Judy Kim

Title(s)Professor, Chemistry and Biochemistry
SchoolVc-academic Affairs
Address9500 Gilman Drive #
La Jolla CA 92093
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    Altmetrics Details PMC Citations indicate the number of times the publication was cited by articles in PubMed Central, and the Altmetric score represents citations in news articles and social media. (Note that publications are often cited in additional ways that are not shown here.) Fields are based on how the National Library of Medicine (NLM) classifies the publication's journal and might not represent the specific topic of the publication. Translation tags are based on the publication type and the MeSH terms NLM assigns to the publication. Some publications (especially newer ones and publications not in PubMed) might not yet be assigned Field or Translation tags.) Click a Field or Translation tag to filter the publications.
    1. Electrochemical and Structural Study of the Buried Tryptophan in Azurin: Effects of Hydration and Polarity on the Redox Potential of W48. J Phys Chem B. 2023 01 12; 127(1):133-143. Tyson K, Tangtartharakul CB, Zeug M, Findling N, Haddy A, Hvastkovs E, Choe JY, Kim JE, Offenbacher AR. PMID: 36542812; PMCID: PMC9841983.
      View in: PubMed   Mentions:    Fields:    Translation:Cells
    2. Photoinduced Electron Transfer from the Tryptophan Triplet State in Zn-Azurin. ACS Phys Chem Au. 2023 Jan 25; 3(1):63-73. Rivera JJ, Trinh C, Kim JE. PMID: 36718260; PMCID: PMC9881450.
      View in: PubMed   Mentions:
    3. Role of the Triplet State and Protein Dynamics in the Formation and Stability of the Tryptophan Radical in an Apoazurin Mutant. J Phys Chem B. 2022 09 15; 126(36):6751-6761. L?pez-Pe?a I, Lee CT, Rivera JJ, Kim JE. PMID: 35977067; PMCID: PMC9483921.
      View in: PubMed   Mentions: 2     Fields:    
    4. Corrigendum to "Bimolecular quenching of tryptophan fluorescence in a membrane protein: Evolution of local solvation and environment during folding into a bilayer" [Spectrochim. Acta Part A: Mol. Biomol. Spectrosc. 260 (2021) 119919]. Spectrochim Acta A Mol Biomol Spectrosc. 2022 Jun 05; 274:121093. Asamoto DK, Kozachenko IA, L?pez-Pe?a I, Kim JE. PMID: 35305521.
      View in: PubMed   Mentions:    Fields:    
    5. Bimolecular quenching of tryptophan fluorescence in a membrane protein: Evolution of local solvation and environment during folding into a bilayer. Spectrochim Acta A Mol Biomol Spectrosc. 2021 Nov 05; 260:119919. Asamoto DK, Kozachenko IA, L?pez-Pe?a I, Kim JE. PMID: 34004426.
      View in: PubMed   Mentions: 1     Fields:    Translation:Cells
    6. The structural basis for monoclonal antibody 5D2 binding to the tryptophan-rich loop of lipoprotein lipase. J Lipid Res. 2020 10; 61(10):1347-1359. Luz JG, Beigneux AP, Asamoto DK, He C, Song W, Allan CM, Morales J, Tu Y, Kwok A, Cottle T, Meiyappan M, Fong LG, Kim JE, Ploug M, Young SG, Birrane G. PMID: 32690595; PMCID: PMC7529051.
      View in: PubMed   Mentions: 3     Fields:    Translation:HumansAnimalsCells
    7. Folding of the �-Barrel Membrane Protein OmpA into Nanodiscs. Biophys J. 2020 01 21; 118(2):403-414. Asamoto DK, Kang G, Kim JE. PMID: 31843264; PMCID: PMC6976806.
      View in: PubMed   Mentions: 2     Fields:    Translation:Cells
    8. Raman and Quantum Yield Studies of Trp48-d5 in Azurin: Closed-Shell and Neutral Radical Species. J Phys Chem B. 2019 08 01; 123(30):6430-6443. Rivera JJ, Liang JH, Shimamura GR, Shafaat HS, Kim JE. PMID: 31313925.
      View in: PubMed   Mentions: 2     Fields:    Translation:Cells
    9. UV Resonance Raman Spectroscopy as a Tool to Probe Membrane Protein Structure and Dynamics. Methods Mol Biol. 2019; 2003:327-349. Asamoto DK, Kim JE. PMID: 31218624; PMCID: PMC6874512.
      View in: PubMed   Mentions: 2     Fields:    
    10. Insights into Protein Structure and Dynamics by Ultraviolet and Visible Resonance Raman Spectroscopy. Biochemistry. 2015 Aug 11; 54(31):4770-83. L?pez-Pe?a I, Leigh BS, Schlamadinger DE, Kim JE. PMID: 26219819; PMCID: PMC5092233.
      View in: PubMed   Mentions: 4     Fields:    Translation:AnimalsCells
    11. Photogeneration and Quenching of Tryptophan Radical in Azurin. J Phys Chem B. 2015 Jul 23; 119(29):9438-49. Larson BC, Pomponio JR, Shafaat HS, Kim RH, Leigh BS, Tauber MJ, Kim JE. PMID: 25625660; PMCID: PMC5092234.
      View in: PubMed   Mentions: 7     Fields:    Translation:Cells
    12. Resonance Raman Analysis of the Tryptophan Cation Radical. J Phys Chem Lett. 2014 Sep 04; 5(17):3009-14. Shafaat HS, Kim JE. PMID: 26278252.
      View in: PubMed   Mentions: 3     Fields:    
    13. UV resonance Raman study of TrpZip2 and related peptides: p-p interactions of tryptophan. J Raman Spectrosc. 2012 Oct; 43(10):1459-1464. Schlamadinger DE, Leigh BS, Kim JE. PMID: 25525290; PMCID: PMC4267580.
      View in: PubMed   Mentions: 2  
    14. Spectroscopic and computational study of melittin, cecropin A, and the hybrid peptide CM15. J Phys Chem B. 2012 Sep 06; 116(35):10600-8. Schlamadinger DE, Wang Y, McCammon JA, Kim JE. PMID: 22845179; PMCID: PMC3434763.
      View in: PubMed   Mentions: 10     Fields:    Translation:Cells
    15. Comparative molecular dynamics simulations of the antimicrobial peptide CM15 in model lipid bilayers. Biochim Biophys Acta. 2012 May; 1818(5):1402-9. Wang Y, Schlamadinger DE, Kim JE, McCammon JA. PMID: 22387432; PMCID: PMC3329965.
      View in: PubMed   Mentions: 31     Fields:    Translation:Cells
    16. Hydrogen bonding of tryptophan radicals revealed by EPR at 700 GHz. J Am Chem Soc. 2011 Nov 16; 133(45):18098-101. Stoll S, Shafaat HS, Krzystek J, Ozarowski A, Tauber MJ, Kim JE, Britt RD. PMID: 22007694; PMCID: PMC3251908.
      View in: PubMed   Mentions: 18     Fields:    Translation:Cells
    17. F�rster resonance energy transfer as a probe of membrane protein folding. Biochim Biophys Acta. 2012 Feb; 1818(2):154-61. Kang G, L?pez-Pe?a I, Oklejas V, Gary CS, Cao W, Kim JE. PMID: 21925139; PMCID: PMC3253952.
      View in: PubMed   Mentions: 6     Fields:    Translation:Cells
    18. Using charge to control the functional properties of self-assembled nanopores in membranes. Small. 2011 Jul 18; 7(14):2016-20. Macrae MX, Schlamadinger D, Kim JE, Mayer M, Yang J. PMID: 21626687.
      View in: PubMed   Mentions:    Fields:    
    19. Tryptophan-lipid interactions in membrane protein folding probed by ultraviolet resonance Raman and fluorescence spectroscopy. Biophys J. 2011 May 04; 100(9):2121-30. Sanchez KM, Kang G, Wu B, Kim JE. PMID: 21539779; PMCID: PMC3149241.
      View in: PubMed   Mentions: 33     Fields:    Translation:Cells
    20. Thermodynamics of membrane protein folding measured by fluorescence spectroscopy. J Vis Exp. 2011 Apr 28; (50). Schlamadinger DE, Kim JE. PMID: 21559004; PMCID: PMC3169287.
      View in: PubMed   Mentions: 1     Fields:    Translation:Cells
    21. UV resonance Raman study of cation-p interactions in an indole crown ether. J Raman Spectrosc. 2011 Apr; 42(4):633-638. Schlamadinger DE, Daschbach MM, Gokel GW, Kim JE. PMID: 25635155; PMCID: PMC4307609.
      View in: PubMed   Mentions: 7  
    22. Quenching of TryptophanFluorescence in Unfolded Cytochrome c: A Biophysics Experiment for Physical Chemistry Students. J Chem Educ. 2010 Sep 01; 87(9):961-964. Schlamadinger DE, Kats DI, Kim JE. PMID: 25593364; PMCID: PMC4292842.
      View in: PubMed   Mentions: 5     Fields:    
    23. Spectroscopic comparison of photogenerated tryptophan radicals in azurin: effects of local environment and structure. J Am Chem Soc. 2010 Jul 07; 132(26):9030-9. Shafaat HS, Leigh BS, Tauber MJ, Kim JE. PMID: 20536238.
      View in: PubMed   Mentions: 13     Fields:    Translation:Cells
    24. Staphylococcus epidermidis antimicrobial delta-toxin (phenol-soluble modulin-gamma) cooperates with host antimicrobial peptides to kill group A Streptococcus. PLoS One. 2010 Jan 05; 5(1):e8557. Cogen AL, Yamasaki K, Muto J, Sanchez KM, Crotty Alexander L, Tanios J, Lai Y, Kim JE, Nizet V, Gallo RL. PMID: 20052280; PMCID: PMC2796718.
      View in: PubMed   Mentions: 83     Fields:    Translation:HumansAnimalsCells
    25. Selective antimicrobial action is provided by phenol-soluble modulins derived from Staphylococcus epidermidis, a normal resident of the skin. J Invest Dermatol. 2010 Jan; 130(1):192-200. Cogen AL, Yamasaki K, Sanchez KM, Dorschner RA, Lai Y, MacLeod DT, Torpey JW, Otto M, Nizet V, Kim JE, Gallo RL. PMID: 19710683; PMCID: PMC2796468.
      View in: PubMed   Mentions: 171     Fields:    Translation:HumansAnimalsCells
    26. Fluorescence and UV resonance Raman study of peptide-vesicle interactions of human cathelicidin LL-37 and its F6W and F17W mutants. Biochemistry. 2009 Dec 01; 48(47):11264-72. Gable JE, Schlamadinger DE, Cogen AL, Gallo RL, Kim JE. PMID: 19894716; PMCID: PMC2801029.
      View in: PubMed   Mentions: 9     Fields:    Translation:HumansCells
    27. Hydrogen bonding and solvent polarity markers in the uv resonance raman spectrum of tryptophan: application to membrane proteins. J Phys Chem B. 2009 Nov 05; 113(44):14769-78. Schlamadinger DE, Gable JE, Kim JE. PMID: 19817473; PMCID: PMC2836804.
      View in: PubMed   Mentions: 15     Fields:    Translation:Cells
    28. Toxins and antimicrobial peptides: Interactions with membranes. Proc SPIE Int Soc Opt Eng. 2009 Aug 20; 7397. Schlamadinger DE, Gable JE, Kim JE. PMID: 25593677; PMCID: PMC4292856.
      View in: PubMed   Mentions: 4  
    29. Resonance Raman studies of the (His)(Cys)3 2Fe-2S cluster of MitoNEET: comparison to the (Cys)4 mutant and implications of the effects of pH on the labile metal center. Biochemistry. 2009 Jun 09; 48(22):4747-52. Tirrell TF, Paddock ML, Conlan AR, Smoll EJ, Nechushtai R, Jennings PA, Kim JE. PMID: 19388667; PMCID: PMC2861891.
      View in: PubMed   Mentions: 29     Fields:    Translation:HumansCells
    30. Resonance Raman characterization of a stable tryptophan radical in an azurin mutant. J Phys Chem B. 2009 Jan 08; 113(1):382-8. Shafaat HS, Leigh BS, Tauber MJ, Kim JE. PMID: 19072535.
      View in: PubMed   Mentions: 11     Fields:    Translation:Cells
    31. Effects of tryptophan microenvironment, soluble domain, and vesicle size on the thermodynamics of membrane protein folding: lessons from the transmembrane protein OmpA. Biochemistry. 2008 Dec 02; 47(48):12844-52. Sanchez KM, Gable JE, Schlamadinger DE, Kim JE. PMID: 18991402; PMCID: PMC2724591.
      View in: PubMed   Mentions: 25     Fields:    Translation:Cells
    32. Förster Resonance Energy Transfer and Conformational Stability of Proteins: An Advanced Biophysical Module for Physical Chemistry Students. J Chem Educ. 2008 Sep 01; 85(9):1253-1256. Sanchez KM, Schlamadinger DE, Gable JE, Kim JE. PMID: 19756254; PMCID: PMC2743118.
      View in: PubMed   Mentions: 5     Fields:    
    33. Thermodynamics of peptide insertion and aggregation in a lipid bilayer. J Phys Chem B. 2008 Aug 28; 112(34):10528-34. Babakhani A, Gorfe AA, Kim JE, McCammon JA. PMID: 18681475; PMCID: PMC2651738.
      View in: PubMed   Mentions: 15     Fields:    Translation:Cells
    34. Marking embryonic stem cells with a 2A self-cleaving peptide: a NKX2-5 emerald GFP BAC reporter. PLoS One. 2008 Jul 02; 3(7):e2532. Hsiao EC, Yoshinaga Y, Nguyen TD, Musone SL, Kim JE, Swinton P, Espineda I, Manalac C, deJong PJ, Conklin BR. PMID: 18596956; PMCID: PMC2430532.
      View in: PubMed   Mentions: 34     Fields:    Translation:HumansAnimalsCells
    35. Ultraviolet resonance Raman spectroscopy of folded and unfolded states of an integral membrane protein. J Phys Chem B. 2008 Aug 07; 112(31):9507-11. Sanchez KM, Neary TJ, Kim JE. PMID: 18588328.
      View in: PubMed   Mentions: 17     Fields:    Translation:Cells
    36. Peptide insertion, positioning, and stabilization in a membrane: insight from an all-atom molecular dynamics simulation. Biopolymers. 2007 Apr 5-15; 85(5-6):490-7. Babakhani A, Gorfe AA, Gullingsrud J, Kim JE, Andrew McCammon J. PMID: 17274025.
      View in: PubMed   Mentions: 7     Fields:    Translation:Cells
    37. Probing folded and unfolded states of outer membrane protein a with steady-state and time-resolved tryptophan fluorescence. J Phys Chem B. 2006 Sep 07; 110(35):17656-62. Kim JE, Arjara G, Richards JH, Gray HB, Winkler JR. PMID: 16942111; PMCID: PMC2519049.
      View in: PubMed   Mentions: 14     Fields:    Translation:Cells
    38. Zinc-porphyrin Solvation in folded and unfolded states of Zn-cytochrome c. Inorg Chem. 2004 Dec 13; 43(25):7953-60. Kim JE, Pribisko MA, Gray HB, Winkler JR. PMID: 15578829.
      View in: PubMed   Mentions: 3     Fields:    Translation:AnimalsCells
    39. Picosecond dynamics of G-protein coupled receptor activation in rhodopsin from time-resolved UV resonance Raman spectroscopy. Biochemistry. 2003 May 13; 42(18):5169-75. Kim JE, Pan D, Mathies RA. PMID: 12731857; PMCID: PMC1404556.
      View in: PubMed   Mentions: 12     Fields:    Translation:AnimalsCells
    40. Analysis of the mode-specific excited-state energy distribution and wavelength-dependent photoreaction quantum yield in rhodopsin. Biophys J. 2003 Apr; 84(4):2492-501. Kim JE, Tauber MJ, Mathies RA. PMID: 12668457; PMCID: PMC1302815.
      View in: PubMed   Mentions: 14     Fields:    Translation:Cells
    41. Vibrational Relaxation in beta-Carotene Probed by Picosecond Stokes and Anti-Stokes Resonance Raman Spectroscopy. J Phys Chem A. 2002 Jun 27; 106(25):6030-8. McCamant DW, Kim JE, Mathies RA. PMID: 17235377; PMCID: PMC1776166.
      View in: PubMed   Mentions: 6     Fields:    
    42. Time-resolved resonance Raman analysis of chromophore structural changes in the formation and decay of rhodopsin's BSI intermediate. J Am Chem Soc. 2002 May 01; 124(17):4857-64. Pan D, Ganim Z, Kim JE, Verhoeven MA, Lugtenburg J, Mathies RA. PMID: 11971736; PMCID: PMC1440918.
      View in: PubMed   Mentions: 15     Fields:    Translation:AnimalsCells
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