18. Krah A, Pogoryelov D, Meier T, Faraldo-Gómez JD (2010) On the structure of the proton-binding site in the Fo rotor of chloroplast ATP synthases. J Mol Biol 395:20-27 Link
17. Garzón D, Bond PJ, Faraldo-Gómez, JD (2009) Predicted structural basis for CD1c presentation of mycobacterial branched polyketides and long lipopeptide antigens. Mol Immunol 47:253-260 Link
16. Pogoryelov D, Yildiz O, Faraldo-Gómez JD, Meier T (2009) High-resolution structure of the rotor ring of a proton dependent ATP synthase. Nature Struct Mol Biol 16:1068-1073 Link
15. Meier T, Krah A, Bond PJ, Pogoryelov D, Diederichs K, Faraldo-Gómez JD (2009) Complete ion-coordination structure in the rotor ring of Na+-dependent F-ATP synthases. J Mol Biol 391:498-507 Link
14. Lamoureux G, Faraldo-Gómez JD, Krupin S, Noskov SY (2009) Polarizable model of chloroform based on classical Drude oscillators. Chem Phys Lett 468:270-274
13. Faraldo-Gómez JD, Roux B (2007)
On the importance of a funneled energy landscape for the assembly and regulation of multidomain Src tyrosine kinases.
Proc Natl Acad Sci USA 104:13643-13648 Link
12. Engh AM, Faraldo-Gómez JD, Maduke M (2007)
The role of a conserved lysine in chloride- and voltage-dependent ClC-0 fast gating.
J Gen Physiol 130:351-363 Link
11. Engh AM, Faraldo-Gómez JD, Maduke M (2007)
The mechanism of fast-gate opening in ClC-0.
J Gen Physiol 130:351-363 Link
10. Faraldo-Gómez JD, Kutluay E, Jogini V, Zhao Y, Heginbotham L, Roux B (2007)
Mechanism of intracellular block of KcsA K+ channel by tetrabutylammonium: insights from X-ray crystallography,
electrophysiology and replica-exchange molecular dynamics simulations.
J Mol Biol 365(3):649-662 Link
9. Faraldo-Gómez JD, Roux B (2006)
Characterization of conformational equilibria through Hamiltonian and
temperature replica-exchange simulations.
J Comp Chem 8:1634-1647 Link
8. Murcia M, Faraldo-Gómez JD, Maxfield FR, Roux B (2006)
Modeling the structure of the StART domains of MLN64 and StAR proteins in complex with cholesterol.
J Lipid Res 47:2614-2630 Link
7. Bond PJ, Faraldo-Gómez JD, Deol SS, Sansom MSP (2006)
Membrane protein dynamics and detergent interactions within a crystal: a simulation study of OmpA.
Proc Natl Acad Sci USA 103:9518-9523 Link
6. Faraldo-Gómez JD, Roux B (2004)
Electrostatics of ion stabilization in a ClC chloride channel homologue from Escherichia coli.
J Mol Biol 339:981-1000 Link
5. Faraldo-Gómez JD, Forrest LR, Baaden M, Bond PJ, Domene C, Paragias G, Cuthbertson J, Sansom MSP (2004)
Conformational sampling and dynamics of membrane proteins from 10-nanosecond computer simulations.
Proteins: Struct Funct Bioinf 57:783-791 Link
4. Faraldo-Gómez JD, Smith GR, Sansom MSP (2003)
Molecular dynamics simulations of the bacterial outer membrane protein FhuA: a comparative study of
the ferrichrome-free and bound states.
Biophys J 85:1406-1420 Link
3. Sramala I, Lemaitre V, Faraldo-Gómez JD, Vincent S, Watts A, Fischer WB (2003)
Molecular dynamics simulations of the first two helices of Vpu from HIV-1.
Biophys J 84: 3276-3284 Link
2. Bond PJ, Faraldo-Gómez JD, Sansom MSP (2002)
OmpA: a pore or not a pore? Simulation and modelling studies.
Biophys J 83:763-775 Link
1. Faraldo-Gómez JD, Smith GR, Sansom MSP (2002)
Setting up and optimization of membrane protein simulations.
Eur Biophys J Biophy 31:217-227 Link
