References
- Amor JC, Harrison DH, Kahn RA, Ringe D. Structure of the human ADP-ribosylation factor 1 complexed with GDP. Nature 1994; 372: 704–708
- Antonny B, Beraud D, Chardin P, Chabre M. N-terminal hydrophobic residues of the G-protein ADP-ribosylation factor-1 insert into membrane phospholipids upon GDP to GTP exchange. Biochemistry 1997; 36: 4675–4684
- Balali-Mood, K, Harroun, TA, Bradshaw, JP. 2003. Molecular dynamics simulation of a mixed DOPC/DOPG bilayer. Eur Phys J E, 12:s136–140. (E-direct)
- Basyn F, Charloteaux B, Thomas A, Brasseur R. Prediction of membrane protein orientation in lipid bilayers: A theoretical approach. J Mol Graph Model 2001; 20: 235–244
- Basyn F, Spies B, Bouffioux O, Thomas A, Brasseur R. Insertion of X-ray structures of proteins in membranes. J Mol Graph Mod 2003; 22: 11–21
- Bechor D, Ben-Tal N. Implicit solvent model studies of the interactions of the influenza hemagglutinin fusion peptide with lipid bilayers. Biophys J 2001; 80: 643–655
- Berger O, Edholm O, Jahnig F. Molecular dynamics simulations of a fluid bilayer of dipalmitoylphosphatidylcholine at full hydration, constant pressure, and constant temperature. Biophys J 1997; 72: 2002–2013
- Berneche S, Nina M, Roux B. Molecular dynamics simulation of mellittin in a dimyristoylphosphatidylcholine bilayer membrane. Biophys J 1998; 75: 1603–1618
- Bradshaw JP, Darkes MJ, Harroun TA, Katsaras J, Epand RM. Oblique membrane insertion of viral fusion peptide probed by neutron diffraction. Biochemistry 2000; 39: 6581–6585
- Collins RN. Rab and ARF GTPase regulation of exocytosis. Mol Membr Biol 2003; 20: 105–115
- Cormont M, Le Marchand-Brustel Y. The role of small G-proteins in the regulation of glucose transport. Mol Membr Biol 2001; 18: 213–220
- Davies SM, Harroun TA, Hauss T, Kelly SM, Bradshaw JP. The membrane bound N-terminal domain of human adenosine diphosphate ribosylation factor-1 (ARF1). FEBS Lett 2003; 548: 119–124
- Feller SE, Yin D, Pastor RW, MacKerell AD, Jr. Molecular dynamics simulation of unsaturated lipid bilayers at low hydration: Parameterization and comparison with diffraction studies. Biophys J 1997; 73: 2269–2279
- Forrest LR, Kukol A, Arkin IT, Tieleman DP, Sansom MSP. Exploring models of the influenza A M2 channel: MD simulations in a phospholipid bilayer. Biophys J 2000; 78: 55–69
- Franco M, Chardin P, Chabre M, Paris S. Myristoylation is not required for GTP-dependent binding of ADP-ribosylation factor ARF1 to phospholipids. J Biol Chem 1993; 268: 24531–24534
- Goldberg J. Structural and functional analysis of the ARF1-ARFGAP complex reveals a role for coatomer in GTP hydrolysis. Cell 1999; 96: 893–902
- Kamath S, Wong TC. Membrane structure of the human immunodeficiency virus gp41 fusion domain by molecular dynamics simulation. Biophys J 2002; 83: 135–143
- Kessel A, Musafia B, Ben-Tal N. Continuum solvent model studies of the interactions of an anticonvulsant drug with a lipid bilayer. Biophys J 2001; 80: 2536–2545
- Lindahl E, Hess B, van der Spoel D. GROMACS 3.0: A package for molecular simulations and trajectory analysis. J Mol Model 2001; 7: 306–317
- Lins, L, Charloteaux, B, Thomas, A, Brasseur, R. 2001. Computational study of lipid-destabilizing protein fragments: Towards a comprehensive view of tilted peptides proteins.Struc Func Genetics, 44:435–447.
- Marrink SJ, Mark AE. Molecular view of hexagonal phase formation in phospholipids membranes. Biophys J 2004; 87: 3894–3900
- Mashl R J, Scott HL, Subramaniam S, Jakobsson E. Molecular simulation of dioleoylphosphatidylcholine lipid bilayers at differing levels of hydration. Biophys J 2001; 81: 3005–3015
- Menetrey J, Macia E, Pasqualato S, Franco M, Cherfils J. Structure of Arf6-GDPsuggests a basis for guanine nucleotide exchange factors specificity. Nat Struct Biol 2000; 7: 466–469
- Moore PB, Lopez CF, Klein ML. Dynamical properties of a hydrated lipid bilayer from a multinanosecond molecular dynamics simulation. Biophys J 2001; 81: 2484–2494
- Nielsen, SO, Ensing, B, Oritz, V, Moore, PB, Klein, ML. 2005. Lipid bilayer perturbations around a transmembrane nanotube: A coarse grain molecular dynamics study. Biophys J, 88:3822–3828.
- Nina M, Berneche S, Roux B. Anchoring of a monotopic membrane protein: The binding of prostaglandin H2 synthase-1 to the surface of a phospholipid bilayer. Eur Biophys J 2000; 29: 439–454
- Randa HS, Forrest LA, Voth GA, Sansom MSP. Molecular dynamics of synthetic leucine-serine ion channels in a phospholipid membrane. Biophys J 2001; 77: 2400–2410
- Randazzo PA, Nie Z, Miura K, Hsu VW. Molecular aspects of the cellular activities of ADP-ribosylation factors. Sci Stke 2000; 1: 59–64
- Sansom MSP, Tieleman DP, Forrest LR, Berendsen HJ. Molecular dynamics simulations of membranes with embedded proteins and peptides: Porin, alamethicin and influenza virus M2. Biochem Soc Trans 1998; 26: 438–443
- Scott HL. Modelling the lipid component of membranes. Curr Opin Struct Biol 2002; 12: 495–502
- Spang, A. 2002. ARF1 regulatory factors and COPI vesicle formation. Curr Opin Cell Biol. 14:423–4
- Tieleman DP, Berendsen HJC, Sansom MSP. Surface binding of alamethicin stabilizes its helical structure: Molecular dynamics simulations. Biophys J 1999; 76: 3186–3191
- Tieleman DP, Breed J, Berendsen HJC, Sansom MSP. Alamethicin channels in a membrane: Molecular dynamics simulations. Faraday Discuss 1998; 1: 209–223