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Interpretation of HDX Data by Maximum-Entropy Reweighting of Simulated Structural Ensembles.

Bradshaw RT, Marinelli F, Faraldo-Gómez JD, Forrest LR.

Biophys J. 2020 Feb 15. pii: S0006-3495(20)30124-7. doi: 10.1016/j.bpj.2020.02.005. [Epub ahead of print]


Large-scale state-dependent membrane remodeling by a transporter protein.

Zhou W, Fiorin G, Anselmi C, Karimi-Varzaneh HA, Poblete H, Forrest LR, Faraldo-Gómez JD.

Elife. 2019 Dec 19;8. pii: e50576. doi: 10.7554/eLife.50576.


MemSTATS: A Benchmark Set of Membrane Protein Symmetries and Pseudosymmetries.

Aleksandrova AA, Sarti E, Forrest LR.

J Mol Biol. 2020 Jan 17;432(2):597-604. doi: 10.1016/j.jmb.2019.09.020. Epub 2019 Oct 16.


RNA Granules Hitchhike on Lysosomes for Long-Distance Transport, Using Annexin A11 as a Molecular Tether.

Liao YC, Fernandopulle MS, Wang G, Choi H, Hao L, Drerup CM, Patel R, Qamar S, Nixon-Abell J, Shen Y, Meadows W, Vendruscolo M, Knowles TPJ, Nelson M, Czekalska MA, Musteikyte G, Gachechiladze MA, Stephens CA, Pasolli HA, Forrest LR, St George-Hyslop P, Lippincott-Schwartz J, Ward ME.

Cell. 2019 Sep 19;179(1):147-164.e20. doi: 10.1016/j.cell.2019.08.050.


Intestinal serotonin and fluoxetine exposure modulate bacterial colonization in the gut.

Fung TC, Vuong HE, Luna CDG, Pronovost GN, Aleksandrova AA, Riley NG, Vavilina A, McGinn J, Rendon T, Forrest LR, Hsiao EY.

Nat Microbiol. 2019 Dec;4(12):2064-2073. doi: 10.1038/s41564-019-0540-4. Epub 2019 Sep 2.


A structural model of the human serotonin transporter in an outward-occluded state.

Hellsberg E, Ecker GF, Stary-Weinzinger A, Forrest LR.

PLoS One. 2019 Jun 28;14(6):e0217377. doi: 10.1371/journal.pone.0217377. eCollection 2019.


Interpretation of spectroscopic data using molecular simulations for the secondary active transporter BetP.

Leone V, Waclawska I, Kossmann K, Koshy C, Sharma M, Prisner TF, Ziegler C, Endeward B, Forrest LR.

J Gen Physiol. 2019 Mar 4;151(3):381-394. doi: 10.1085/jgp.201812111. Epub 2019 Feb 6.


EncoMPASS: an online database for analyzing structure and symmetry in membrane proteins.

Sarti E, Aleksandrova AA, Ganta SK, Yavatkar AS, Forrest LR.

Nucleic Acids Res. 2019 Jan 8;47(D1):D315-D321. doi: 10.1093/nar/gky952.


Structural elements required for coupling ion and substrate transport in the neurotransmitter transporter homolog LeuT.

Zhang YW, Tavoulari S, Sinning S, Aleksandrova AA, Forrest LR, Rudnick G.

Proc Natl Acad Sci U S A. 2018 Sep 18;115(38):E8854-E8862. doi: 10.1073/pnas.1716870115. Epub 2018 Sep 4.


Structural models of the NaPi-II sodium-phosphate cotransporters.

Fenollar-Ferrer C, Forrest LR.

Pflugers Arch. 2019 Jan;471(1):43-52. doi: 10.1007/s00424-018-2197-x. Epub 2018 Sep 3. Review.


The ins and outs of vesicular monoamine transporters.

Yaffe D, Forrest LR, Schuldiner S.

J Gen Physiol. 2018 May 7;150(5):671-682. doi: 10.1085/jgp.201711980. Epub 2018 Apr 17. Review.


Threonine 67 is a key component in the coupling of the NSS amino acid transporter KAAT1.

Giovanola M, Vollero A, Cinquetti R, Bossi E, Forrest LR, Di Cairano ES, Castagna M.

Biochim Biophys Acta Biomembr. 2018 May;1860(5):1179-1186. doi: 10.1016/j.bbamem.2018.01.020. Epub 2018 Jan 31. No abstract available.


Asymmetry of inverted-topology repeats in the AE1 anion exchanger suggests an elevator-like mechanism.

Ficici E, Faraldo-Gómez JD, Jennings ML, Forrest LR.

J Gen Physiol. 2017 Dec 4;149(12):1149-1164. doi: 10.1085/jgp.201711836. Epub 2017 Nov 22.


Conformational dynamics of a neurotransmitter:sodium symporter in a lipid bilayer.

Adhikary S, Deredge DJ, Nagarajan A, Forrest LR, Wintrode PL, Singh SK.

Proc Natl Acad Sci U S A. 2017 Mar 7;114(10):E1786-E1795. doi: 10.1073/pnas.1613293114. Epub 2017 Feb 21.


An Extra Amino Acid Residue in Transmembrane Domain 10 of the γ-Aminobutyric Acid (GABA) Transporter GAT-1 Is Required for Efficient Ion-coupled Transport.

Dayan O, Nagarajan A, Shah R, Ben-Yona A, Forrest LR, Kanner BI.

J Biol Chem. 2017 Mar 31;292(13):5418-5428. doi: 10.1074/jbc.M117.775189. Epub 2017 Feb 17.


Emulating proton-induced conformational changes in the vesicular monoamine transporter VMAT2 by mutagenesis.

Yaffe D, Vergara-Jaque A, Forrest LR, Schuldiner S.

Proc Natl Acad Sci U S A. 2016 Nov 22;113(47):E7390-E7398. Epub 2016 Nov 7.


Cation Interactions and Membrane Potential Induce Conformational Changes in NaPi-IIb.

Patti M, Fenollar-Ferrer C, Werner A, Forrest LR, Forster IC.

Biophys J. 2016 Sep 6;111(5):973-88. doi: 10.1016/j.bpj.2016.07.025.


Structure alignment of membrane proteins: Accuracy of available tools and a consensus strategy.

Stamm M, Forrest LR.

Proteins. 2016 Sep;84(9):1333. doi: 10.1002/prot.25098. Epub 2016 Jul 22. No abstract available.


Mechanism of Paroxetine (Paxil) Inhibition of the Serotonin Transporter.

Davis BA, Nagarajan A, Forrest LR, Singh SK.

Sci Rep. 2016 Apr 1;6:23789. doi: 10.1038/srep23789.


The bacterial dicarboxylate transporter VcINDY uses a two-domain elevator-type mechanism.

Mulligan C, Fenollar-Ferrer C, Fitzgerald GA, Vergara-Jaque A, Kaufmann D, Li Y, Forrest LR, Mindell JA.

Nat Struct Mol Biol. 2016 Mar;23(3):256-63. doi: 10.1038/nsmb.3166. Epub 2016 Feb 1.


Two Na+ Sites Control Conformational Change in a Neurotransmitter Transporter Homolog.

Tavoulari S, Margheritis E, Nagarajan A, DeWitt DC, Zhang YW, Rosado E, Ravera S, Rhoades E, Forrest LR, Rudnick G.

J Biol Chem. 2016 Jan 15;291(3):1456-71. doi: 10.1074/jbc.M115.692012. Epub 2015 Nov 18.


Family resemblances: A common fold for some dimeric ion-coupled secondary transporters.

Vergara-Jaque A, Fenollar-Ferrer C, Mulligan C, Mindell JA, Forrest LR.

J Gen Physiol. 2015 Nov;146(5):423-34. doi: 10.1085/jgp.201511481.


Molecular Determinants of Substrate Specificity in Sodium-coupled Glutamate Transporters.

Silverstein N, Ewers D, Forrest LR, Fahlke C, Kanner BI.

J Biol Chem. 2015 Nov 27;290(48):28988-96. doi: 10.1074/jbc.M115.682666. Epub 2015 Oct 16.


Repeat-swap homology modeling of secondary active transporters: updated protocol and prediction of elevator-type mechanisms.

Vergara-Jaque A, Fenollar-Ferrer C, Kaufmann D, Forrest LR.

Front Pharmacol. 2015 Sep 4;6:183. doi: 10.3389/fphar.2015.00183. eCollection 2015.


Role of N-glycosylation in renal betaine transport.

Schweikhard ES, Burckhardt BC, Joos F, Fenollar-Ferrer C, Forrest LR, Kempson SA, Ziegler C.

Biochem J. 2015 Sep 1;470(2):169-79. doi: 10.1042/BJ20131031. Epub 2015 Jun 11.


Structure alignment of membrane proteins: Accuracy of available tools and a consensus strategy.

Stamm M, Forrest LR.

Proteins. 2015 Sep;83(9):1720-32. doi: 10.1002/prot.24857. Epub 2015 Aug 1. Erratum in: Proteins. 2016 Sep;84(9):1333.


Structural Symmetry in Membrane Proteins.

Forrest LR.

Annu Rev Biophys. 2015;44:311-37. doi: 10.1146/annurev-biophys-051013-023008. Review.


Identification of the first sodium binding site of the phosphate cotransporter NaPi-IIa (SLC34A1).

Fenollar-Ferrer C, Forster IC, Patti M, Knoepfel T, Werner A, Forrest LR.

Biophys J. 2015 May 19;108(10):2465-2480. doi: 10.1016/j.bpj.2015.03.054.


Gating topology of the proton-coupled oligopeptide symporters.

Fowler PW, Orwick-Rydmark M, Radestock S, Solcan N, Dijkman PM, Lyons JA, Kwok J, Caffrey M, Watts A, Forrest LR, Newstead S.

Structure. 2015 Feb 3;23(2):290-301. doi: 10.1016/j.str.2014.12.012.


Functionally important carboxyls in a bacterial homologue of the vesicular monoamine transporter (VMAT).

Yaffe D, Vergara-Jaque A, Shuster Y, Listov D, Meena S, Singh SK, Forrest LR, Schuldiner S.

J Biol Chem. 2014 Dec 5;289(49):34229-40. doi: 10.1074/jbc.M114.607366. Epub 2014 Oct 21.


Structure and regulatory interactions of the cytoplasmic terminal domains of serotonin transporter.

Fenollar-Ferrer C, Stockner T, Schwarz TC, Pal A, Gotovina J, Hofmaier T, Jayaraman K, Adhikary S, Kudlacek O, Mehdipour AR, Tavoulari S, Rudnick G, Singh SK, Konrat R, Sitte HH, Forrest LR.

Biochemistry. 2014 Aug 26;53(33):5444-60. doi: 10.1021/bi500637f. Epub 2014 Aug 15.


Substrate-bound outward-open state of the betaine transporter BetP provides insights into Na+ coupling.

Perez C, Faust B, Mehdipour AR, Francesconi KA, Forrest LR, Ziegler C.

Nat Commun. 2014 Jul 15;5:4231. doi: 10.1038/ncomms5231.


AlignMe--a membrane protein sequence alignment web server.

Stamm M, Staritzbichler R, Khafizov K, Forrest LR.

Nucleic Acids Res. 2014 Jul;42(Web Server issue):W246-51. doi: 10.1093/nar/gku291. Epub 2014 Apr 21.


Structural fold and binding sites of the human Na⁺-phosphate cotransporter NaPi-II.

Fenollar-Ferrer C, Patti M, Knöpfel T, Werner A, Forster IC, Forrest LR.

Biophys J. 2014 Mar 18;106(6):1268-79. doi: 10.1016/j.bpj.2014.01.043.


Identification of molecular hinge points mediating alternating access in the vesicular monoamine transporter VMAT2.

Yaffe D, Radestock S, Shuster Y, Forrest LR, Schuldiner S.

Proc Natl Acad Sci U S A. 2013 Apr 9;110(15):E1332-41. doi: 10.1073/pnas.1220497110. Epub 2013 Mar 25.


Alignment of helical membrane protein sequences using AlignMe.

Stamm M, Staritzbichler R, Khafizov K, Forrest LR.

PLoS One. 2013;8(3):e57731. doi: 10.1371/journal.pone.0057731. Epub 2013 Mar 4.


Structural biology. (Pseudo-)symmetrical transport.

Forrest LR.

Science. 2013 Jan 25;339(6118):399-401. doi: 10.1126/science.1228465. No abstract available.


Cysteine scanning mutagenesis of transmembrane helix 3 of a brain glutamate transporter reveals two conformationally sensitive positions.

Silverstein N, Crisman TJ, Forrest LR, Kanner BI.

J Biol Chem. 2013 Jan 11;288(2):964-73. doi: 10.1074/jbc.M112.403576. Epub 2012 Nov 27.


Dissecting a regulatory calcium-binding site of CLC-K kidney chloride channels.

Gradogna A, Fenollar-Ferrer C, Forrest LR, Pusch M.

J Gen Physiol. 2012 Dec;140(6):681-96. doi: 10.1085/jgp.201210878. Epub 2012 Nov 12.


Investigation of the sodium-binding sites in the sodium-coupled betaine transporter BetP.

Khafizov K, Perez C, Koshy C, Quick M, Fendler K, Ziegler C, Forrest LR.

Proc Natl Acad Sci U S A. 2012 Oct 30;109(44):E3035-44. doi: 10.1073/pnas.1209039109. Epub 2012 Oct 9.


A model-structure of a periplasm-facing state of the NhaA antiporter suggests the molecular underpinnings of pH-induced conformational changes.

Schushan M, Rimon A, Haliloglu T, Forrest LR, Padan E, Ben-Tal N.

J Biol Chem. 2012 May 25;287(22):18249-61. doi: 10.1074/jbc.M111.336446. Epub 2012 Mar 19.


The role of trimerization in the osmoregulated betaine transporter BetP.

Perez C, Khafizov K, Forrest LR, Krämer R, Ziegler C.

EMBO Rep. 2011 Jun 17;12(8):804-10. doi: 10.1038/embor.2011.102.


GRIFFIN: A versatile methodology for optimization of protein-lipid interfaces for membrane protein simulations.

Staritzbichler R, Anselmi C, Forrest LR, Faraldo-Gómez JD.

J Chem Theory Comput. 2011 Apr 12;7(4):1167-1176.


Modeling and simulation of ion-coupled and ATP-driven membrane proteins.

Faraldo-Gómez JD, Forrest LR.

Curr Opin Struct Biol. 2011 Apr;21(2):173-9. doi: 10.1016/ Epub 2011 Feb 16. Review.


The alternating-access mechanism of MFS transporters arises from inverted-topology repeats.

Radestock S, Forrest LR.

J Mol Biol. 2011 Apr 15;407(5):698-715. doi: 10.1016/j.jmb.2011.02.008. Epub 2011 Feb 18.


Structural asymmetry in a trimeric Na+/betaine symporter, BetP, from Corynebacterium glutamicum.

Tsai CJ, Khafizov K, Hakulinen J, Forrest LR, Forrest LR, Krämer R, Kühlbrandt W, Ziegler C.

J Mol Biol. 2011 Apr 1;407(3):368-81. doi: 10.1016/j.jmb.2011.01.028. Epub 2011 Jan 31.


Reconstructing a chloride-binding site in a bacterial neurotransmitter transporter homologue.

Tavoulari S, Rizwan AN, Forrest LR, Rudnick G.

J Biol Chem. 2011 Jan 28;286(4):2834-42. doi: 10.1074/jbc.M110.186064. Epub 2010 Nov 29.


A study of the evolution of inverted-topology repeats from LeuT-fold transporters using AlignMe.

Khafizov K, Staritzbichler R, Stamm M, Forrest LR.

Biochemistry. 2010 Dec 21;49(50):10702-13. doi: 10.1021/bi101256x. Epub 2010 Nov 23.


The structural basis of secondary active transport mechanisms.

Forrest LR, Krämer R, Ziegler C.

Biochim Biophys Acta. 2011 Feb;1807(2):167-88. doi: 10.1016/j.bbabio.2010.10.014. Epub 2010 Oct 26. Review.


The rocking bundle: a mechanism for ion-coupled solute flux by symmetrical transporters.

Forrest LR, Rudnick G.

Physiology (Bethesda). 2009 Dec;24:377-86. doi: 10.1152/physiol.00030.2009. Review.

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