List of works - Lucy R. Forrest

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

scientific article

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

scientific article published on 28 June 2019

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

scientific article published on 23 November 2010

AlignMe--a membrane protein sequence alignment web server

scientific article

Alignment of helical membrane protein sequences using AlignMe

scientific article

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.

scientific article published on 17 February 2017

Assignment of the resting state of the secondary active transporter BetP by integrating spectroscopic measurements and molecular simulations

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

scientific article published on 22 November 2017

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

scientific article published on September 2016

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

scientific article published on 21 February 2017

Conformational sampling and dynamics of membrane proteins from 10-nanosecond computer simulations.

scientific article

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

scientific article published on 27 November 2012

Discrimination of native loop conformations in membrane proteins: decoy library design and evaluation of effective energy scoring functions.

scientific article

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

scientific article

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

scientific article published on 01 January 2019

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

scientific article

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

scientific article

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

scientific article published on April 2011

Gating topology of the proton-coupled oligopeptide symporters

scientific article published in February 2015

Global alignment and assessment of TRP channel transmembrane domain structures to explore functional mechanisms

scientific article published on 17 August 2020

Helical packing patterns in membrane and soluble proteins.

scientific article

Homology modeling and molecular dynamics simulation studies of an inward rectifier potassium channel

scientific article

Hydrogen-bonding and packing features of membrane proteins: functional implications

scientific article

Identification of a chloride ion binding site in Na+/Cl -dependent transporters.

scholarly article

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

scientific article

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

scientific article published on 06 February 2019

Interpreting hydrogen-deuterium exchange experiments with molecular simulations: Tutorials and applications of the HDXer ensemble reweighting software [Article v1.0]

scientific article published in 2022

Intestinal serotonin and fluoxetine exposure modulate bacterial colonization in the gut

scientific article published on 02 September 2019

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

scientific article

Inward-facing conformation of glutamate transporters as revealed by their inverted-topology structural repeats.

scientific article

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

scientific article published on 19 December 2019

Loop modeling: Sampling, filtering, and scoring

scientific article published on February 2008

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

scientific article published on April 2016

Membrane protein prediction methods

scientific article

Membrane simulations: bigger and better?

scientific article

Methionine Uptake inCorynebacterium glutamicumby MetQNI and by MetPS, a Novel Methionine and Alanine Importer of the NSS Neurotransmitter Transporter Family†

scientific article published on 01 December 2008

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

scientific article

Molecular contacts in the transmembrane c-subunit oligomer of F-ATPases identified by tryptophan substitution mutagenesis

scientific article published on 01 July 2000

Molecular dynamics simulation of dark-adapted rhodopsin in an explicit membrane bilayer: coupling between local retinal and larger scale conformational change.

scientific article published in October 2003

On the Role of a Conserved Methionine in the Na<sup>+</sup>-Coupling Mechanism of a Neurotransmitter Transporter Homolog

scientific article published on 09 February 2021

On the accuracy of homology modeling and sequence alignment methods applied to membrane proteins

scientific article

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

scientific article

Role of N-glycosylation in renal betaine transport.

scientific article published on 11 June 2015

Simulations of the M2 channel for influenza A virus.

scientific article published in August 1998

Structural Asymmetry in a Trimeric Na+/Betaine Symporter, BetP, from Corynebacterium glutamicum

Structural Symmetry in Membrane Proteins.

scientific article

Structural biology. (Pseudo-)symmetrical transport

scientific article

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

scientific article published on 04 September 2018

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

scientific article published on March 2014

Structural models of the NaPi-II sodium-phosphate cotransporters

scientific article published on 03 September 2018

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

scientific article

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

scientific article published on 22 July 2016

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

scientific article

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

scientific article

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

scientific article published on February 2016

The ins and outs of vesicular monoamine transporters

scientific article published on 17 April 2018

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

scientific article

The role of trimerization in the osmoregulated betaine transporter BetP

scientific journal article

The structural basis of secondary active transport mechanisms.

scientific article published on 26 October 2010

The structure of the HIV-1 Vpu ion channel: modelling and simulation studies.

scientific article published in June 2001

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

scientific article published on 30 January 2018

Transmembrane Peptide NB of Influenza B: A Simulation, Structure, and Conductance Study†

scientific article published on 01 October 2000

Transmembrane domains of viral ion channel proteins: A molecular dynamics simulation study

scientific article published in June 2000

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

scientific article

Two models of the influenza A M2 channel domain: verification by comparison

scientific article published on 01 January 1998

List of works by Lucy R. Forrest

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

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

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

AlignMe--a membrane protein sequence alignment web server

Alignment of helical membrane protein sequences using AlignMe

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.

Assignment of the resting state of the secondary active transporter BetP by integrating spectroscopic measurements and molecular simulations

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

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

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

Conformational sampling and dynamics of membrane proteins from 10-nanosecond computer simulations.

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

Discrimination of native loop conformations in membrane proteins: decoy library design and evaluation of effective energy scoring functions.

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

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

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

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

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

Gating topology of the proton-coupled oligopeptide symporters

Global alignment and assessment of TRP channel transmembrane domain structures to explore functional mechanisms

Helical packing patterns in membrane and soluble proteins.

Homology modeling and molecular dynamics simulation studies of an inward rectifier potassium channel

Hydrogen-bonding and packing features of membrane proteins: functional implications

Identification of a chloride ion binding site in Na+/Cl -dependent transporters.

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

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

Interpreting hydrogen-deuterium exchange experiments with molecular simulations: Tutorials and applications of the HDXer ensemble reweighting software [Article v1.0]

Intestinal serotonin and fluoxetine exposure modulate bacterial colonization in the gut

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

Inward-facing conformation of glutamate transporters as revealed by their inverted-topology structural repeats.

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

Loop modeling: Sampling, filtering, and scoring

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

Membrane protein prediction methods

Membrane simulations: bigger and better?

Methionine Uptake inCorynebacterium glutamicumby MetQNI and by MetPS, a Novel Methionine and Alanine Importer of the NSS Neurotransmitter Transporter Family†

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

Molecular contacts in the transmembrane c-subunit oligomer of F-ATPases identified by tryptophan substitution mutagenesis

Molecular dynamics simulation of dark-adapted rhodopsin in an explicit membrane bilayer: coupling between local retinal and larger scale conformational change.

On the Role of a Conserved Methionine in the Na<sup>+</sup>-Coupling Mechanism of a Neurotransmitter Transporter Homolog

On the accuracy of homology modeling and sequence alignment methods applied to membrane proteins

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

Role of N-glycosylation in renal betaine transport.

Simulations of the M2 channel for influenza A virus.

Structural Asymmetry in a Trimeric Na+/Betaine Symporter, BetP, from Corynebacterium glutamicum

Structural Symmetry in Membrane Proteins.

Structural biology. (Pseudo-)symmetrical transport

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

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

Structural models of the NaPi-II sodium-phosphate cotransporters

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

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

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

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

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

The ins and outs of vesicular monoamine transporters

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

The role of trimerization in the osmoregulated betaine transporter BetP

The structural basis of secondary active transport mechanisms.

The structure of the HIV-1 Vpu ion channel: modelling and simulation studies.

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

Transmembrane Peptide NB of Influenza B: A Simulation, Structure, and Conductance Study†

Transmembrane domains of viral ion channel proteins: A molecular dynamics simulation study

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

Two models of the influenza A M2 channel domain: verification by comparison