Soo-Kyung Kim - Publications

Affiliations: 
California Institute of Technology, Pasadena, CA 

60 high-probability publications. We are testing a new system for linking publications to authors. You can help! If you notice any inaccuracies, please sign in and mark papers as correct or incorrect matches. If you identify any major omissions or other inaccuracies in the publication list, please let us know.

Year Citation  Score
2022 Mafi A, Kim SK, Goddard WA. The mechanism for ligand activation of the GPCR-G protein complex. Proceedings of the National Academy of Sciences of the United States of America. 119: e2110085119. PMID 35452328 DOI: 10.1073/pnas.2110085119  0.315
2021 Jang J, Kim SK, Guthrie B, Goddard WA. Synergic Effects in the Activation of the Sweet Receptor GPCR Heterodimer for Various Sweeteners Predicted Using Molecular Metadynamics Simulations. Journal of Agricultural and Food Chemistry. PMID 34613740 DOI: 10.1021/acs.jafc.1c03779  0.31
2021 Mafi A, Kim SK, Chou KC, Güthrie B, Goddard WA. Predicted Structure of Fully Activated Tas1R3/1R3' Homodimer Bound to G Protein and Natural Sugars: Structural Insights into G Protein Activation by a Class C Sweet Taste Homodimer with Natural Sugars. Journal of the American Chemical Society. PMID 34585929 DOI: 10.1021/jacs.1c08839  0.313
2021 Yang MY, Kim SK, Kim D, Liggett SB, Goddard WA. Structures and Agonist Binding Sites of Bitter Taste Receptor TAS2R5 Complexed with Gi Protein and Validated against Experiment. The Journal of Physical Chemistry Letters. 9293-9300. PMID 34542294 DOI: 10.1021/acs.jpclett.1c02162  0.513
2021 Yang MY, Mafi A, Kim S, Goddard WA, Guthrie B. Predicted structure of fully activated human bitter taste receptor TAS2R4 complexed with G protein and agonists Qrb Discovery. 2. DOI: 10.1017/qrd.2021.1  0.485
2020 Mafi A, Kim SK, Goddard WA. Mechanism of β-arrestin recruitment by the μ-opioid G protein-coupled receptor. Proceedings of the National Academy of Sciences of the United States of America. PMID 32601232 DOI: 10.1073/Pnas.1918264117  0.404
2020 Mafi A, Kim SK, Goddard WA. The atomistic level structure for the activated human κ-opioid receptor bound to the full Gi protein and the MP1104 agonist. Proceedings of the National Academy of Sciences of the United States of America. PMID 32127473 DOI: 10.1073/Pnas.1910006117  0.476
2020 Sharma VK, Xuyu Y, Sanchez D, Kim S, Goddard WA, Loh YP. Extracellular interaction between Neurotrophic factor‐α1 and HTR1E serotonin receptor promotes cell survival The Faseb Journal. 34: 1-1. DOI: 10.1096/Fasebj.2020.34.S1.01952  0.431
2019 Jeong P, Kim SK, Li Q, Oh SJ, Son S, Chen G, Tan H, Kim S, Park JH, Park KD, Kim YO, Yoon MH, Kim YC, Goddard W. Discovery of Novel Biased Opioid Receptor Ligands through Structure-Based Pharmacophore Virtual Screening and Experiment. Chemmedchem. PMID 31359587 DOI: 10.1002/Cmdc.201900418  0.621
2017 Shankar V, Goddard WA, Kim SK, Abrol R. The Predicted 3D Structure of Human DP Prostaglandin G Protein-Coupled Receptor Bound to CPI Antagonist. Journal of Chemical Theory and Computation. PMID 29268008 DOI: 10.1021/Acs.Jctc.7B00842  0.566
2017 Kim SK, Chen Y, Abrol R, Goddard WA, Guthrie B. Activation mechanism of the G protein-coupled sweet receptor heterodimer with sweeteners and allosteric agonists. Proceedings of the National Academy of Sciences of the United States of America. PMID 28228527 DOI: 10.1073/Pnas.1700001114  0.562
2016 Kim JH, Kim SK, Lee JH, Kim YJ, Goddard WA, Kim YC. Homology modeling and molecular docking studies of Drosophila and Aedes sex peptide receptors. Journal of Molecular Graphics & Modelling. 66: 115-122. PMID 27060892 DOI: 10.1016/J.Jmgm.2016.03.014  0.671
2015 de March CA, Kim SK, Antonczak S, Goddard WA, Golebiowski J. G protein-coupled odorant receptors: From sequence to structure. Protein Science : a Publication of the Protein Society. PMID 26044705 DOI: 10.1002/Pro.2717  0.481
2015 Li Q, Kim SK, Goddard WA, Chen G, Tan H. Predicted structures for kappa opioid G-protein coupled receptor bound to selective agonists. Journal of Chemical Information and Modeling. 55: 614-27. PMID 25642595 DOI: 10.1021/Ci500523Z  0.569
2014 Kim SK, Goddard WA. Predicted 3D structures of olfactory receptors with details of odorant binding to OR1G1. Journal of Computer-Aided Molecular Design. 28: 1175-90. PMID 25224127 DOI: 10.1007/S10822-014-9793-4  0.481
2014 Kim SK, Goddard WA, Yi KY, Lee BH, Lim CJ, Trzaskowski B. Predicted ligands for the human urotensin-II G protein-coupled receptor with some experimental validation. Chemmedchem. 9: 1732-43. PMID 24989481 DOI: 10.1002/Cmdc.201402087  0.455
2013 Abrol R, Kim SK, Bray JK, Trzaskowski B, Goddard WA. Conformational ensemble view of G protein-coupled receptors and the effect of mutations and ligand binding. Methods in Enzymology. 520: 31-48. PMID 23332694 DOI: 10.1016/B978-0-12-391861-1.00002-2  0.569
2012 Charlier L, Topin J, Ronin C, Kim SK, Goddard WA, Efremov R, Golebiowski J. How broadly tuned olfactory receptors equally recognize their agonists. Human OR1G1 as a test case. Cellular and Molecular Life Sciences : Cmls. 69: 4205-13. PMID 22926438 DOI: 10.1007/S00018-012-1116-0  0.545
2011 Abrol R, Kim SK, Bray JK, Griffith AR, Goddard WA. Characterizing and predicting the functional and conformational diversity of seven-transmembrane proteins. Methods (San Diego, Calif.). 55: 405-14. PMID 22197575 DOI: 10.1016/J.Ymeth.2011.12.005  0.512
2011 Kim SK, Fristrup P, Abrol R, Goddard WA. Structure-based prediction of subtype selectivity of histamine H 3 receptor selective antagonists in clinical trials Journal of Chemical Information and Modeling. 51: 3262-3274. PMID 22035233 DOI: 10.1021/Ci200435B  0.497
2011 Kim SK, Riley L, Abrol R, Jacobson KA, Goddard WA. Predicted structures of agonist and antagonist bound complexes of adenosine A3 receptor. Proteins. 79: 1878-97. PMID 21488099 DOI: 10.1002/Prot.23012  0.665
2011 Kim SK, Li Y, Abrol R, Heo J, Goddard WA. Predicted structures and dynamics for agonists and antagonists bound to serotonin 5-HT2B and 5-HT2C receptors. Journal of Chemical Information and Modeling. 51: 420-33. PMID 21299232 DOI: 10.1021/Ci100375B  0.533
2010 Kim SK, Li Y, Park C, Abrol R, Goddard WA. Prediction of the three-dimensional structure for the rat urotensin II receptor, and comparison of the antagonist binding sites and binding selectivity between human and rat receptors from atomistic simulations. Chemmedchem. 5: 1594-608. PMID 20683923 DOI: 10.1002/Cmdc.201000175  0.515
2010 Goddard WA, Kim SK, Li Y, Trzaskowski B, Griffith AR, Abrol R. Predicted 3D structures for adenosine receptors bound to ligands: comparison to the crystal structure. Journal of Structural Biology. 170: 10-20. PMID 20079848 DOI: 10.1016/J.Jsb.2010.01.001  0.492
2009 Gallagher DT, Smith N, Kim SK, Robinson H, Reddy PT. Profound asymmetry in the structure of the cAMP-free cAMP Receptor Protein (CRP) from Mycobacterium tuberculosis. The Journal of Biological Chemistry. 284: 8228-32. PMID 19193643 DOI: 10.1074/Jbc.C800215200  0.431
2008 Wess J, Han SJ, Kim SK, Jacobson KA, Li JH. Conformational changes involved in G-protein-coupled-receptor activation. Trends in Pharmacological Sciences. 29: 616-25. PMID 18838178 DOI: 10.1016/J.Tips.2008.08.006  0.646
2008 Melman A, Wang B, Joshi BV, Gao ZG, Castro Sd, Heller CL, Kim SK, Jeong LS, Jacobson KA. Selective A(3) adenosine receptor antagonists derived from nucleosides containing a bicyclo[3.1.0]hexane ring system. Bioorganic & Medicinal Chemistry. 16: 8546-56. PMID 18752961 DOI: 10.1016/J.Bmc.2008.08.007  0.812
2008 Li JH, Hamdan FF, Kim SK, Jacobson KA, Zhang X, Han SJ, Wess J. Ligand-specific changes in M3 muscarinic acetylcholine receptor structure detected by a disulfide scanning strategy. Biochemistry. 47: 2776-88. PMID 18247581 DOI: 10.1021/Bi7019113  0.678
2007 Li JH, Han SJ, Hamdan FF, Kim SK, Jacobson KA, Bloodworth LM, Zhang X, Wess J. Distinct structural changes in a G protein-coupled receptor caused by different classes of agonist ligands. The Journal of Biological Chemistry. 282: 26284-93. PMID 17623649 DOI: 10.1074/Jbc.M704875200  0.701
2007 Scarselli M, Li B, Kim SK, Wess J. Multiple residues in the second extracellular loop are critical for M3 muscarinic acetylcholine receptor activation. The Journal of Biological Chemistry. 282: 7385-96. PMID 17213190 DOI: 10.1074/Jbc.M610394200  0.522
2007 Li B, Scarselli M, Knudsen CD, Kim SK, Jacobson KA, McMillin SM, Wess J. Rapid identification of functionally critical amino acids in a G protein-coupled receptor. Nature Methods. 4: 169-74. PMID 17206152 DOI: 10.1038/Nmeth990  0.581
2007 Li JH, Han S, Hamdan FF, Kim S, Jacobson KA, Bloodworth LM, Zhang X, Wess J. Identification of distinct, ligand‐specific structural changes in a G protein‐coupled receptor The Faseb Journal. 21. DOI: 10.1096/Fasebj.21.5.A425-C  0.593
2006 Cosyn L, Palaniappan KK, Kim SK, Duong HT, Gao ZG, Jacobson KA, Van Calenbergh S. 2-triazole-substituted adenosines: a new class of selective A3 adenosine receptor agonists, partial agonists, and antagonists. Journal of Medicinal Chemistry. 49: 7373-83. PMID 17149867 DOI: 10.1021/Jm0608208  0.7
2006 Jacobson KA, Costanzi S, Kim SK, Roh E, Joshi BV, Tchilibon S, Duong HT, Gao ZG. Action of nucleosides and nucleotides at 7 transmembrane-spanning receptors. Nucleosides, Nucleotides & Nucleic Acids. 25: 1425-36. PMID 17067963 DOI: 10.1080/15257770600919027  0.836
2006 Kim SK, Gao ZG, Jeong LS, Jacobson KA. Docking studies of agonists and antagonists suggest an activation pathway of the A3 adenosine receptor. Journal of Molecular Graphics & Modelling. 25: 562-77. PMID 16793299 DOI: 10.1016/J.Jmgm.2006.05.004  0.731
2006 Kim SK, Jacobson KA. Computational prediction of homodimerization of the A3 adenosine receptor. Journal of Molecular Graphics & Modelling. 25: 549-61. PMID 16781879 DOI: 10.1016/J.Jmgm.2006.03.003  0.567
2006 Gao ZG, Duong HT, Sonina T, Kim SK, Van Rompaey P, Van Calenbergh S, Mamedova L, Kim HO, Kim MJ, Kim AY, Liang BT, Jeong LS, Jacobson KA. Orthogonal activation of the reengineered A3 adenosine receptor (neoceptor) using tailored nucleoside agonists. Journal of Medicinal Chemistry. 49: 2689-702. PMID 16640329 DOI: 10.1021/Jm050968B  0.826
2006 Gao ZG, Joshi BV, Klutz AM, Kim SK, Lee HW, Kim HO, Jeong LS, Jacobson KA. Conversion of A3 adenosine receptor agonists into selective antagonists by modification of the 5'-ribofuran-uronamide moiety. Bioorganic & Medicinal Chemistry Letters. 16: 596-601. PMID 16289820 DOI: 10.1016/J.Bmcl.2005.10.054  0.669
2006 Gao Z, Joshi BV, Klutz AM, Kim S, Lee HW, Kim HO, Jeong LS, Jacobson KA. Conversion of A3 Adenosine Receptor Agonists into Selective Antagonists by Modification of the 5′-Ribofuran-uronamide Moiety. Cheminform. 37. DOI: 10.1002/CHIN.200618207  0.646
2005 Han SJ, Hamdan FF, Kim SK, Jacobson KA, Bloodworth LM, Li B, Wess J. Identification of an agonist-induced conformational change occurring adjacent to the ligand-binding pocket of the M(3) muscarinic acetylcholine receptor. The Journal of Biological Chemistry. 280: 34849-58. PMID 16093246 DOI: 10.1074/Jbc.M506711200  0.701
2005 Gao ZG, Kim SK, Ijzerman AP, Jacobson KA. Allosteric modulation of the adenosine family of receptors. Mini Reviews in Medicinal Chemistry. 5: 545-53. PMID 15974932 DOI: 10.2174/1389557054023242  0.679
2005 Han SJ, Hamdan FF, Kim SK, Jacobson KA, Brichta L, Bloodworth LM, Li JH, Wess J. Pronounced conformational changes following agonist activation of the M(3) muscarinic acetylcholine receptor. The Journal of Biological Chemistry. 280: 24870-9. PMID 15870064 DOI: 10.1074/Jbc.M500379200  0.673
2005 Tchilibon S, Joshi BV, Kim SK, Duong HT, Gao ZG, Jacobson KA. (N)-methanocarba 2,N6-disubstituted adenine nucleosides as highly potent and selective A3 adenosine receptor agonists. Journal of Medicinal Chemistry. 48: 1745-58. PMID 15771421 DOI: 10.1021/Jm049580R  0.644
2005 Jacobson KA, Ohno M, Duong HT, Kim SK, Tchilibon S, Cesnek M, Holý A, Gao ZG. A neoceptor approach to unraveling microscopic interactions between the human A2A adenosine receptor and its agonists. Chemistry & Biology. 12: 237-47. PMID 15734651 DOI: 10.1016/J.Chembiol.2004.12.010  0.686
2005 Lou H, Kim SK, Zaitsev E, Snell CR, Lu B, Loh YP. Sorting and activity-dependent secretion of BDNF require interaction of a specific motif with the sorting receptor carboxypeptidase E Neuron. 45: 245-255. PMID 15664176 DOI: 10.1016/J.Neuron.2004.12.037  0.409
2005 Li B, Nowak NM, Kim SK, Jacobson KA, Bagheri A, Schmidt C, Wess J. Random mutagenesis of the M3 muscarinic acetylcholine receptor expressed in yeast: identification of second-site mutations that restore function to a coupling-deficient mutant M3 receptor. The Journal of Biological Chemistry. 280: 5664-75. PMID 15572356 DOI: 10.1074/Jbc.M411623200  0.653
2004 Jacobson KA, Kim SK, Costanzi S, Gao ZG. Purine receptors: GPCR structure and agonist design. Molecular Interventions. 4: 337-47. PMID 15616163 DOI: 10.1124/Mi.4.6.7  0.802
2004 Jeong LS, Kim MJ, Kim HO, Gao ZG, Kim SK, Jacobson KA, Chun MW. Design and synthesis of 3'-ureidoadenosine-5'-uronamides: effects of the 3'-ureido group on binding to the A3 adenosine receptor. Bioorganic & Medicinal Chemistry Letters. 14: 4851-4. PMID 15341938 DOI: 10.1016/J.Bmcl.2004.07.042  0.657
2004 Ohno M, Gao ZG, Van Rompaey P, Tchilibon S, Kim SK, Harris BA, Gross AS, Duong HT, Van Calenbergh S, Jacobson KA. Modulation of adenosine receptor affinity and intrinsic efficacy in adenine nucleosides substituted at the 2-position. Bioorganic & Medicinal Chemistry. 12: 2995-3007. PMID 15142558 DOI: 10.1016/J.Bmc.2004.03.031  0.71
2004 Tchilibon S, Kim SK, Gao ZG, Harris BA, Blaustein JB, Gross AS, Duong HT, Melman N, Jacobson KA. Exploring distal regions of the A3 adenosine receptor binding site: sterically constrained N6-(2-phenylethyl)adenosine derivatives as potent ligands. Bioorganic & Medicinal Chemistry. 12: 2021-34. PMID 15080906 DOI: 10.1016/J.Bmc.2004.02.037  0.694
2004 Jung KY, Kim SK, Gao ZG, Gross AS, Melman N, Jacobson KA, Kim YC. Structure-activity relationships of thiazole and thiadiazole derivatives as potent and selective human adenosine A3 receptor antagonists. Bioorganic & Medicinal Chemistry. 12: 613-23. PMID 14738972 DOI: 10.1016/J.Bmc.2003.10.041  0.781
2003 Moro S, Deflorian F, Spalluto G, Pastorin G, Cacciari B, Kim SK, Jacobson KA. Demystifying the three dimensional structure of G protein-coupled receptors (GPCRs) with the aid of molecular modeling. Chemical Communications (Cambridge, England). 2949-56. PMID 14703805 DOI: 10.1039/B303439A  0.758
2003 Kim SK, Gao ZG, Van Rompaey P, Gross AS, Chen A, Van Calenbergh S, Jacobson KA. Modeling the adenosine receptors: comparison of the binding domains of A2A agonists and antagonists. Journal of Medicinal Chemistry. 46: 4847-59. PMID 14584936 DOI: 10.1021/Jm0300431  0.668
2003 Lee S, Yi KY, Kim SK, Suh J, Kim NJ, Yoo SE, Lee BH, Seo HW, Kim SO, Lim H. Cardioselective anti-ischemic ATP-sensitive potassium channel (KATP) openers: benzopyranyl indoline and indole analogues. European Journal of Medicinal Chemistry. 38: 459-71. PMID 12767596 DOI: 10.1016/S0223-5234(03)00063-1  0.308
2003 Gao ZG, Kim SK, Gross AS, Chen A, Blaustein JB, Jacobson KA. Identification of essential residues involved in the allosteric modulation of the human A(3) adenosine receptor. Molecular Pharmacology. 63: 1021-31. PMID 12695530 DOI: 10.1124/Mol.63.5.1021  0.679
2003 Jacobson KA, Kim HS, Ravi G, Kim S, Lee K, Chen A, Chen W, Kim SG, Barak D, Liang BT, Gao Z. Engineering of A3 adenosine and P2Y nucleotide receptors and their ligands Drug Development Research. 58: 330-339. DOI: 10.1002/Ddr.10168  0.801
2002 Gao ZG, Kim SK, Biadatti T, Chen W, Lee K, Barak D, Kim SG, Johnson CR, Jacobson KA. Structural determinants of A(3) adenosine receptor activation: nucleoside ligands at the agonist/antagonist boundary. Journal of Medicinal Chemistry. 45: 4471-84. PMID 12238926 DOI: 10.1021/jm020211  0.796
2002 Gao ZG, Chen A, Barak D, Kim SK, Müller CE, Jacobson KA. Identification by site-directed mutagenesis of residues involved in ligand recognition and activation of the human A3 adenosine receptor. The Journal of Biological Chemistry. 277: 19056-63. PMID 11891221 DOI: 10.1074/Jbc.M110960200  0.748
1999 Yoo S, Kim S, Lee S, Yi KY, Lee D. A comparative molecular field analysis and molecular modelling studies on pyridylimidazole type of angiotensin II antagonists. Bioorganic & Medicinal Chemistry. 7: 2971-2976. PMID 10658603 DOI: 10.1016/S0968-0896(99)00245-X  0.422
1997 Yoo S, Lee S, Kim S, Lee S. The conformation and activity relationship of benzofuran derivatives as angiotensin II receptor antagonists Bioorganic & Medicinal Chemistry. 5: 445-459. PMID 9061209 DOI: 10.1016/S0968-0896(96)00244-1  0.516
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