Yan N (2012) Crystal structure of a bacterial homologue of glucose transporters GLUT1-4. Nature 490:361–366
Taniguchi R, Kato HE, Font J, Deshpande CN, Wada M, Ito K, Ishitani R, Jormakka M, Nureki O (2015) Outward- and inward-facing structures of a putative bacterial transition-metal transporter with homology to ferroportin. Nat Commun 6:8545
Vastermark A, Wollwage S, Houle ME, Rio R, Saier MH (2014) Expansion of the APC superfamily of secondary carriers. Proteins 82:2797–2811
Vázquez-Ibar JL, Guan L, Weinglass AB, Verner G, Gordillo R, Kaback HR (2004) Sugar recognition by the lactose permease of Escherichia coli. J Biol Chem 279:49214–49221
Venkatesan P, Kaback HR (1998) The substrate-binding site in the lactose permease of Escherichia coli. Proc Natl Acad Sci USA 95:9802–9807
Viitanen P, Garcia ML, Foster DL, Kaczorowski GJ, Kaback HR (1983) Mechanism of lactose translocation in proteoliposomes reconstituted with lac carrier protein purified from Escherichia coli. II. Deuterium solvent isotope effects. Biochemistry 22:2531–2536
Wisedchaisri G, Park M-S, Iadanza MG, Zheng H, Gonen T (2014) Proton-coupled sugar transport in the prototypical major facilitator superfamily protein XylE. Nat Commun 5:4521
Wong FH, Chen JS, Reddy V, Day JL, Shlykov MA, Wakabayashi ST, Saier MH (2012) The amino acid–polyamine–organocation superfamily. J Mol Microbiol Biotechnol 22:105–113
Xie H (2008) Activity assay of membrane transport proteins. Acta Biochim Biophys Sin 40:269–277
Yamashita A, Singh SK, Kawate T, Jin Y, Gouaux E (2005) Crystal structure of a bacterial homologue of Na+/Cl−-dependent neurotransmitter transporters. Nature 437:215–223
Yan N (2013) Structural advances for the major facilitator superfamily (MFS) transporters. Trends Biochem Sci 38:151–159
Yan H, Huang W, Yan C, Gong X, Jiang S, Zhao Y, Wang J, Shi Y (2013) Structure and mechanism of a nitrate transporter. Cell Rep 3:716–723
Yin Y, He X, Szewczyk P, Nguyen T, Chang G (2006) Structure of the multidrug transporter EmrD from Escherichia coli. Science 312:741–744
Zacharias N, Dougherty DA (2002) Cation–π interactions in ligand recognition and catalysis. Trends Pharmacol Sci 23:281–287
Zhao Y, Mao G, Liu M, Zhang L, Wang X, Zhang XC (2014) Crystal structure of the E. coli peptide transporter YbgH. Structure 22:1152–1160
Zheng H, Wisedchaisri G, Gonen T (2013) Crystal structure of a nitrate/nitrite exchanger. Nature 497:647–651
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Bosshart, P.D., Fotiadis, D. (2019). Secondary Active Transporters. In: Kuhn, A. (eds) Bacterial Cell Walls and Membranes . Subcellular Biochemistry, vol 92. Springer, Cham. https://doi.org/10.1007/978-3-030-18768-2_9
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