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Volumn 39, Issue 2, 2014, Pages 107-123

Preferential binding of an odor within olfactory receptors: A precursor to receptor activation

Author keywords

Docking; Molecular dynamics; Odorant binding; Olfactory receptor

Indexed keywords

AZELAIC ACID; HEPTANOIC ACID DERIVATIVE; NONANOIC ACID; OCTANOIC ACID; RHODOPSIN;

EID: 84892520551     PISSN: 0379864X     EISSN: 14643553     Source Type: Journal    
DOI: 10.1093/chemse/bjt060     Document Type: Article
Times cited : (14)

References (82)
  • 1
    • 33646598034 scopus 로고    scopus 로고
    • Functional analysis of a mammalian odorant receptor subfamily
    • Abaffy T, Matsunami H, Luetje CW. 2006. Functional analysis of a mammalian odorant receptor subfamily. J Neurochem. 97:1506-1518.
    • (2006) J Neurochem. , vol.97 , pp. 1506-1518
    • Abaffy, T.1    Matsunami, H.2    Luetje, C.W.3
  • 2
    • 33847704180 scopus 로고    scopus 로고
    • Molecular basis for ligand specificity in a mouse olfactory receptor-a network of functionally important residues
    • Abaffy T, Malhotra A, Luetje CW. 2007. Molecular basis for ligand specificity in a mouse olfactory receptor-a network of functionally important residues. J Biol Chem. 282:1216-1224.
    • (2007) J Biol Chem. , vol.282 , pp. 1216-1224
    • Abaffy, T.1    Malhotra, A.2    Luetje, C.W.3
  • 3
    • 0033712368 scopus 로고    scopus 로고
    • The molecular receptive range of an odorant receptor
    • Araneda RC, Kini AD, Firestein S. 2000. The molecular receptive range of an odorant receptor. Nat Neurosci. 3:1248-1255.
    • (2000) Nat Neurosci. , vol.3 , pp. 1248-1255
    • Araneda, R.C.1    Kini, A.D.2    Firestein, S.3
  • 8
    • 0037092426 scopus 로고    scopus 로고
    • Odorant receptor expression defines functional units in the mouse olfactory system
    • Bozza T, Feinstein P, Zheng C, Mombaerts P. 2002. Odorant receptor expression defines functional units in the mouse olfactory system. J Neurosci. 22:3033-3043.
    • (2002) J Neurosci. , vol.22 , pp. 3033-3043
    • Bozza, T.1    Feinstein, P.2    Zheng, C.3    Mombaerts, P.4
  • 10
    • 65349180881 scopus 로고    scopus 로고
    • Computational biology of olfactory receptors
    • Crasto CJ. 2009. Computational biology of olfactory receptors. Curr Bioinform. 4: 8-15.
    • (2009) Curr Bioinform. , vol.4 , pp. 8-15
    • Crasto, C.J.1
  • 11
    • 84888005594 scopus 로고    scopus 로고
    • Hydrophobicity profiles in G protein-coupled receptor transmembrane helical domains
    • Crasto CJ. 2010. Hydrophobicity profiles in G protein-coupled receptor transmembrane helical domains. J Receptor Ligand Channel Res. 2010:123-133.
    • (2010) J Receptor Ligand Channel Res. , vol.2010 , pp. 123-133
    • Crasto, C.J.1
  • 18
    • 0035025191 scopus 로고    scopus 로고
    • DOCK 4.0: search strategies for automated molecular docking of flexible molecule databases
    • Ewing TJA, Makino S, Skillman AG, Kuntz ID. 2001. DOCK 4.0: search strategies for automated molecular docking of flexible molecule databases. J. Comput-Aided Molec. Design. 15:411-428.
    • (2001) J. Comput-Aided Molec. Design. , vol.15 , pp. 411-428
    • Ewing, T.J.A.1    Makino, S.2    Skillman, A.G.3    Kuntz, I.D.4
  • 19
    • 0347383758 scopus 로고    scopus 로고
    • Modeller: generation and refinement of homologybased protein structure models
    • Fiser A, Sali A. 2003. Modeller: generation and refinement of homologybased protein structure models. Methods Enzymol. 374:461-491.
    • (2003) Methods Enzymol. , vol.374 , pp. 461-491
    • Fiser, A.1    Sali, A.2
  • 20
    • 16644373208 scopus 로고    scopus 로고
    • Making sense of olfaction through predictions of the 3-D structure and function of olfactory receptors
    • Floriano WB, Vaidehi N, Goddard WA, 3rd 2004. Making sense of olfaction through predictions of the 3-D structure and function of olfactory receptors. Chem Senses 29:269-290.
    • (2004) Chem Senses , vol.29 , pp. 269-290
    • Floriano, W.B.1    Vaidehi, N.2    Goddard, W.A.3
  • 21
    • 0034718560 scopus 로고    scopus 로고
    • Molecular mechanisms underlying differential odor responses of a mouse olfactory receptor
    • USA
    • Floriano WB, Vaidehi N, Goddard WA, 3RD, Singer MS, Shepherd GM. 2000. Molecular mechanisms underlying differential odor responses of a mouse olfactory receptor. Proc Natl Acad Sci USA 97:10712-10716.
    • (2000) Proc Natl Acad Sci , vol.97 , pp. 10712-10716
    • Floriano, W.B.1    Vaidehi, N.2    Goddard, W.A.3    Singer, M.S.4    Shepherd, G.M.5
  • 22
    • 0041886501 scopus 로고    scopus 로고
    • Natural selection on the olfactory receptor gene family in humans and chimpanzees
    • Gilad Y, Bustamante CD, Lancet D, Paabo S. 2003. Natural selection on the olfactory receptor gene family in humans and chimpanzees. Am J Hum Genet. 73:489-501.
    • (2003) Am J Hum Genet. , vol.73 , pp. 489-501
    • Gilad, Y.1    Bustamante, C.D.2    Lancet, D.3    Paabo, S.4
  • 23
    • 0033777499 scopus 로고    scopus 로고
    • The olfactory receptor gene superfamily: data mining, classification, and nomenclature
    • Glusman G, Bahar A, Sharon D, Pilpel Y, White J, Lancet D. 2000a. The olfactory receptor gene superfamily: data mining, classification, and nomenclature. Mamm Genome 11:1016-1023.
    • (2000) Mamm Genome , vol.11 , pp. 1016-1023
    • Glusman, G.1    Bahar, A.2    Sharon, D.3    Pilpel, Y.4    White, J.5    Lancet, D.6
  • 26
    • 14144249986 scopus 로고    scopus 로고
    • Predicted 3-D structures for mouse I7 and rat I7 olfactory receptors and comparison of predicted odor recognition profiles with experiment
    • Hall SE, Floriano WB, Vaidehi N, Goddard WA, 3RD 2004. Predicted 3-D structures for mouse I7 and rat I7 olfactory receptors and comparison of predicted odor recognition profiles with experiment. Chem Senses 29:595-616.
    • (2004) Chem Senses , vol.29 , pp. 595-616
    • Hall, S.E.1    Floriano, W.B.2    Vaidehi, N.3    Goddard, W.A.4
  • 28
    • 33746649565 scopus 로고    scopus 로고
    • Olfaction in neurodegenerative disorder
    • Hawkes C. 2006. Olfaction in neurodegenerative disorder. Adv Otorhinolaryngol. 63:133-151.
    • (2006) Adv Otorhinolaryngol. , vol.63 , pp. 133-151
    • Hawkes, C.1
  • 29
    • 52649147983 scopus 로고    scopus 로고
    • Modification of the CHARMM force field for DMPC lipid bilayer
    • Hogberg CJ, Nikitin AM, Lyubartsev AP 2008. Modification of the CHARMM force field for DMPC lipid bilayer. J Comput Chem.29:2359-2369.
    • (2008) J Comput Chem , vol.29 , pp. 2359-2369
    • Hogberg, C.J.1    Nikitin, A.M.2    Lyubartsev, A.P.3
  • 30
    • 0035882299 scopus 로고    scopus 로고
    • Molecular bases of odor discrimination: reconstitution of olfactory receptors that recognize overlapping sets of odorants
    • Kajiya K, Inaki K, Tanaka M, Haga T, Kataoka H, Touhara K. 2001. Molecular bases of odor discrimination: reconstitution of olfactory receptors that recognize overlapping sets of odorants. J Neurosci. 21:6018-6025.
    • (2001) J Neurosci. , vol.21 , pp. 6018-6025
    • Kajiya, K.1    Inaki, K.2    Tanaka, M.3    Haga, T.4    Kataoka, H.5    Touhara, K.6
  • 31
    • 14044270215 scopus 로고    scopus 로고
    • Structural basis for a broad but selective ligand spectrum of a mouse olfactory receptor: mapping the odorant-binding site
    • Katada S, Hirokawa T, Oka Y, Suwa M, Touhara K. 2005. Structural basis for a broad but selective ligand spectrum of a mouse olfactory receptor: mapping the odorant-binding site. J Neurosci. 25:1806-1815.
    • (2005) J Neurosci. , vol.25 , pp. 1806-1815
    • Katada, S.1    Hirokawa, T.2    Oka, Y.3    Suwa, M.4    Touhara, K.5
  • 32
  • 33
    • 70849102167 scopus 로고    scopus 로고
    • Mammalian olfactory receptors: pharmacology, G protein coupling and desensitization
    • Kato A, Touhara K. 2009. Mammalian olfactory receptors: pharmacology, G protein coupling and desensitization. Cell Mol Life Sci. 66:3743-3753.
    • (2009) Cell Mol Life Sci. , vol.66 , pp. 3743-3753
    • Kato, A.1    Touhara, K.2
  • 35
    • 1242338220 scopus 로고    scopus 로고
    • Mechanisms of olfactory dysfunction in aging and neurodegenerative disorders
    • Kovacs T. 2004. Mechanisms of olfactory dysfunction in aging and neurodegenerative disorders. Ageing Res Rev. 3:215-232.
    • (2004) Ageing Res Rev. , vol.3 , pp. 215-232
    • Kovacs, T.1
  • 36
    • 0032417641 scopus 로고    scopus 로고
    • Identification of ligands for olfactory receptors by functional expression of a receptor library
    • Krautwurst D, Yau K-W, Reed R. 1998. Identification of ligands for olfactory receptors by functional expression of a receptor library. Cell 91:917-923.
    • (1998) Cell , vol.91 , pp. 917-923
    • Krautwurst, D.1    Yau, K.-W.2    Reed, R.3
  • 37
    • 0035910270 scopus 로고    scopus 로고
    • Predicting transmembrane protein topology with a hidden Markov model: application to complete genomes
    • Krogh A, Larsson B, Von Heijne G, Sonnhammer EL. 2001. Predicting transmembrane protein topology with a hidden Markov model: application to complete genomes. J Mol Biol. 305:567-580.
    • (2001) J Mol Biol. , vol.305 , pp. 567-580
    • Krogh, A.1    Larsson, B.2    Von Heijne, G.3    Sonnhammer, E.L.4
  • 38
    • 80051521545 scopus 로고    scopus 로고
    • Status of GPCR modeling and docking as reflected by community- wide GPCR Dock 2010 assessment
    • Kufareva I, Rueda M, Katritch V, Stevens RC, Abagyan R, Participants GD. 2011. Status of GPCR modeling and docking as reflected by community- wide GPCR Dock 2010 assessment. Structure 19:1108-1126.
    • (2011) Structure , vol.19 , pp. 1108-1126
    • Kufareva, I.1    Rueda, M.2    Katritch, V.3    Stevens, R.C.4    Abagyan, R.5    Participants, G.D.6
  • 39
    • 84876016110 scopus 로고    scopus 로고
    • Beyond modeling: all-atom olfactory receptor model simulations
    • Lai PC, Crasto CJ. 2012. Beyond modeling: all-atom olfactory receptor model simulations. Front Genet. 3:61.
    • (2012) Front Genet. , vol.3 , pp. 61
    • Lai, P.C.1    Crasto, C.J.2
  • 40
    • 27944475233 scopus 로고    scopus 로고
    • Structural activation pathways from dynamic olfactory receptor-odorant interactions
    • Lai PC, Singer MS, Crasto CJ. 2005. Structural activation pathways from dynamic olfactory receptor-odorant interactions. Chem Senses 30:781-792.
    • (2005) Chem Senses , vol.30 , pp. 781-792
    • Lai, P.C.1    Singer, M.S.2    Crasto, C.J.3
  • 41
    • 84861998443 scopus 로고    scopus 로고
    • A broadly tuned mouse odorant receptor that detects nitrotoluenes
    • Li J, Haddad R, Chen S, Santos V, & Luetje CW. 2012. A broadly tuned mouse odorant receptor that detects nitrotoluenes. J Neurochem. 121:881-890.
    • (2012) J Neurochem. , vol.121 , pp. 881-890
    • Li, J.1    Haddad, R.2    Chen, S.3    Santos, V.4    Luetje, C.W.5
  • 43
    • 3142714765 scopus 로고    scopus 로고
    • Detailed presentation of the new CMAP procedure and its use to treat the conformational properties of the protein backbone: extending the treatment of backbone energetics in protein force fields: limitations of gas-phase quantum mechanics in reproducing protein conformational distributions in molecular dynamics simulations
    • Mackerell AD, JR, Feig M, Brooks CL, III. 2004. Detailed presentation of the new CMAP procedure and its use to treat the conformational properties of the protein backbone: extending the treatment of backbone energetics in protein force fields: limitations of gas-phase quantum mechanics in reproducing protein conformational distributions in molecular dynamics simulations. J Comp Chem. 25:1400-1415.
    • (2004) J Comp Chem. , vol.25 , pp. 1400-1415
    • Mackerell, A.D.J.R.1    Feig, M.2    Brooks, C.L.3
  • 44
    • 0033525727 scopus 로고    scopus 로고
    • Combinatorial receptor codes for odors
    • Malnic B, Hirono J, Sato T, Buck LB. 1999. Combinatorial receptor codes for odors. Cell 96:713-723.
    • (1999) Cell , vol.96 , pp. 713-723
    • Malnic, B.1    Hirono, J.2    Sato, T.3    Buck, L.B.4
  • 45
    • 0346102906 scopus 로고    scopus 로고
    • Prediction of the odorant binding site of olfactory receptor proteins by human-mouse comparisons
    • Man O, Gilad Y, Lancet D. 2004. Prediction of the odorant binding site of olfactory receptor proteins by human-mouse comparisons. Prot Sci. 13:240-254.
    • (2004) Prot Sci. , vol.13 , pp. 240-254
    • Man, O.1    Gilad, Y.2    Lancet, D.3
  • 47
    • 0035779480 scopus 로고    scopus 로고
    • The human repertoire of odorant receptor genes and pseudogenes
    • Mombaerts P. 2001. The human repertoire of odorant receptor genes and pseudogenes. Annu Rev Genom Hum Genet. 2:493-510.
    • (2001) Annu Rev Genom Hum Genet. , vol.2 , pp. 493-510
    • Mombaerts, P.1
  • 49
    • 0033843626 scopus 로고    scopus 로고
    • Towards 3D structures of G protein-coupled receptors: a multidisciplinary approach
    • Muller G. 2000. Towards 3D structures of G protein-coupled receptors: a multidisciplinary approach. Curr Med Chem. 7:861-888.
    • (2000) Curr Med Chem. , vol.7 , pp. 861-888
    • Muller, G.1
  • 50
    • 33847188217 scopus 로고    scopus 로고
    • Odorant receptor map in the mouse olfactory bulb: in vivo sensitivity and specificity of receptor-defined glomeruli
    • Oka Y, Katada S, Omura M, Suwa M, Yoshihara Y, Touhara K. 2006. Odorant receptor map in the mouse olfactory bulb: in vivo sensitivity and specificity of receptor-defined glomeruli. Neuron 52:857-869.
    • (2006) Neuron , vol.52 , pp. 857-869
    • Oka, Y.1    Katada, S.2    Omura, M.3    Suwa, M.4    Yoshihara, Y.5    Touhara, K.6
  • 51
    • 0842266021 scopus 로고    scopus 로고
    • Olfactory receptor antagonism between odorants
    • Oka Y, Omura M, Kataoka H, Touhara K. 2004. Olfactory receptor antagonism between odorants. EMBO J. 23:120-126.
    • (2004) EMBO J. , vol.23 , pp. 120-126
    • Oka, Y.1    Omura, M.2    Kataoka, H.3    Touhara, K.4
  • 52
    • 4344581120 scopus 로고    scopus 로고
    • The retinal conformation and its environment in rhodopsin in light of a new 22 A crystal structure
    • Okada T, Sugihara M, Bondar AN, Elstner M, Entel P, Buss V. 2004. The retinal conformation and its environment in rhodopsin in light of a new 2.2 A crystal structure. J Mol Biol. 342:571-583.
    • (2004) J Mol Biol. , vol.342 , pp. 571-583
    • Okada, T.1    Sugihara, M.2    Bondar, A.N.3    Elstner, M.4    Entel, P.5    Buss, V.6
  • 54
    • 84864251400 scopus 로고    scopus 로고
    • Synthesis and nicotinic acetylcholine receptor in vitro and in vivo pharmacological properties of 2'-fluoro-3'-(substituted phenyl)deschloroepibatidine analogues of 2'-fluoro-3'-(4-nitrophenyl) deschloroepibatidine
    • Ondachi P, Castro A, Luetje CW, Damaj MI, Mascarella SW, Navarro HA, Carroll FI. 2012. Synthesis and nicotinic acetylcholine receptor in vitro and in vivo pharmacological properties of 2'-fluoro-3'-(substituted phenyl)deschloroepibatidine analogues of 2'-fluoro-3'-(4-nitrophenyl) deschloroepibatidine. J Med Chem. 55:6512-6522.
    • (2012) J Med Chem. , vol.55 , pp. 6512-6522
    • Ondachi, P.1    Castro, A.2    Luetje, C.W.3    Damaj, M.I.4    Mascarella, S.W.5    Navarro, H.A.6    Carroll, F.I.7
  • 57
    • 61849133441 scopus 로고    scopus 로고
    • Molecular receptive range variation among mouse odorant receptors for aliphatic carboxylic acids
    • Repicky SE, & Luetje CW. 2009. Molecular receptive range variation among mouse odorant receptors for aliphatic carboxylic acids. J Neurochem. 109:193-202.
    • (2009) J Neurochem. , vol.109 , pp. 193-202
    • Repicky, S.E.1    Luetje, C.W.2
  • 59
    • 0034646331 scopus 로고    scopus 로고
    • The olfactory receptor gene repertoire in primates and mouse: Evidence for reduction of the functional fraction in primates
    • Rouquier S, Blancher A, Giorgi D 2000. The olfactory receptor gene repertoire in primates and mouse: Evidence for reduction of the functional fraction in primates. Proc Natl Acad Sci USA 97:2870-2874.
    • (2000) Proc Natl Acad Sci USA , vol.97 , pp. 2870-2874
    • Rouquier, S.1    Blancher, A.2    Giorgi, D.3
  • 62
    • 0029556994 scopus 로고
    • Projection structure of frog rhodopsin in two crystal forms
    • USA
    • Schertler GF, Hargrave PA. 1995. Projection structure of frog rhodopsin in two crystal forms. Proc Natl Acad Sci USA 92:11578-11582.
    • (1995) Proc Natl Acad Sci , vol.92 , pp. 11578-11582
    • Schertler, G.F.1    Hargrave, P.A.2
  • 63
  • 65
    • 0034042247 scopus 로고    scopus 로고
    • Analysis of the molecular basis for octanal interactions in the expressed rat 17 olfactory receptor
    • Singer MS. 2000. Analysis of the molecular basis for octanal interactions in the expressed rat 17 olfactory receptor. Chem Senses 25:155-165.
    • (2000) Chem Senses , vol.25 , pp. 155-165
    • Singer, M.S.1
  • 66
    • 0032539040 scopus 로고    scopus 로고
    • Identification of olfactory receptor mRNA sequences from the rat olfactory bulb glomerular layer
    • Singer MS, Hughes TE, Shepherd GM, Greer CA. 1998. Identification of olfactory receptor mRNA sequences from the rat olfactory bulb glomerular layer. Neuroreport 9:3745-3748.
    • (1998) Neurorepor , vol.9 , pp. 3745-3748
    • Singer, M.S.1    Hughes, T.E.2    Shepherd, G.M.3    Greer, C.A.4
  • 67
    • 0029164276 scopus 로고
    • Potential ligand-binding residues in rat olfactory receptors identified by correlated mutation analysis
    • Singer MS, Oliveira L, Vriend G, Shepherd GM. 1995. Potential ligand-binding residues in rat olfactory receptors identified by correlated mutation analysis. Receptors Channels 3:89-95.
    • (1995) Receptors Channels , vol.3 , pp. 89-95
    • Singer, M.S.1    Oliveira, L.2    Vriend, G.3    Shepherd, G.M.4
  • 68
    • 0035815176 scopus 로고    scopus 로고
    • Functional cloning and reconstitution of vertebrate odorant receptors
    • Touhara K. 2001. Functional cloning and reconstitution of vertebrate odorant receptors. Life Sci. 68:2199-2206.
    • (2001) Life Sci. , vol.68 , pp. 2199-2206
    • Touhara, K.1
  • 69
    • 0036668321 scopus 로고    scopus 로고
    • Odor discrimination by G protein-coupled olfactory receptors
    • Touhara K. 2002. Odor discrimination by G protein-coupled olfactory receptors. Microsc Res Tech. 58:135-141.
    • (2002) Microsc Res Tech. , vol.58 , pp. 135-141
    • Touhara, K.1
  • 71
    • 33747840389 scopus 로고    scopus 로고
    • GRAMM-X public web server for protein- protein docking
    • Tovchigrechko A, Vakser IA. 2006. GRAMM-X public web server for protein- protein docking. Nucleic Acids Res. 34:W310-W314.
    • (2006) Nucleic Acids Res. , vol.34
    • Tovchigrechko, A.1    Vakser, I.A.2
  • 72
    • 1942487807 scopus 로고    scopus 로고
    • First principles predictions of the structure and function of g-protein-coupled receptors: validation for bovine rhodopsin
    • Trabanino RJ, Hall SE, Vaidehi N, Floriano WB, Kam VW, Goddard WA, 3rd 2004. First principles predictions of the structure and function of g-protein-coupled receptors: validation for bovine rhodopsin. Biophys J. 86:1904-1921.
    • (2004) Biophys J , vol.86 , pp. 1904-1921
    • Trabanino, R.J.1    Hall, S.E.2    Vaidehi, N.3    Floriano, W.B.4    Kam, V.W.5    Goddard, W.A.6
  • 73
    • 0034786532 scopus 로고    scopus 로고
    • The HMMTOP transmembrane topology prediction server
    • Tusnady GE, Simon I. 2001. The HMMTOP transmembrane topology prediction server. Bioinformatics 17:849-850.
    • (2001) Bioinformatics , vol.17 , pp. 849-850
    • Tusnady, G.E.1    Simon, I.2
  • 75
    • 0031296607 scopus 로고    scopus 로고
    • Evaluation of GRAMM low-resolution docking methodology on the hemagglutinin-antibody complex
    • Vakser IA. 1997. Evaluation of GRAMM low-resolution docking methodology on the hemagglutinin-antibody complex. Proteins Suppl 1:226-230.
    • (1997) Proteins , vol.1 , Issue.SUPPL. , pp. 226-230
    • Vakser, I.A.1
  • 76
    • 0034800005 scopus 로고    scopus 로고
    • Strategies for modeling the interactions of transmembrane helices of G protein-coupled receptors by geometric complementarity using the GRAMM computer algorithm
    • Vakser IA, Jiang S. 2002. Strategies for modeling the interactions of transmembrane helices of G protein-coupled receptors by geometric complementarity using the GRAMM computer algorithm. Methods Enzymol. 343:313-328.
    • (2002) Methods Enzymol. , vol.343 , pp. 313-328
    • Vakser, I.A.1    Jiang, S.2
  • 80
    • 0037092592 scopus 로고    scopus 로고
    • The sense of smell: genomics of vertebrate odorant receptors
    • Young JM, Trask BJ 2002. The sense of smell: genomics of vertebrate odorant receptors. Hum Mol Genet. 11:1153-1160.
    • (2002) Hum Mol Genet , vol.11 , pp. 1153-1160
    • Young, J.M.1    Trask, B.J.2
  • 82


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