Molecular modeling of mechanosensory ion channel structural and functional features

PLoS ONE

Volumn 5, Issue 9, 2010, Pages 1-7

  Gessmann, Renate ^a   Kourtis, Nikos ^a   Petratos, Kyriacos ^a   Tavernarakis, Nektarios ^a  

^a INSTITUTE OF MOLECULAR BIOLOGY AND BIOTECHNOLOGY   (Greece)

Author keywords

[No Author keywords available]

Indexed keywords

ACID SENSING ION CHANNEL; ACID SENSING ION CHANNEL 1; ION CHANNEL; MECHANOSENSORY 4 PROTEIN; MECHANOSENSORY ION CHANNEL; MEMBRANE PROTEIN; UNCLASSIFIED DRUG; UNCOORDINATED 8 PROTEIN; CAENORHABDITIS ELEGANS PROTEIN;

AMINO ACID SEQUENCE; ARTICLE; CAENORHABDITIS ELEGANS; CELL DEGENERATION; COMPLEX FORMATION; CONTROLLED STUDY; CRYSTAL STRUCTURE; GAIN OF FUNCTION MUTATION; GENE MUTATION; MECHANOTRANSDUCTION; MEMBRANE PERMEABILITY; MOLECULAR MODEL; MUTATIONAL ANALYSIS; PROPRIOCEPTION; PROTEIN ANALYSIS; PROTEIN FUNCTION; PROTEIN MULTIMERIZATION; PROTEIN STRUCTURE; SEQUENCE ALIGNMENT; SEQUENCE HOMOLOGY; STRUCTURE ACTIVITY RELATION; THREE DIMENSIONAL IMAGING; ANIMAL; CHEMICAL STRUCTURE; CHEMISTRY; GENETICS; METABOLISM; MOLECULAR GENETICS; MUTATION; PROTEIN CONFORMATION;

CAENORHABDITIS ELEGANS; METAZOA;

AMINO ACID SEQUENCE; ANIMALS; CAENORHABDITIS ELEGANS; CAENORHABDITIS ELEGANS PROTEINS; ION CHANNELS; MECHANOTRANSDUCTION, CELLULAR; MODELS, MOLECULAR; MOLECULAR SEQUENCE DATA; MUTATION; PROTEIN CONFORMATION; SEQUENCE ALIGNMENT;

EID: 77958584535     PISSN: None     EISSN: 19326203     Source Type: Journal    
DOI: 10.1371/journal.pone.0012814     Document Type: Article

References (29)

1. Kellenberger S, Schild L (2002) Epithelial sodium channel/degenerin family of ion channels: a variety of functions for a shared structure. Physiol Rev 82: 735-767.
2. Tavernarakis N, Driscoll M (2001) Degenerins. At the core of the metazoan mechanotransducer? Ann N Y Acad Sci 940: 28-41.
3. Benos DJ, Stanton BA (1999) Functional domains within the degenerin/ epithelial sodium channel (Deg/ENaC) superfamily of ion channels. J Physiol 520(Pt 3): 631-644.
4. Tavernarakis N, Driscoll M (2000) Caenorhabditis elegans degenerins and vertebrate ENaC ion channels contain an extracellular domain related to venom neurotoxins. J Neurogenet 13: 257-264.
5. Syntichaki P, Tavernarakis N (2004) Genetic models of mechanotransduction: the nematode Caenorhabditis elegans. Physiol Rev 84: 1097-1153.
6. Huang M, Chalfie M (1994) Gene interactions affecting mechanosensory transduction in Caenorhabditis elegans. Nature 367: 467-470.
7. Tavernarakis N, Shreffler W, Wang S, Driscoll M (1997) unc-8, a DEG/ENaC family member, encodes a subunit of a candidate mechanically gated channel that modulates C. elegans locomotion. Neuron 18: 107-119.
8. Gonzales EB, Kawate T, Gouaux E (2009) Pore architecture and ion sites in acid-sensing ion channels and P2X receptors. Nature 460: 599-604.
9. Jasti J, Furukawa H, Gonzales EB, Gouaux E (2007) Structure of acid-sensing ion channel 1 at 1.9 A resolution and low pH. Nature 449: 316-323.
10. Krishtal O (2003) The ASICs: signaling molecules? Modulators? Trends Neurosci 26: 477-483.
11. Waldmann R, Champigny G, Lingueglia E, De Weille JR, Heurteaux C, et al. (1999) H(+)-gated cation channels. Ann N Y Acad Sci 868: 67-76.
12. Wemmie JA, Price MP, Welsh MJ (2006) Acid-sensing ion channels: advances, questions and therapeutic opportunities. Trends Neurosci 29: 578-586.
13. Tavernarakis N, Everett JK, Kyrpides NC, Driscoll M (2001) Structural and functional features of the intracellular amino terminus of DEG/ENaC ion channels. Curr Biol 11: R205-208.
14. Baud F, Karlin S (1999) Measures of residue density in protein structures. Proc Natl Acad Sci U S A 96: 12494-12499.
15. Gish W, States DJ (1993) Identification of protein coding regions by database similarity search. Nat Genet 3: 266-272.
16. Senes A, Chadi DC, Law PB, Walters RF, Nanda V, et al. (2007) E(z), a depthdependent potential for assessing the energies of insertion of amino acid sidechains into membranes: derivation and applications to determining the orientation of transmembrane and interfacial helices. J Mol Biol 366: 436-448.
17. Senes A, Gerstein M, Engelman DM (2000) Statistical analysis of amino acid patterns in transmembrane helices: the GxxxG motif occurs frequently and in association with beta-branched residues at neighboring positions. J Mol Biol 296: 921-936.
18. Eisenberg D, Weiss RM, Terwilliger TC (1982) The helical hydrophobic moment: a measure of the amphiphilicity of a helix. Nature 299: 371-374.
19. Eisenberg D, Weiss RM, Terwilliger TC (1984) The hydrophobic moment detects periodicity in protein hydrophobicity. Proc Natl Acad Sci U S A 81: 140-144.
20. Driscoll M, Chalfie M (1991) The mec-4 gene is a member of a family of Caenorhabditis elegans genes that can mutate to induce neuronal degeneration. Nature 349: 588-593.
21. Liu W, Eilers M, Patel AB, Smith SO (2004) Helix packing moments reveal diversity and conservation in membrane protein structure. J Mol Biol 337: 713-729.
22. Brown AL, Fernandez-Illescas SM, Liao Z, Goodman MB (2007) Gain-offunction mutations in the MEC-4 DEG/ENaC sensory mechanotransduction channel alter gating and drug blockade. J Gen Physiol 129: 161-173.
23. O'Hagan R, Chalfie M, Goodman MB (2005) The MEC-4 DEG/ENaC channel of Caenorhabditis elegans touch receptor neurons transduces mechanical signals. Nat Neurosci 8: 43-50.
24. Guex N, Peitsch MC (1997) SWISS-MODEL and the Swiss-PdbViewer: an environment for comparative protein modeling. Electrophoresis 18: 2714-2723.
25. Brunger AT, Adams PD, Clore GM, DeLano WL, Gros P, et al. (1998) Crystallography & NMR system: A new software suite for macromolecular structure determination. Acta Crystallogr D Biol Crystallogr 54: 905-921.
26. Laskowski RA, Rullmannn JA, MacArthur MW, Kaptein R, Thornton JM (1996) AQUA and PROCHECK-NMR: programs for checking the quality of protein structures solved by NMR. J Biomol NMR 8: 477-486.
27. Hong K, Mano I, Driscoll M (2000) In vivo structure-function analyses of Caenorhabditis elegans MEC-4, a candidate mechanosensory ion channel subunit. J Neurosci 20: 2575-2588.
28. Royal DC, Bianchi L, Royal MA, Lizzio M, Jr., Mukherjee G, et al. (2005) Temperature-sensitive mutant of the Caenorhabditis elegans neurotoxic MEC-4(d) DEG/ENaC channel identifies a site required for trafficking or surface maintenance. J Biol Chem 280: 41976-41986.
29. Hong K, Driscoll M (1994) A transmembrane domain of the putative channel subunit MEC-4 influences mechanotransduction and neurodegeneration in C. elegans. Nature 367: 470-473.