research articles
Recent Preprints
Inverse folding of protein complexes with a structure-informed language model enables unsupervised antibody evolution. Varun R. Shanker, Theodora U.J. Bruun, Brian L. Hie, Peter S. Kim.
https://doi.org/10.1101/2023.12.19.572475 bioRxiv (2023).
PUBLICATIONS
A - F
Bell, Benjamin N., Theodora U. J. Bruun, Natalia Friedland, Peter S. Kim. Proc. Natl. Acad. Sci. USA (2023). Feb 21;120(8) :e2215792120. doi: 10.1073/pnas.2215792120. HIV-1 prehairpin intermediate inhibitors show efficacy independent of neutralization tier. (PDF)
Bell, Benjamin Nikola, Abigail E. Powell, Carlos Rodriguez, Jennifer R Cochran, Peter S. Kim. Protein Science. (2021). 30: 716–727. Neutralizing antibodies targeting the SARS-CoV-2 receptor binding domain isolated from a naïve human antibody library (PDF)
Berger, Bonnie, David B. Wilson, Ethan Wolf, Theodore Tonchev, Maria Milla and Peter S. Kim Proc. Natl. Acad. Sci. USA(1995) 92: 8259-8263. Predicting Coiled Coils by Use of Pairwise Residue Correlations. (PDF)
Bianchi, Elisabetta, Joseph G. Joyce, Michael D. Miller, Adam C. Finnefrock, Xiaoping Liang, Marco Finotto, Paolo Ingallinella, Philip McKenna, Michael Citron, Elizabeth Ottinger, Robert W. Hepler, Renee Hrin, Deborah Nahas, Chengwei Wu, David Montefiori, John W. Shiver, Antonella Pessi, and Peter S. Kim Proc. Natl. Acad. Sci. USA (2010) 107: 10655-10660. Vaccination with peptide mimetics of the gp41 prehairpin fusion intermediate yields neutralizing antisera against HIV-1 isolates. (PDF)
Bierzynski, Andrzej, Peter S. Kim and Robert L. Baldwin Proc. Natl. Acad. Sci. USA (1982) 79: 2470-2474. A Salt Bridge Stabilizes the Helix Formed by Isolated C-Peptide of RNase A. (PDF)
Blacklow, Stephen C. and Peter S. Kim Nat. Struct. Biol. (1996) 3: 758-762. Protein Folding and Calcium Binding Defects Arising from Familial Hypercholesterolemia Mutations of the LDL Receptor. (PDF)
Blacklow, Stephen C. Min Lu and Peter S. Kim Biochemistry (1995) 34: 14955-14962. A Trimeric Subdomain of the Simian Immunodeficiency Virus Envelope Glycoprotein. (PDF)
Booth, Paula J., Sabine L. Flitsch, Lawrence J. Stern, Duncan A. Greenhalgh, Peter S. Kim and H. Gobind Khorana Nat. Struct. Biol. (1995) 2: 139-143. Intermediates in the Folding of the Membrane Protein Bacteriorhodopsin. (PDF)
Bradley, Philip, Peter S. Kim, and Bonnie Berger Proc. Natl. Acad. Sci. USA (2002) 99: 8500-8505. TRIOLOGY: Discovery of Sequence-Structure Patterns Across Diverse Proteins. (PDF)
Brown, Wayne B., Wendy A. Larrabee and Peter S. Kim Lepr. Rev. (1986) 57: 157-162. Analysis of a Leprosy-Specific Antibody Epitope.
Bruun, Theodora U. J., Shaogeng Tang, Graham Erwin, Lindsay Deis, Daniel Fernandez, Peter S. Kim. Journal of Biological Chemistry (2023). doi: 10.1016/j.jbc.2023.103062. Structure-guided stabilization improves the ability of the HIV-1 gp41 hydrophobic pocket to elicit neutralizing antibodies. (PDF)
Carr, Chavela M., Charu Chaudhry and Peter S. Kim Proc. Natl. Acad. Sci. USA (1997) 94: 14306-14313. Influenza Hemagglutinin is Spring-Loaded by a Metastable Native Conformation. (PDF)
Carr, Chavela M. and Peter S. Kim Science (1994) 265: 234-236. Flu Virus Invasion: Halfway There. (PDF)
Carr, Chavela M. and Peter S. Kim Cell (1993) 73: 823-832. A Spring-Loaded Mechanism for the Conformational Change of Influenza Hemagglutinin. (PDF)
Chan, David C., Christine T. Chutkowski and Peter S. Kim Proc. Natl. Acad. Sci. USA (1998) 95: 15613-15617. Evidence that a Prominent Cavity in the Coiled Coil of HIV type 1 gp41 is an Attractive Drug Target. (PDF)
Chan, David C. and Peter S. Kim Cell (1998) 93: 681-684. HIV Entry and Its Inhibition. (PDF)
Chan, David C., Deborah Fass, James M. Berger and Peter S. Kim Cell (1997) 89: 263-273. Core Structure of gp41 from the HIV Envelope Glycoprotein. (PDF)
Chan, David C. and Peter S. Kim Onzième Colloque Des Cent Gardes(1997) (M. Girard & B. Dodet eds.) Elsevier Press, 105-111. Core Structure of gp41 from the HIV Envelope Glycoprotein and Implications for Membrane Fusion.
Chen, Benjamin K., Itay Rousso, Sung Shim and Peter S. Kim Proc. Natl. Acad. Sci. (2001) 98: 15239-15244. Efficient Assembly of an HIV-1/MLV Gag-Chimeric Virus in Murine Cells. (PDF)
Cochran, Andrea G., and Peter S. Kim Science (1996) 271: 1113-1116. Imitation of Escherichia coli Aspartate Receptor Signaling in Engineered Dimers of the Cytoplasmic Domain. (PDF)
Creighton, Thomas E. and Peter S. Kim Current Opinion Struct. Biol.(1991)1: 3-4. Folding and Binding: Editorial Overview. (PDF)
Dadlez, Michal, and Peter S. Kim Biochemistry (1996) 35: 16153-16164. Rapid Formation of the Native 14-38 Disulfide Bond in the Early Stages of BPTI Folding. (PDF)
Dadlez, Michal, and Peter S. Kim Nat. Struct. Biol. (1995) 2: 674-679. A Third Native One-Disulfide Intermediate in the Folding of Bovine Pancreatic Trypsin Inhibitor.
Eckert, Debra M. and Peter S. Kim Proc. Natl. Acad. Sci. USA (2001) 98: 11187-11192. Design of Potent Inhibitors of HIV-1 Entry from the gp41 N-peptide Region. (PDF)
Eckert, Debra M. and Peter S. Kim Annu. Rev. Biochem. (2001) 70: 777-810. Mechanisms of Viral Membrane Fusion and Its Inhibition. (PDF)
Eckert, Debra M., Vladimir N. Malashkevich, Lily H. Hong, Peter A. Carr and Peter S. Kim Cell (1999) 99: 103-115. Inhibiting HIV-1 Entry: Discovery of D-Peptide Inhibitors that Target the gp41 Coiled-Coil Pocket. (PDF)
Eckert, Debra M., Vladimir N. Malashkevich and Peter S. Kim J. Mol. Biol. (1998) 284: 859-865. Crystal Structure of GCN4-pIQI, a Trimeric Coiled Coil With Buried Polar Residues. (PDF)
Epstein, Nava, George P. Hess, Peter S. Kim and Richard L. Noble J. Membrane Biol. (1980) 56: 133-137. Inactivation (Desensitization) of the Acetylcholine Receptor in Electrophorous electricus Membrane Vesicles by Carbamylcholine: Comparison Between Ion Flux and a-Bungarotoxin Binding. (PDF)
Fass, Deborah, Stephen Blacklow, Peter S. Kim and James M. Berger Nature (1997) 388: 691-693. Molecular Basis of Familial Hypercholesterolaemia from Structure of LDL Receptor Module. (PDF)
Fass, Deborah, Robert A. Davey, Christian A. Hamson, Peter S. Kim, James M. Cunningham and James M. Berger Science(1997) 277: 1662-1666. Structure of a Murine Leukemia Virus Receptor-Binding Glycoprotein at 2.0 Angstrom Resolution. (PDF)
Fass, Deborah, Stephen C. Harrison and Peter S. Kim Nat. Struct. Biol. (1996) 3: 465-469. Retrovirus Envelope Domain at 1.7 Å Resolution. (PDF)
Fass, Deborah and Peter S. Kim Current Biology (1995) 5: 1377-1383. Dissection of a Retrovirus Envelope Protein Reveals Structural Similarity to Influenza Hemagglutinin. (PDF)
Frankel, Alan D. and Peter S. Kim Cell (1991)65: 717-719. Modular Structure of Transcription Factors: Implications for Gene Regulation. (PDF)
G - L
Gale, Emily C, Abigail E Powell, Gillie A Roth, Emily L Meany, Jerry Yan, Ben S Ou, Abigail K Grosskopf, Julia Adamska, Vittoria C T M Picece, Andrea I d'Aquino, Bali Pulendran, Peter S Kim, Eric A Appel. Advanced Materials (2021) (Deerfield Beach, Fla.), 33(51), e2104362. doi.org/10.1002/adma.202104362. Hydrogel-Based Slow Release of a Receptor-Binding Domain Subunit Vaccine Elicits Neutralizing Antibody Responses Against SARS-CoV-2 (PDF)
Goodman, Elizabeth M. and Peter S. Kim Biochemistry (1991) 30: 11615-11620. Periodicity of Amide Proton Exchange Rates in a Coiled-Coil Leucine Zipper Peptide. (PDF)
Goodman, Elizabeth M. and Peter S. Kim Current Research in Protein Chemistry (1990) (J.J. Villafranca, ed.) Academic Press, 301-308. Tests of Isolated b-Sheet Formation in a Cyclic Peptide from BPTI.
Goodman, Elizabeth M. and Peter S. Kim Biochemistry (1989) 28: 4343-4347. Folding of a Peptide Corresponding to the a-Helix in Bovine Pancreatic Trypsin Inhibitor. (PDF)
Hagihara, Yoshihisa and Peter S. Kim Proc. Natl. Acad. Sci. USA (2002) 99: 6619-6624. Toward Development of a Screen to Identify Randomly Encoded, Foldable Sequences. (PDF)
Harbury, Pehr B., Joseph J. Plecs, Bruce Tidor, Tom Alber and Peter S. Kim Science (1998) 282: 1462-1467. High-Resolution Protein Design with Backbone Freedom. (PDF)
Harbury, Pehr B., Bruce Tidor and Peter S. Kim Proc. Natl. Acad. Sci. USA (1995) 92: 8408-8412. Repacking Protein Cores with Backbone Freedom: Structure Prediction for Coiled Coils. (PDF)
Harbury, Pehr B., Peter S. Kim and Tom Alber Nature (1994) 371: 80-83. Crystal Structure of an Isoleucine-Zipper Trimer. (PDF)
Harbury, Pehr B., Tao Zhang, Peter S. Kim and Tom Alber Science (1993) 262: 1401-1407. A Switch Between Two-, Three-, and Four-Stranded Coiled Coils in GCN4 Leucine Zipper Mutants. (PDF)
Hie, Brian L., Varun R. Shanker, Duo Xu, Theodora U. J. Bruun, Payton A. Weidenbacher, Shaogeng Tang, Wesley Wu, John E. Pak, Peter S. Kim. Nature Biotechnology (2023). doi.org/10.1038/s41587-023-01763-2. Efficient evolution of human antibodies from general protein language models. (PDF)
Hie, Brian L., Kevin K. Yang, Peter S. Kim. Cell Systems. (2022) 13, 1–12. Evolutionary velocity with protein language models predicts evolutionary dynamics of diverse proteins (PDF)
Hu, James C., Erin K. O'Shea, Peter S. Kim and Robert T. Sauer Science (1990)250: 1400-1403. Sequence Requirements for Coiled-Coils: Analysis with l Repressor-GCN4 Leucine Zipper Fusions. (PDF)
Keating, Amy E., Vladimir N. Malashkevich, Bruce Tidor, and Peter S. Kim Proc. Natl. Acad. Sci. USA (2001) 98: 14825-14830. Side-chain Repacking Calculations for Predicting Structures and Stabilities of Heterodimeric Coiled Coils. (PDF)
Kim, Peter S. and Robert L. Baldwin Annu. Rev. Biochem. (1990) 59: 631-660. Intermediates in the Folding Reactions of Small Proteins. (PDF)
Kim, Peter S., Biophys. Chem.(1988) 31: 107-111. Strategy for Obtaining Non-Native Protein Structures Using Antibody Cross-Reactions. (PDF)
Kim, Peter S., Protein Eng. (1988) 2: 249-250. Passing the First Milestone in Protein Design. (PDF)
Kim, Peter S., Meth. Enzymology (1986) 131: 136-156. Amide Proton Exchange as a Probe of Protein Folding Pathways. (PDF)
Kim, Peter S., and Robert L. Baldwin Nature (1984) 307: 329-334. A Helix Stop Signal in the Isolated S-Peptide of Ribonuclease A. (PDF)
Kim, Peter S. and Robert L. Baldwin Annu. Rev. Biochem. (1982) 51: 459-489. Specific Intermediates in the Folding Reactions of Small Proteins and the Mechanism of Protein Folding. (PDF)
Kim, Peter S., and Robert L. Baldwin Biochemistry (1982) 21: 1-5. Influence of Charge on the Rate of Amide Proton Exchange. (PDF)
Kim, Peter S., Andrzej Bierzynski and Robert L. Baldwin J. Mol. Biol. (1982) 162: 187-199. A Competing Salt-bridge Suppresses Helix Formation by the Isolated C-Peptide Carboxylate of Ribonuclease A. (PDF)
Kim, Peter S., and George P. Hess J. Membrane Biol. (1981) 58: 203-211. Acetylcholine Receptor-Controlled Ion Flux in Electroplax Membrane Vesicles: Identification and Characterization of Membrane Properties that Affect Ion Flux Measurements. (PDF)
Kim, Peter S., and Robert L. Baldwin Biochemistry (1980) 19: 6124-6129. Structural Intermediates Trapped During the Folding of Ribonuclease A by Amide Proton Exchange. (PDF)
Kim, Soohyun, Maria V. Filsinger Interrante, Peter S. Kim. J Virol. (2022) 10.1128/jvi.01647-22. Enhancing HIV-1 Neutralization by Increasing the Local Concentration of Membrane-Proximal External Region-Directed Broadly Neutralizing Antibodies. (PDF)
Kumru, Ozan, Mrinmoy Sanyal, Natalia Friedland, John Hickey, Richa Joshi, Payton Weidenbacher, Jonathan Do, Ya-Chen Cheng, Peter S. Kim, Sangeeta B Joshi, David B Volkin. Vaccine (2023). doi.org/10.1016/j.vaccine.2023.08.037. Formulation development and comparability studies with an aluminum-salt adjuvanted SARS-CoV-2 Spike ferritin nanoparticle vaccine antigen produced from two different cell lines. (PDF)
Kuroda, Yutaka and Peter S. Kim J. Mol. Biol. (2000) 298: 493-501. Folding of Bovine Pancreatic Trypsin Inhibitor (BPTI) Variants in Which Almost Half the Residues are Alanine. (PDF)
Kuwajima, Kunihiro, Peter S. Kim and Robert L. Baldwin Biopolymers(1983) 22: 59-67. Strategy for Trapping Intermediates in the Folding of Ribonuclease and for Using 1H-NMR to Determine Their Structures. (PDF)
Lin, Tiao-Yin and Peter S. Kim Proc. Natl. Acad. Sci. USA (1991) 88: 10573-10577. Evaluating the Effects of a Single Amino Acid Substitution on Both the Native and Denatured States of a Protein. (PDF)
Lin, Tiao-Yin and Peter S. Kim Biochemistry (1989) 28: 5282-5287. Urea Dependence of Thiol-Disulfide Equilibria in Thioredoxin: Confirmation of the Linkage Relationship and a Sensitive Assay for Structure. (PDF)
Lockhart, David J. and Peter S. Kim Science (1993) 260: 198-202. Electrostatic Screening of Charge and Dipole Interactions with the Helix Backbone. (PDF)
Lockhart, David J. and Peter S. Kim Science (1992) 257: 947-951. Internal Stark Effect Measurement of the Electric Field at the Amino Terminus of an a-Helix. (PDF)
Loftus, David, George O. Gbenle, Peter S. Kim and Robert L. Baldwin Biochemistry (1986) 25: 1428-1436. Effects of Denaturants on Amide Proton Exchange Rates: A Test for Structure in Protein Fragments and Folding Intermediates. (PDF)
Lumb, Kevin J. and Peter S. Kim Science (1996) 271: 1136-1138. Interhelical Salt Bridges, Coiled-Coil Stability, and Specificity of Dimerization: Response. (PDF)
Lumb, Kevin J. and Peter S. Kim Science (1995) 268: 436-439. Measurement of Interhelical Electrostatic Interactions in the GCN4 Leucine Zipper. (PDF)
Lumb, Kevin J. and Peter S. Kim Biochemistry (1995) 34: 8642-8648. A Buried Polar Interaction Imparts Structural Uniqueness in a Designed Heterodimeric Coiled Coil. (PDF)
Lumb, Kevin J. , Chavela M. Carr and Peter S. Kim Biochemistry (1994)33: 7361-7367. Subdomain Folding of the Coiled Coil Leucine Zipper from the bZIP Transcriptional Activator GCN4. (PDF)
Lumb, Kevin J. and Peter S. Kim J. Mol. Biol. (1994) 236: 412-420. Formation of a Hydrophobic Cluster in Denatured Bovine Pancreatic Trypsin Inhibitor. (PDF)
Lu, Min and Peter S. Kim J. Biomol. Struct. and Dyn. (1997) 15: 465-471. A Trimeric Structural Subdomain of the HIV-1 Transmembrane Glycoprotein. (PDF)
Lu, Min, Stephen C. Blacklow and Peter S. Kim Nat. Struct. Biol. (1995) 2: 1075-1082. A Trimeric Structural Domain of the HIV-1 Transmembrane Glycoprotein. (PDF)
M - R
Malashkevich, Vladimir N., Mona Singh and Peter S. Kim Proc. Natl. Acad. Sci. USA (2001) 98: 8502-8506. The Trimer-of-Hairpins Motif in Membrane Fusion: Visna Virus. (PDF)
Malashkevich, Vladimir N., Brian J. Schneider, Margaret L. McNally, Michael A. Milhollen, James X. Pang and Peter S. Kim Proc. Natl. Acad. Sci. USA (1999) 96: 2662-2667. Core Structure of the Envelope Glycoprotein GP2 from Ebola Virus at 1.9 Å Resolution. (PDF)
Malashkevich, Vladimir N. , David C. Chan, Christine T. Chutkowski and Peter S. Kim Proc. Natl. Acad. Sci. USA (1998) 95: 9134-9139. Crystal Structure of the Simian Immunodeficiency Virus (SIV) gp41 Core: Conserved Helical Interactions Underlie the Broad Inhibitory Activity of gp41 Peptides. (PDF)
McKnight, C. James, Paul T. Matsudaira and Peter S. Kim Nat. Struct. Biol. (1997) 4: 180-184. NMR Structure of the 35-Residue Villin Headpiece Subdomain.
McKnight, C. James, Don S. Doering, Paul T. Matsudaira and Peter S. Kim J. Mol. Biol. (1996) 260: 126-134. A Thermostable 35-Residue Subdomain within Villin Headpiece. (PDF)
Miller, Michael D., Romas Geleziunas, Elisabetta Bianchi, Simon Lennard, Renee Hrin, Hangchun Zhang, Meiqing Lu, Zhiqiang An, Paolo Ingallinella, Marco Finotto, Marco Mattu, Adam C. Finnefrock, David Bramhill, James Cook, Debra M. Eckert, Richard Hampton, Mayuri Patel, Stephen Jarantow, Joseph Joyce, Gennaro Ciliberto, Ricarrdo Cortese, Ping Lu, William Strohl, William Schleif, Michael McElhaugh, Steven Lane, Christopher Lloyd, David Lowe, Jane Osbourn, Tristan Vaughan, Emilio Emini, Gaetano Barbato, Peter S. Kim, Daria J. Hazuda, John W. Shiver, and Antonello Pessi Proc. Natl. Acad. Sci. USA (2005) 102: 14759-14764. A human monoclonal antibody neutralizes diverse HIV-1 isolates by binding a critical gp41 epitope. (PDF)
Minor, Daniel L., Jr. and Peter S. Kim Nature (1996) 380: 730-734. Context-Dependent Secondary Structure Formation of a Designed Protein Sequence. (PDF)
Minor, Daniel L., Jr. and Peter S. Kim Nature (1994) 367: 660-663. Measurement of the β-sheet-forming propensities of amino acids. (PDF)
Minor, Daniel L., Jr. and Peter S. Kim Nature (1994) 371: 264-267. Context is a Major Determinant of β-Sheet Propensity. (PDF)
Montefiori, David C., Maria V. Filsinger Interrante, Benjamin N. Bell, Adonis A. Rubio, Joseph G. Joyce, John W. Shiver, Celia C. LaBranche, and Peter S. Kim. Proc. Natl. Acad. Sci. USA (2021). The high-affinity immunoglobulin receptor FcγRI potentiates HIV-1 neutralization via antibodies against the gp41 N-heptad repeat. (PDF)
Musunuri, Sriharshita, Payton A. B. Weidenbacher, Peter S. Kim. npj Vaccines (2024). doi.org/10.1038/s41541-023-00792-x. Bringing immunofocusing into focus. (PDF)
Newman, John R. S., Ethan Wolf and Peter S. Kim Proc. Natl. Acad. Sci. USA (2000) 97: 13203-13208. A Computationally Directed Screen Identifying Interacting Coiled Coils from Saccharomyces cerevisiae. (PDF)
Nielsen, Sandra C.A., Fan Yang, Katherine J.L. Jackson, Ramona A. Hoh, Katharina Roltgen, Grace H. Jean, Bryan A. Stevens, Ji-Yeun Lee, Arjun Rustagi, Angela J. Rogers, Abigail E. Powell, Molly Hunger, Javaria Najeeb, Ana R. Otrelo-Cardoso, Kathryn E. Yost, Bence Daniel, Kari C. Nadeau, Howard Y. Chang, Ansuman T. Satpathy, Theodore S. Jardetzky, Peter S. Kim, Taia T. Wang, Benjamin A. Pinsky, Catherine A. Blish, and Scott D. Boyd Cell Host & Microbe (2020). 4: 516-525.e5. Human B Cell Clonal Expansion and Convergent Antibody Responses to SARS-CoV-2. (PDF)
Oakley, Martha G. and Peter S. Kim Biochemistry (1998) 37: 12603-12610. A Buried Polar Interaction Can Direct the Relative Orientation of Helices in a Coiled Coil. (PDF)
Oakley, Martha G. and Peter S. Kim Biochemistry (1997) 36: 2544-2549. Protein Dissection of the Antiparallel Coiled Coil from Escherichia coli Seryl tRNA Synthetase. (PDF)
Oas, Terrence G., Lawrence P. McIntosh, Erin K. O'Shea, Frederick W. Dahlquist and Peter S. Kim Biochemistry (1990) 29: 2891-2894. Secondary Structure of a Leucine Zipper Determined by Nuclear Magnetic Resonance Spectroscopy. (PDF)
Oas, Terrence G. and Peter S. Kim Protein Folding (1990) (L.M. Gierasch & S.J. King eds.) AAAS Press, 123-128. A Protein Folding Intermediate Analogue: Design, Synthesis, and Characterization.
Oas, Terrence G. and Peter S. Kim Nature (1988) 336: 42-48. A Peptide Model of a Protein Folding Intermediate. (PDF)
O’Shea, Erin K., Kevin J. Lumb and Peter S. Kim Current Biology (1993) 3: 658-667. Peptide ‘Velcro’: Design of a Heterodimeric Coiled Coil. (PDF)
O'Shea, Erin K., Rheba Rutkowski and Peter S. Kim Cell (1992) 68: 699-708. Mechanism of Specificity in the Fos-Jun Oncoprotein Heterodimer. (PDF)
O'Shea, Erin K., Juli D. Klemm, Peter S. Kim and Tom Alber Science (1991) 254: 539-544. X-ray Structure of the GCN4 Leucine Zipper, a Two-Stranded, Parallel Coiled Coil. (PDF)
O'Shea, Erin K., Rheba Rutkowski and Peter S. Kim Science (1989) 243: 538-542. Evidence that the Leucine Zipper is a Coiled Coil. (PDF)
O'Shea, Erin K., Rheba Rutkowski, Walter F. Stafford III and Peter S. Kim Science (1989) 245: 646-648. Preferential Heterodimer Formation by Isolated Leucine Zippers from Fos and Jun. (PDF)
Peng, Zheng-yu, Lawren C. Wu, Brenda A. Schulman and Peter S. Kim Phil. Trans. Royal Soc. B, (1995) 348: 43-47. Does the Molten Globule Have a Native-Like Tertiary Fold? (PDF)
Peng, Zheng-yu, Lawren C. Wu and Peter S. Kim Biochemistry (1995) 34: 3248-3252. Local Structural Preferences in the a-Lactalbumin Molten Globule. (PDF)
Peng, Zheng-yu and Peter S. Kim Biochemistry (1994) 33: 2136-2141. A Protein Dissection Study of a Molten Globule. (PDF)
Plecs, Joseph J., Pehr B. Harbury, Peter S. Kim and Tom Alber J. Mol. Biol. (2004) 342: 289-297. Structural Test of the Parameterized-backbone Method for Protein Design. (PDF)
Powell, Abigail E., Duo Xu, Gillie A. Roth, Kaiming Zhang, Wah Chiu, Eric A. Appel, Peter S. Kim. Frontiers in Immunology. (2022) 10.3389. Multimerization of Ebola GPΔmucin on protein nanoparticle vaccines has minimal effect on elicitation of neutralizing antibodies (PDF)
Powell, Abigail E., Kaiming Zhang, Mrinmoy Sanyal, Shaogeng Tang, Payton A. Weidenbacher, Shanshan Li, Tho D. Pham, John E. Pak, Wah Chiu, Peter S. Kim. ACS Cent. Sci. (2021). A single immunization with spike-functionalized ferritin vaccines elicits neutralizing antibody responses against SARS-CoV-2 in mice. (PDF)
Quan, Jenai, Charles Langelier, Alison Kuchta, Joshua Batson, Noam Teyssier, Amy Lyden, Saharai Caldera, Aaron McGeever, Boris Dimitrov, Ryan King, Jordan Wilheim, Maxwell Murphy, Lara Pesce Ares, Katherine A. Travisano, Rene Sit, Roberto Amato, Davis R. Mumbengegwi, Jennifer L. Smith, Adam Bennett, Roly Gosling, Peter M. Mourani, Carolyn S. Calfee, Norma F. Neff, Eric D. Chow, Peter S. Kim, Bryan Greenhouse, Joseph L. DeRisi and Emily D. Crawford Nucleic Acids Research (2019) gkz418. FLASH: a next-generation CRISPR diagnostic for multiplexed detection of antimicrobial resistance sequences. (PDF)
Ramadoss, Nitya S., Nancy Q. Zhao, Barbra A. Richardson, Philip M. Grant, Peter S. Kim, and Catherine A. Blish AIDS (2020). 34(9): 1313-1323. Enhancing natural killer cell function with gp41-targeting bispecific antibodies to combat HIV infection, (PDF)
Rasmussen, Randy, Dominic Benvegnu, Erin K. O'Shea, Peter S. Kim and Tom Alber Proc. Natl. Acad. Sci. USA (1991)88: 561-564. X-ray Scattering Indicates that the Leucine Zipper is a Coiled Coil. (PDF)
Redfield, Christina, Brenda A. Schulman, Michael A. Milhollen, Peter S. Kim and Christopher M. Dobson Nat. Struct. Biol.(1999) 6: 948-952. a-Lactalbumin Forms a Compact Molten Globule in the Absence of Disulphide Bonds. (PDF)
Roltgen, Katharina, Abigail E. Powell, Oliver F. Wirz, Bryan A. Stevens, Catherine A. Hogan, Javaria Najeeb, Molly Hunter, Hannah Wang, Malaya K. Sahoo, ChunHong Huang, Fumiko Yamamoto, Monali Manohar, Justin Manalac, Ana R. Ortelo-Cardoso, Tho D. Pham, Arjun Rustagi, Angela J. Rogers, Nigam H. Shah, Catherine A. Blish, Jennifer R. Cochran, Theodore S. Jardetzky, James L. Zehnder, Taia T. Wang, Balasubramanian Narasimhan, Saurabh Gombar, Robert Tibshirani, Kari C. Nadeau, Peter S. Kim, Benjamin A. Pinsky, and Scott D. Boyd. Science Immunology (2020). 5(24): eabe0240. Defining the features and duration of antibody responses to SARS-CoV-2 infection associated with disease severity and outcome. (PDF)
Root, Michael J., Michael S. Kay and Peter S. Kim Science (2001) 291: 884-888. Protein Design of an HIV-1 Entry Inhibitor. (PDF)
Rousso, Itay, Mark B. Mixon, Benjamin K. Chen and Peter S. Kim Proc. Natl. Acad. Sci. USA (2000) 97: 13523-13525. Palmitoylation of the HIV-1 Envelope Glycoprotein is Critical for Viral Infectivity. (PDF)
Rubio, Adonis A., Maria V. Filsinger Interrante, Benjamin N. Bell, Clayton L. Brown, Theodora U.J. Bruun, Celia C. LaBranche, David C. Montefiori, Peter S. Kim. J Virol. (2021) 95(15):e0235020. A derivative of the D5 monoclonal antibody that targets the gp41 N-heptad repeat of HIV-1 with broad tier-2 neutralizing activity (PDF)
S - Z
Schepartz, Alanna and Peter S. Kim Current Opinion Chem. Biol. (1998)2: 9-10. Interaction, Assembly and Processing at the Chemistry-Biology Interface. (PDF)
Schulman, Brenda A., Peter S. Kim, Christopher M. Dobson and Christina Redfield Nat. Struct. Biol. (1997) 4: 630-634. A Residue-Specific NMR View of the Non-Cooperative Unfolding of a Molten Globule. (PDF)
Schulman, Brenda A. and Peter S. Kim Nature Structural Biology (1996) 3: 682-687. Proline Scanning Mutagenesis of a Molten Globule Reveals Non-Cooperative Formation of a Protein’s Overall Topology. (PDF)
Schulman, Brenda A., Christina Redfield, Zheng-yu Peng, Christopher M. Dobson and Peter S. Kim J. Mol. Biol. (1995) 253: 651-657. Different Subdomains are Most Protected from Hydrogen Exchange in the Molten Globule and Native States of Human a-Lactalbumin. (PDF)
Schulman, Brenda A. and Peter S. Kim Protein Science (1994) 3: 2226-2232. Hydrogen Exchange in BPTI Variants that Do Not Share a Common Disulfide Bond. (PDF)
Schumacher, Ton N.M., Lorenz M. Mayr, Daniel L. Minor, Jr., Michael A. Milhollen, Michael W. Burgess and Peter S. Kim Science (1996) 271: 1854-1857. Identification of D-Peptide Ligands through Mirror-Image Phage Display. (PDF)
Sia, Samuel K. and Peter S. Kim Proc. Natl. Acad. Sci. USA (2003) 100: 9756-9761. Protein Grafting of a HIV-1 Inhibiting Epitope. (PDF)
Sia, Samuel K., Peter A. Carr, Andrea G. Cochran, Vladimir N. Malashkevich and Peter S. Kim Proc. Natl. Acad. Sci. USA(2002) 99: 14664-14669. Short Constrained Peptides that Inhibit HIV-1 Entry. (PDF)
Sia, Samuel K. and Peter S. Kim Biochemistry (2001) 40: 8981-8989. A Designed Protein with Packing Between Left-Handed and Right-Handed Helices. (PDF)
Shoemaker, Kevin R., Robert Fairman, Peter S. Kim, Eunice J. York, John M. Stewart and Robert L. Baldwin Cold Spring Harb. Symp. Quant. Biol. (1987) 52: 391-398. The C-Peptide Helix from Ribonuclease A Considered as an Autonomous Folding Unit. (PDF)
Shoemaker, Kevin R., Peter S. Kim, Eunice J. York, John M. Stewart and Robert L. Baldwin Nature (1987)326: 563-567. Tests of the Helix Dipole Model for Stabilization of a-Helices. (PDF)
Shoemaker, Kevin R., Peter S. Kim, David N. Brems, Susan Marqusee, Eunice J. York, Irwin M. Chaiken, John M. Stewart and Robert L. Baldwin Proc. Natl. Acad. Sci. USA (1985) 82: 2349-2353. Nature of the Charged-Group Effect on the Stability of the C-Peptide Helix. (PDF)
Singh, Mona and Peter S. Kim Proc. 5th Ann. Int. Conf. Comp. Mol. Biol. (2001) 279-286. Towards Predicting Coiled-Coil Protein Interactions. (PDF)
Singh, Mona, Bonnie Berger and Peter S. Kim J. Mol. Biol. (1999)290: 1031-1041. LearnCoil-VMF: Computational Evidence for Coiled Coil-like Motifs in Many Viral Membrane-fusion Proteins. (PDF)
Singh, Mona, Bonnie Berger, Peter S. Kim, James M. Berger and Andrea G. Cochran Proc. Natl. Acad. Sci. USA (1998) 95: 2738-2743. Computational Learning Reveals Coiled Coil-Like Motifs in Histidine Kinase Linker Domains. (PDF)
Staley, Jonathan P. and Peter S. Kim Protein Science (1994) 3: 1822-1832. Formation of a Native-Like Subdomain in a Partially Folded Intermediate of Bovine Pancreatic Trypsin Inhibitor. (PDF)
Staley, Jonathan P. and Peter S. Kim Proc. Natl. Acad. Sci. USA (1992) 89: 1519-1523. Complete Folding of Bovine Pancreatic Trypsin Inhibitor with Only a Single Disulfide Bond. (PDF)
Staley, Jonathan P. and Peter S. Kim Nature (1990)344: 685-688. Role of a Subdomain in the Folding of Bovine Pancreatic Trypsin Inhibitor. (PDF)
Talanian, Robert V., C. James McKnight, Rheba Rutkowski and Peter S. Kim Biochemistry (1992) 31: 6871-6875. Minimum Length of a Sequence-Specific DNA Binding Peptide. (PDF)
Talanian, Robert V., C. James McKnight and Peter S. Kim Science (1990) 249: 769-771. Sequence-Specific DNA Binding by a Short Peptide Dimer. (PDF)
Tang, Shaogeng, Yonggang Lu, Will M Skinner, Mrinmoy Sanyal, Polina V Lishko, Masahito Ikawa, Peter S. Kim Proc. Natl. Acad. Sci. USA (2022). 119 (40) e2207805119. Human sperm TMEM95 binds eggs and facilitates membrane fusion. (PDF)
Tang, Shaogeng, and Peter S. Kim Proc. Natl. Acad. Sci. USA (2019). 116: 24500-24506. A high-affinity human PD-1/PD-L2 complex informs avenues for small-molecule immune checkpoint drug discovery. (PDF)
Wagar, Lisa E., Ameen Salahudeen, Christian M. Constantz, Ben S. Wendel, Michael M. Lyons, Vamsee Mallajosyula, Lauren P. Jatt, Julia Z. Adamska, Lisa K. Blum, Neha Gupta, Katherine J. L. Jackson, Fan Yang, Katharina Röltgen, Krishna M. Roskin, Kelly M. Blaine, Kara D. Meister, Iram N. Ahmad, Mario Cortese, Emery G. Dora, Sean N. Tucker, Anne I. Sperling, Aarti Jain, D. Huw Davies, Philip L. Felgner, Gregory B. Hammer, Peter S. Kim, William H. Robinson, Scott D. Boyd, Calvin J. Kuo, and Mark M. Davis. Nature Medicine (2021). 27: 125-135. Modeling human adaptive immune responses with tonsil organoids. (PDF)
Waltari, Eric, Esteban Carabajal, Mrinmoy Sanyal, Natalia Friedland and Krista M. McCutcheon Journal of Immunological Methods (2020). 112789. Adaption of a conventional ELISA to a 96-well ELISA-Array for measuring the antibody responses to influenza virus proteins and vaccines. (PDF)
Waltari, Eric, Aaron McGreever, Peter S. Kim and Krista M. McCutcheon Frontiers in Immunology (2019) 10: 1452. Functional Enrichment and Analysis of Antigen-Specific Memory B Cell Antibody Repertoires in PBMCs. (PDF)
Weidenbacher, Payton A.-B., Mrinmoy Sanyal, Natalia Friedland, Shaogeng Tang, Prabhu S. Arunachalam, Mengyun Hu, Ozan S. Kumru, Mary Kate Morris, Jane Fontenot, Lisa Shirreff, Jonathan Do, Ya-Chen Cheng, Gayathri Vasudevan, Mark B. Feinberg, Francois J. Villinger, Carl Hanson, Sangeeta B. Joshi, David B. Volkin, Bali Pulendran, Peter S. Kim. Nature Communications (2023). 2022 Dec 26:2022.12.25.521784. doi: 10.1101/2022.12.25.521784. A ferritin-based COVID-19 nanoparticle vaccine that elicits robust, durable, broad-spectrum neutralizing antisera in non-human primates. (PDF)
Weidenbacher, Payton A.-B., Sriharshita Musunuri, Abigail E. Powell, Shaogeng Tang, Jonathan Do, Mrinmoy Sanyal, Peter S. Kim. Biochemistry. (2022) 10.1021. Simplified Purification of Glycoprotein-Modified Ferritin Nanoparticles for Vaccine Development (PDF)
Weidenbacher, Payton A.-B. , Frances P. Rodriguez-Rivera, Mrinmoy Sanyal, Joshua A. Visser, Jonathan Do, Carolyn R. Bertozzi, Peter S. Kim. ACS Chemical Biology. (2022) 10.1021. Chemically Modified Bacterial Sacculi as a Vaccine Microparticle Scaffold (PDF)
Weidenbacher, Payton A.-B., Eric Waltari, Izumi de los Rios Kobara, Benjamin N. Bell, John E. Pak, Peter S. Kim. Nature Chemical Biology (2022). Converting non-neutralizing SARS-CoV-2 antibodies targeting conserved epitopes into broad-spectrum inhibitors through receptor blockade. (PDF)
Weidenbacher, Payton A. and Peter S. Kim Proc. Natl. Acad. Sci. USA (2019) 116: 9947-9952. Protect, Modify, Deprotect (PMD): A strategy for creating vaccines to elicit antibodies targeting a specific epitope. (PDF)
Weissman, Jonathan S. and Peter S. Kim Nat. Struct. Biol. (1995) 2: 1123-1130. A Kinetic Explanation for the Rearrangement Pathway of BPTI Folding. (PDF)
Weissman, Jonathan S. and Peter S. Kim Nature (1993) 365: 185-188. Efficient Catalysis of Disulphide Bond Rearrangements by Protein Disulphide Isomerase. (PDF)
Weissman, Jonathan S. and Peter S. Kim Science (1992) 256: 111-114. The Disulfide Folding Pathway of BPTI: Response.
Weissman Jonathan S. and Peter S. Kim Proc. Natl. Acad. Sci. USA (1992) 89: 9900-9904. Kinetic Role of Nonnative Species in the Folding of Bovine Pancreatic Trypsin Inhibitor. (PDF)
Weissman, Jonathan S. and Peter S. Kim Cell (1992) 71: 841-851. The Pro Region of BPTI Facilitates Folding. (PDF)
Weissman, Jonathan S. and Peter S. Kim Science (1991) 253: 1386-1393. Reexamination of the Folding of BPTI: Predominance of Native Intermediates. (PDF)
Williams, Katherine L., Megan Stumpf, Nicole Elise Naiman, Shilei Ding, Meghan Garrett, Theodore Gobillot, Dani Vezina, Katharine Dusenbury, Nitya S. Ramadoss, Ryan Basom, Peter S. Kim and Julie Overbaugh PLoS Pathog. (2019) 15(2): e1007572. Identification of HIV gp41-specific antibodies that mediate the killing of infected cells. (PDF)
Williams, Kelly P., Xiao-Hong Liu, Ton N.M. Schumacher, Herbert Y. Lin, Dennis A. Ausiello, Peter S. Kim and David P. Bartel Proc. Natl. Acad. Sci. USA(1997)94: 11285-11290. Bioactive and Nuclease-Resistant L-DNA Ligand of Vasopressin. (PDF)
Wolf, Ethan and Peter S. Kim Protein Science (1999) 8: 680-688. Combinatorial Codons: A Computer Program to Approximate Amino Acid Probabilities with Biased Nucleotide Usage. (PDF)
Wolf, Ethan, Peter S. Kim and Bonnie Berger Protein Science (1997) 6: 1179-1189. MultiCoil: A Program for Predicting Two- and Three-Stranded Coiled Coils. (PDF)
Wu, Lawren C. and Peter S. Kim J. Mol. Biol. (1998) 280: 175-182. A Specific Hydrophobic Core in the a-Lactalbumin Molten Globule. (PDF)
Wu, Lawren C. and Peter S. Kim Proc. Natl. Acad. Sci. USA (1997) 94: 14314-14319. Hydrophobic Sequence Minimization of the a-Lactalbumin Molten Globule. (PDF)
Wu, Lawren C., Brenda A. Schulman, Zheng-yu Peng and Peter S. Kim Biochemistry (1996) 35: 859-863. Disulfide Determinants of Calcium-Induced Packing in a-Lactalbumin. (PDF)
Wu, Lawren C., Zheng-yu Peng and Peter S. Kim Nat. Struct. Biol. (1995) 2: 281-286. Bipartite Structure of the a-Lactalbumin Molten Globule. (PDF)
Wu, Timothy Ting-Hsuan, Kyle J. Travaglini, Arjun Rustagi, Duo Xu, Yue Zhang, Leonid Andronov, SoRi Jang, Astrid Gillich, Roozbeh Dehghannasiri, Giovanny J. Martínez-Colón, Aimee Beck, Daniel Dan Liu, Aaron J. Wilk, Maurizio Morri, Winston L. Trope, Rob Bierman, Irving L. Weissman, Joseph B. Shrager, Stephen R. Quake, Christin S. Kuo, Julia Salzman, W.E. Moerner, Peter S. Kim, Catherine A. Blish, Mark A. Krasnow. J Exp Med (2024) 221 (6): e20232192. doi.org/10.1084/jem.20232192. Interstitial macrophages are a focus of viral takeover and inflammation in COVID-19 initiation in human lung. (PDF)
Xu, Duo, Joshua J. Carter, Chunfeng Li, Ashley Utz, Payton A. B. Weidenbacher, Shaogeng Tang, Mrinmoy Sanyal, Bali Pulendran, Christopher O. Barnes, Peter S. Kim. Nature Chemical Biology (2024). doi.org/10.1038/s41589-023-01529-6. Vaccine design via antigen reorientation. (PDF)
Xu, Duo, Abigail E. Powell, Ashley Utz, Mrinmoy Sanyal, Jonathan Do, J. J. Patten, Juan I. Moliva, Nancy J. Sullivan, Robert A. Davey, Peter S. Kim. Proc. Natl. Acad. Sci. USA (2024). doi.org/10.1073/pnas.2316960121. Design of universal Ebola virus vaccine candidates via immunofocusing. (PDF)
Yu, Myeong-Hee, Jonathan S. Weissman and Peter S. Kim J. Mol. Biol. (1995) 249: 388-397. Contribution of Individual Side-Chains to the Stability of BPTI Examined by Alanine-Scanning Mutagenesis. (PDF)
Zhao, Xun, Saghi Ghaffari, Harvey Lodish, Vladimir N. Malashkevich and Peter S. Kim Nat. Struct. Biol. (2002) 9: 117-120. Structure of the Bcr-Abl Oncoprotein Oligomerization Domain. (PDF)
Zhao, Xun, Mona Singh, Vladimir N. Malashkevich and Peter S. Kim Proc. Natl. Acad. Sci. USA (2000) 97: 14172-14177. Structural Characterization of the Human Respiratory Syncytial Virus Fusion Protein Core. (PDF)
published preprints
22. Payton A Weidenbacher, Natalia Friedland, Mrinmoy Sanyal, Mary Kate Morris, Jonathan Do, Carl Hanson, Peter S. Kim. bioRxiv (2023). Decreased efficacy of a COVID-19 vaccine due to mutations present in early SARS-CoV-2 variants of concern. (PDF)
Preprint: https://www.biorxiv.org/content/10.1101/2023.06.27.546764v2
21. Duo Xu, Abigail E. Powell, Ashley Utz, Mrinmoy Sanyal, Jonathan Do, J.J. Patten, Juan I. Moliva, Nancy J. Sullivan, Robert A. Davey, Peter S. Kim. bioRxiv (2023). Design of universal Ebola virus vaccine candidates via immunofocusing. (PDF)
Preprint: https://www.biorxiv.org/content/10.1101/2023.10.14.562364v1
20. Duo Xu, Chunfeng Li, Ashley Utz, Payton A.B. Weidenbacher, Shaogeng Tang, Mrinmoy Sanyal, Bali Pulendran, Peter S. Kim. bioRxiv (2022). Designing epitope-focused vaccines via antigen reorientation. (PDF)
Preprint: https://www.biorxiv.org/content/10.1101/2022.12.20.521291v1
19. Ozan Kumru, Mrinmoy Sanyal, Natalia Friedland, John Hickey, Richa Joshi, Payton Weidenbacher, Jonathan Do, Ya-Chen Cheng, Peter S. Kim, Sangeeta B Joshi, David B Volkin. bioRxiv (2023). Formulation development and comparability studies with an aluminum-salt adjuvanted SARS-CoV-2 Spike ferritin nanoparticle vaccine antigen produced from two different cell lines. (PDF)
Preprint: https://www.biorxiv.org/content/10.1101/2023.04.03.535447v1
18. Brian L Hie, Duo Xu, Varun R Shanker, Theodora UJ Bruun, Payton A Weidenbacher, Shaogeng Tang, Peter S Kim. bioRxiv (2022). Efficient evolution of human antibodies from general protein language models and sequence information alone. (PDF)
Preprint: https://www.biorxiv.org/content/10.1101/2022.04.10.487811v1
17. Payton A.-B. Weidenbacher, Mrinmoy Sanyal, Natalia Friedland, Shaogeng Tang, Prabhu S. Arunachalam, Mengyun Hu, Ozan S. Kumru, Mary Kate Morris, Jane Fontenot, Lisa Shirreff, Jonathan Do, Ya-Chen Cheng, Gayathri Vasudevan, Mark B. Feinberg, Francois J. Villinger, Carl Hanson, Sangeeta B. Joshi, David B. Volkin, Bali Pulendran, Peter S. Kim. bioRxiv (2022). A ferritin-based COVID-19 nanoparticle vaccine that elicits robust, durable, broad-spectrum neutralizing antisera in non-human primates (PDF)
Preprint: https://www.biorxiv.org/content/10.1101/2022.12.25.521784v1
16. Theodora U. J. Bruun, Shaogeng Tang, Graham Erwin, Lindsay Deis, Daniel Fernandez, Peter S. Kim. bioRxiv (2022). Structure-guided stabilization improves the ability of the HIV-1 gp41 hydrophobic pocket to elicit neutralizing antibodies. (PDF)
Preprint: https://www.biorxiv.org/content/10.1101/2022.12.22.521671v1
15. Benjamin N. Bell, Theodora U. J. Bruun, Natalia Friedland, Peter S. Kim. bioRxiv (2022). HIV-1 neutralization tiers are not relevant for inhibitors targeting the pre-hairpin intermediate. (PDF)
Preprint: https://www.biorxiv.org/content/10.1101/2022.10.06.511062v1
14. Soohyun Kim, Maria V. Filsinger Interrante, Peter S. Kim. bioRxiv (2022). Enhancing HIV-1 neutralization by increasing the local concentration of MPER-directed bnAbs. (PDF)
Preprint: https://www.biorxiv.org/content/10.1101/2022.10.23.513422v1
13. Shaogeng Tang, Yonggang Lu, Will M Skinner, Mrinmoy Sanyal, Polina V Lishko, Masahito Ikawa, Peter S. Kim. bioRxiv (2022). Human sperm TMEM95 binds eggs and facilitates membrane fusion (PDF)
Preprint: https://www.biorxiv.org/content/10.1101/2022.06.10.495573v1
12. Payton A.-B. Weidenbacher, Eric Waltari, Izumi de los Rios Kobara, Benjamin N. Bell, John E. Pak, Peter S. Kim. bioRxiv (2022). Converting non-neutralizing SARS-CoV-2 antibodies targeting conserved epitopes into broad-spectrum inhibitors through receptor blockade (PDF)
Preprint: https://www.biorxiv.org/content/10.1101/2022.01.24.477625v1
11. Brian L. Hie, Kevin K. Yang, Peter S. Kim. Cell Systems (2022). Evolutionary velocity with protein language models (PDF)
Preprint: https://www.biorxiv.org/content/10.1101/2021.06.07.447389v1
10. Benjamin Nikola Bell, Abigail E. Powell, Carlos Rodriguez, Jennifer R Cochran, Peter S. Kim. Protein Science. (2021). Neutralizing antibodies targeting the SARS-CoV-2 receptor binding domain isolated from a naïve human antibody library (PDF)
Preprint: https://www.biorxiv.org/content/10.1101/2021.01.07.425806v1
9. Abigail E. Powell, Kaiming Zhang, Mrinmoy Sanyal, Shaogeng Tang, Payton A. Weidenbacher, Shanshan Li, Tho D. Pham, John E. Pak, Wah Chiu, Peter S. Kim. ACS Cent. Sci. (2021). A single immunization with spike-functionalized ferritin vaccines elicits neutralizing antibody responses against SARS-CoV-2 in mice. (PDF)
Preprint: https://www.biorxiv.org/content/10.1101/2020.08.28.272518v1
8. David C. Montefiori, Maria V. Filsinger Interrante, Benjamin N. Bell, Adonis A. Rubio, Joseph G. Joyce, John W. Shiver, Celia C. LaBranche, and Peter S. Kim. Proc. Natl. Acad. Sci. USA (2021). The high-affinity immunoglobulin receptor FcγRI potentiates HIV-1 neutralization via antibodies against the gp41 N-heptad repeat. (PDF)
Preprint: https://www.biorxiv.org/content/10.1101/2020.08.27.271064v1
7. Daniel Brigger, Michael P. Horn, Luke F. Pennington, Abigail E. Powell, Vanja Piezzi, Lauro Damonti, Patricia Iseli, Christoph Hauser, Tanja K. Froehlich, Martin F. Bachmann, Stephen L. Leib, Pascal Bittel, Martin Fiedler, Carlo Largiader, Jonas Marschall, Hanspeter Stalder, Peter S. Kim, Theodore S. Jardetsky, Alexander Eggel, and Michael Nagler Allergy (2021). 76: 853-865, Accuracy of serological testing for SARS‐CoV‐2 antibodies: First results of a large mixed‐method evaluation study. (PDF)
Preprint: https://papers.ssrn.com/sol3/papers.cfm?abstract_id=3605126
6. Nielsen, S.C.A., Yang, F., Jackson, K.J.L., Hoh, R.A., Röltgen, K., Jean, G.H., Stevens, B.A., Lee, J.-Y., Rustagi, A., Rogers, A.J., Powell, A.E., Hunter, M., Najeeb, J., Otrelo-Cardoso, A.R., Yost, K.E., et al. Cell Host Microbe (2020) Human B Cell Clonal Expansion and Convergent Antibody Responses to SARS-CoV-2. Cell Host Microbe. (PDF)
Preprint: https://www.biorxiv.org/content/10.1101/2020.07.08.194456v1
5. Nitya S. Ramadoss, Nancy Q. Zhao, Barbra A. Richardson, Philip M. Grant, Peter S. Kim, and Catherine A. Blish AIDS (2020). 34(9): 1313-1323. Enhancing natural killer cell function with gp41-targeting bispecific antibodies to combat HIV infection. (PDF)
Preprint: https://www.biorxiv.org/content/10.1101/760280v1
4. Eric Waltari, Esteban Carabajal, Mrinmoy Sanyal, Natalia Friedland and Krista M. McCutcheon Journal of Immunological Methods (2020). 112789. Adaption of a conventional ELISA to a 96-well ELISA-Array for measuring the antibody responses to influenza virus proteins and vaccines. (PDF)
Preprint: https://www.biorxiv.org/content/10.1101/2019.12.20.885285v2
3. Shaogeng Tang, and Peter S. Kim Proc. Natl. Acad. Sci. USA (2019). 116: 24500-24506. A high-affinity human PD-1/PD-L2 complex informs avenues for small-molecule immune checkpoint drug discovery. (PDF)
Preprint: https://www.biorxiv.org/content/10.1101/786319v1.full
2. Eric Waltari, Aaron McGreever, Peter S. Kim and Krista M. McCutcheon Frontiers in Immunology (2019) 10: 1452. Functional Enrichment and Analysis of Antigen-Specific Memory B Cell Antibody Repertoires in PBMCs. (PDF)
Preprint: https://www.biorxiv.org/content/10.1101/557769v1
1. Payton A. Weidenbacher and Peter S. Kim Proc. Natl. Acad. Sci. USA (2019) 116: 9947-9952. Protect, Modify, Deprotect (PMD): A strategy for creating vaccines to elicit antibodies targeting a specific epitope. (PDF)
Preprint: https://www.biorxiv.org/content/10.1101/507541v1