1 |
Morris GM, Huey R, Lindstrom W, Sanner MF, Belew RK, Goodsell DS, et al. AutoDock4 and AutoDockTools4: automated docking with selective receptor flexibility. J Comput Chem 2009; 30:2785-2791.
DOI
|
2 |
Ballesteros JA, Weinstein H. Integrated methods for the construction of three-dimensional models and computational probing of structure-function relations in G protein-coupled receptors. Methods Neurosci 1995;25:366-428.
DOI
|
3 |
Lebon G, Warne T, Edwards PC, Bennett K, Langmead CJ, Leslie AG, et al. Agonist-bound adenosine A2A receptor structures reveal common features of GPCR activation. Nature 2011;474:521-525.
DOI
|
4 |
Kall L, Krogh A, Sonnhammer EL. A combined transmembrane topology and signal peptide prediction method. J Mol Biol 2004;338:1027-1036.
DOI
|
5 |
Burley SK, Bhikadiya C, Bi C, Bittrich S, Chen L, Crichlow GV, et al. RCSB Protein Data Bank: powerful new tools for exploring 3D structures of biological macromolecules for basic and applied research and education in fundamental biology, biomedicine, biotechnology, bioengineering and energy sciences. Nucleic Acids Res 2021;49:D437-D451.
DOI
|
6 |
Webb B, Sali A. Comparative protein structure modeling using MODELLER. Curr Protoc Bioinformatics 2016;54:5.6.1-5.6.37.
|
7 |
Sievers F, Higgins DG. Clustal Omega for making accurate alignments of many protein sequences. Protein Sci 2018;27:135-145.
DOI
|
8 |
Koes DR, Baumgartner MP, Camacho CJ. Lessons learned in empirical scoring with smina from the CSAR 2011 benchmarking exercise. J Chem Inf Model 2013;53:1893-1904.
DOI
|
9 |
Kyte J, Doolittle RF. A simple method for displaying the hydropathic character of a protein. J Mol Biol 1982;157:105-132.
DOI
|
10 |
Li H, Leung KS, Wong MH. idock: a multithreaded virtual screening tool for flexible ligand docking. In: 2012 IEEE Symposium on Computational Intelligence in Bioinformatics and Computational Biology (CIBCB), 2012 May 9-12, San Diego, CA, USA. New York: Institute of Electrical and Electronics Engineers, 2012. pp. 77-84.
|
11 |
Masters L, Eagon S, Heying M. Evaluation of consensus scoring methods for AutoDock Vina, smina and idock. J Mol Graph Model 2020;96:107532.
DOI
|
12 |
Carpenter B, Nehme R, Warne T, Leslie AG, Tate CG. Structure of the adenosine A(2A) receptor bound to an engineered G protein. Nature 2016;536:104-107.
DOI
|
13 |
Tusnady GE, Simon I. Principles governing amino acid composition of integral membrane proteins: application to topology prediction. J Mol Biol 1998;283:489-506.
DOI
|
14 |
Oh SJ. System-wide expression and function of olfactory receptors in mammals. Genomics Inform 2018;16:2-9.
DOI
|
15 |
The UniProt Consortium. UniProt: a worldwide hub of protein knowledge. Nucleic Acids Res 2019;47:D506-D515.
DOI
|
16 |
Saito H, Chi Q, Zhuang H, Matsunami H, Mainland JD. Odor coding by a mammalian receptor repertoire. Sci Signal 2009;2:ra9.
DOI
|
17 |
Adipietro KA, Mainland JD, Matsunami H. Functional evolution of mammalian odorant receptors. PLoS Genet 2012;8:e1002821.
DOI
|
18 |
Mainland JD, Li YR, Zhou T, Liu WL, Matsunami H. Human olfactory receptor responses to odorants. Sci Data 2015;2:150002.
DOI
|
19 |
Altschul SF, Madden TL, Schaffer AA, Zhang J, Zhang Z, Miller W, et al. Gapped BLAST and PSI-BLAST: a new generation of protein database search programs. Nucleic Acids Res 1997;25:3389-3402.
DOI
|
20 |
Berman HM, Westbrook J, Feng Z, Gilliland G, Bhat TN, Weissig H, et al. The Protein Data Bank. Nucleic Acids Res 2000;28:235-242.
DOI
|
21 |
Lee SJ, Depoortere I, Hatt H. Therapeutic potential of ectopic olfactory and taste receptors. Nat Rev Drug Discov 2019;18:116-138.
DOI
|
22 |
Jaakola VP, Griffith MT, Hanson MA, Cherezov V, Chien EY, Lane JR, et al. The 2.6 angstrom crystal structure of a human A2A adenosine receptor bound to an antagonist. Science 2008; 322:1211-1217.
DOI
|
23 |
Xu F, Wu H, Katritch V, Han GW, Jacobson KA, Gao ZG, et al. Structure of an agonist-bound human A2A adenosine receptor. Science 2011;332:322-327.
DOI
|
24 |
Altschul SF, Gish W, Miller W, Myers EW, Lipman DJ. Basic local alignment search tool. J Mol Biol 1990;215:403-410.
DOI
|
25 |
Trott O, Olson AJ. AutoDock Vina: improving the speed and accuracy of docking with a new scoring function, efficient optimization, and multithreading. J Comput Chem 2010;31:455-461.
DOI
|