HOLE: A program for the analysis of the pore dimensions of ion channel structural models

Walker, 1996, Membrane proteins, membrane protein structure, Curr. Opin. Struct. Biol., 6, 457, 10.1016/S0959-440X(96)80109-6 Hille, 1992 Montal, 1996, Protein folds in channel structure, Curr. Opin. Struct. Biol., 6, 499, 10.1016/S0959-440X(96)80115-1 Adams, 1995, Computational searching and mutagenesis suggest a structure for the pentameric transmembrane domain of phospholamban, Nature Struct. Biol., 2, 154, 10.1038/nsb0295-154 Sankararamakrishnan, 1996, The pore domain of nicotinic acetylcholine receptor: Molecular, modelling, pore dimensions and electrostatics, Biophys. J., 71, 1659, 10.1016/S0006-3495(96)79370-0 Smart, 1993, The pore dimensions of gramicidin A, Biophys. J., 65, 2455, 10.1016/S0006-3495(93)81293-1 Connolly, 1983, Solvent accessible surfaces of proteins and nucleic acids, Science, 221, 709, 10.1126/science.6879170 Kleywegt, 1994, Detection, delineation, measurement and display of cavities in macromolecular structures, Acta Crystallogr. Sect. D, 50, 178, 10.1107/S0907444993011333 Williams, 1994, Buried waters and internal cavities in monomeric proteins, Protein Sci., 3, 1224, 10.1002/pro.5560030808 Laskowski, 1995, Surfnet—a program for visualizing molecular surfaces, cavities, and intermolecular interactions, J. Mol. Graphics, 13, 323, 10.1016/0263-7855(95)00073-9 Smart, 1997, A novel method for structure-based prediction of ion channel conductance properties, Biophys. J., 72, 1109, 10.1016/S0006-3495(97)78760-5 Smart, 1994, Preliminary analysis of the pore dimensions of annexin V., Biochem. Soc. Trans., 22, 146s, 10.1042/bst022146s Ketchem, 1993, High-resolution conformation of gramicidin-A in a lipid bilayer by solid-state NMR, Science, 261, 1457, 10.1126/science.7690158 Arseniev, 1985, 1H-NMR study of gramicidin A transmembrane ion channel: Head-to-head right handed single stranded helices, FEBS Lett., 186, 168, 10.1016/0014-5793(85)80702-X Cowan, 1992, Crystal structures explain functional properties of two E. coli porins, Nature (London), 358, 727, 10.1038/358727a0 Weiss, 1992, Structure of porin refined at 1.8Å resolution, J. Mol. Biol., 227, 493, 10.1016/0022-2836(92)90903-W Sansom, 1995, Transbilayer pores formed by beta-barresl: Molecular modeling of pore structures and properties, Biophys. J., 69, 1334, 10.1016/S0006-3495(95)80000-7 Schirmer, 1995, Structural basis for sugar translocation through maltoporin channels at 3.1Å resolution, Science, 267, 512, 10.1126/science.7824948 Merritt, 1994, Crystal-structure of cholera-toxin B-pentamer bound to receptor g(m1) pentasaccharide, Protein Sci., 3, 166, 10.1002/pro.5560030202 Ghadiri, 1993, Self-assembling organic nanotubes based on a cyclic peptide architecture, Nature (London), 366, 324, 10.1038/366324a0 Krasilnikov, 1991, The ionic channels formed by cholera toxin in planar bilayer lipid membranes are entirely attributable to its B-subunit, Biochim. Biophys. Acta, 1067, 166, 10.1016/0005-2736(91)90039-B Tosteson, 1978, Bilayers containing gangliosides develop channels when exposed to cholera toxin, Nature (London), 275, 142, 10.1038/275142a0 Zhang, 1995, The three-dimensional crystal structure of cholera toxin, J. Mol. Biol., 251, 563, 10.1006/jmbi.1995.0456 Jap, 1990, Biophysics of the structure and function of porins, Q. Rev. Biophys., 23, 367, 10.1017/S003358350000559X