Ruth Nussinov - Publications

Affiliations: 
National Cancer Institute National Institutes of Health, Bethesda, MD 
Website:
https://ccr.cancer.gov/Laboratory-of-Cancer-Immunometabolism/ruth-nussinov

136 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
2020 He Y, Agnihotri P, Rangarajan S, Chen Y, Kerzic MC, Ma B, Nussinov R, Mariuzza RA, Orban J. Peptide-MHC Binding Reveals Conserved Allosteric Sites in MHC Class I- and Class II-Restricted T Cell Receptors (TCRs). Journal of Molecular Biology. PMID 33157083 DOI: 10.1016/j.jmb.2020.10.031  0.52
2020 Nussinov R, Tsai CJ, Jang H. Are Parallel Proliferation Pathways Redundant? Trends in Biochemical Sciences. PMID 32345469 DOI: 10.1016/j.tibs.2020.03.013  0.48
2020 Nussinov R, Jang H, Zhang M, Tsai CJ, Sablina AA. The Mystery of Rap1 Suppression of Oncogenic Ras. Trends in Cancer. PMID 32249186 DOI: 10.1016/j.trecan.2020.02.002  0.48
2020 Guven-Maiorov E, Hakouz A, Valjevac S, Keskin O, Tsai CJ, Gursoy A, Nussinov R. HMI-PRED: A Web Server for Structural Prediction of Host-Microbe Interactions Based on Interface Mimicry. Journal of Molecular Biology. PMID 32061934 DOI: 10.1016/j.jmb.2020.01.025  0.48
2020 Nussinov R, Tsai CJ, Jang H. Ras assemblies and signaling at the membrane. Current Opinion in Structural Biology. 62: 140-148. PMID 32032914 DOI: 10.1016/j.sbi.2020.01.009  0.48
2020 Muratcioglu S, Aydin C, Odabasi E, Ozdemir ES, Firat-Karalar EN, Jang H, Tsai CJ, Nussinov R, Kavakli IH, Gursoy A, Keskin O. Oncogenic K-Ras4B dimerization enhances downstream MAPK signaling. Journal of Molecular Biology. PMID 31931009 DOI: 10.1016/j.jmb.2020.01.002  0.48
2020 Nussinov R, Tsai CJ, Jang H. Autoinhibition can identify rare driver mutations and advise pharmacology. Faseb Journal : Official Publication of the Federation of American Societies For Experimental Biology. 34: 16-29. PMID 31914624 DOI: 10.1096/fj.201901341R  0.48
2019 Guven-Maiorov E, Tsai CJ, Nussinov R. Oncoviruses Can Drive Cancer by Rewiring Signaling Pathways Through Interface Mimicry. Frontiers in Oncology. 9: 1236. PMID 31803618 DOI: 10.3389/fonc.2019.01236  0.48
2019 Nussinov R, Tsai CJ, Jang H. Dynamic Protein Allosteric Regulation and Disease. Advances in Experimental Medicine and Biology. 1163: 25-43. PMID 31707698 DOI: 10.1007/978-981-13-8719-7_2  0.48
2019 Nussinov R, Tsai CJ, Jang H. Why Are Some Driver Mutations Rare? Trends in Pharmacological Sciences. PMID 31699406 DOI: 10.1016/j.tips.2019.10.003  0.48
2019 Nussinov R, Tsai CJ, Jang H. Protein ensembles link genotype to phenotype. Plos Computational Biology. 15: e1006648. PMID 31220071 DOI: 10.1371/journal.pcbi.1006648  0.48
2019 Tsai CJ, Nussinov R. Emerging Allosteric Mechanism of EGFR Activation in Physiological and Pathological Contexts. Biophysical Journal. PMID 31202480 DOI: 10.1016/j.bpj.2019.05.021  0.48
2019 Nussinov R, Jang H, Tsai CJ, Cheng F. Correction: Review: Precision medicine and driver mutations: Computational methods, functional assays and conformational principles for interpreting cancer drivers. Plos Computational Biology. 15: e1007114. PMID 31188819 DOI: 10.1371/journal.pcbi.1007114  0.48
2019 Nussinov R, Jang H, Tsai CJ, Cheng F. Review: Precision medicine and driver mutations: Computational methods, functional assays and conformational principles for interpreting cancer drivers. Plos Computational Biology. 15: e1006658. PMID 30921324 DOI: 10.1371/journal.pcbi.1006658  0.48
2019 Nussinov R, Tsai CJ, Shehu A, Jang H. Computational Structural Biology: Successes, Future Directions, and Challenges. Molecules (Basel, Switzerland). 24. PMID 30759724 DOI: 10.3390/molecules24030637  0.48
2019 Wodak SJ, Paci E, Dokholyan NV, Berezovsky IN, Horovitz A, Li J, Hilser VJ, Bahar I, Karanicolas J, Stock G, Hamm P, Stote RH, Eberhardt J, Chebaro Y, Dejaegere A, ... ... Nussinov R, et al. Allostery in Its Many Disguises: From Theory to Applications. Structure (London, England : 1993). PMID 30744993 DOI: 10.1016/j.str.2019.01.003  0.48
2019 Nussinov R, Jang H, Tsai CJ, Cheng F. Precision medicine review: rare driver mutations and their biophysical classification. Biophysical Reviews. PMID 30610579 DOI: 10.1007/s12551-018-0496-2  0.48
2019 Guven-Maiorov E, Tsai CJ, Ma B, Nussinov R. Interface-Based Structural Prediction of Novel Host-Pathogen Interactions. Methods in Molecular Biology (Clifton, N.J.). 1851: 317-335. PMID 30298406 DOI: 10.1007/978-1-4939-8736-8_18  0.52
2018 Zhang M, Zheng J, Nussinov R, Ma B. Molecular Recognition between Aβ-Specific Single-Domain Antibody and Aβ Misfolded Aggregates. Antibodies (Basel, Switzerland). 7. PMID 31544877 DOI: 10.3390/antib7030025  0.52
2018 Zhao J, Nussinov R, Wu WJ, Ma B. In Silico Methods in Antibody Design. Antibodies (Basel, Switzerland). 7. PMID 31544874 DOI: 10.3390/antib7030022  0.52
2018 Lei J, Qi R, Tang Y, Wang W, Wei G, Nussinov R, Ma B. Conformational stability and dynamics of the cancer-associated isoform Δ133p53β are modulated by p53 peptides and p53-specific DNA. Faseb Journal : Official Publication of the Federation of American Societies For Experimental Biology. fj201801973R. PMID 30540922 DOI: 10.1096/fj.201801973R  0.52
2018 Nussinov R, Zhang M, Tsai CJ, Liao TJ, Fushman D, Jang H. Autoinhibition in Ras effectors Raf, PI3Kα, and RASSF5: a comprehensive review underscoring the challenges in pharmacological intervention. Biophysical Reviews. PMID 30269291 DOI: 10.1007/s12551-018-0461-0  0.48
2018 Weismiller HA, Murphy R, Wei G, Ma B, Nussinov R, Margittai M. Structural disorder in four-repeat Tau fibrils reveals a new mechanism for barriers to cross-seeding of Tau isoforms. The Journal of Biological Chemistry. PMID 30242125 DOI: 10.1074/jbc.RA118.005316  0.52
2018 Zhao J, Nussinov R, Ma B. Antigen binding allosterically promotes Fc receptor recognition. Mabs. PMID 30212263 DOI: 10.1080/19420862.2018.1522178  0.52
2018 Rangarajan S, He Y, Chen Y, Kerzic MC, Ma B, Gowthaman R, Pierce BG, Nussinov R, Mariuzza RA, Orban J. Peptide-MHC (pMHC) binding to a human antiviral T cell receptor induces long-range allosteric communication between pMHC- and CD3-binding sites. The Journal of Biological Chemistry. PMID 30135211 DOI: 10.1074/jbc.RA118.003832  0.52
2018 Tsai CJ, Nussinov R. Allosteric activation of RAF in the MAPK signaling pathway. Current Opinion in Structural Biology. 53: 100-106. PMID 30059805 DOI: 10.1016/j.sbi.2018.07.007  0.48
2018 Xu L, Ma B, Nussinov R, Thompson D. Correction to Familial Mutations May Switch Conformational Preferences in α-Synuclein Fibrils. Acs Chemical Neuroscience. PMID 29855185 DOI: 10.1021/acschemneuro.8b00240  0.52
2018 Li X, Dong X, Wei G, Margittai M, Nussinov R, Ma B. The distinct structural preferences of tau protein repeat domains. Chemical Communications (Cambridge, England). PMID 29774342 DOI: 10.1039/c8cc01263f  0.52
2018 Ren B, Hu R, Zhang M, Liu Y, Xu L, Jiang B, Ma J, Ma B, Nussinov R, Zheng J. Experimental and Computational Protocols for Studies of Cross-Seeding Amyloid Assemblies. Methods in Molecular Biology (Clifton, N.J.). 1777: 429-447. PMID 29744852 DOI: 10.1007/978-1-4939-7811-3_27  0.52
2018 Qi R, Wei G, Ma B, Nussinov R. Replica Exchange Molecular Dynamics: A Practical Application Protocol with Solutions to Common Problems and a Peptide Aggregation and Self-Assembly Example. Methods in Molecular Biology (Clifton, N.J.). 1777: 101-119. PMID 29744830 DOI: 10.1007/978-1-4939-7811-3_5  0.52
2018 Nussinov R, Tsai CJ, Jang H. Oncogenic KRas mobility in the membrane and signaling response. Seminars in Cancer Biology. PMID 29499269 DOI: 10.1016/j.semcancer.2018.02.009  0.48
2018 Qian Z, Zou Y, Zhang Q, Chen P, Ma B, Wei G, Nussinov R. Atomistic-level study of the interactions between hIAPP protofibrils and membranes: Influence of pH and lipid composition. Biochimica Et Biophysica Acta. PMID 29428499 DOI: 10.1016/j.bbamem.2018.02.005  0.52
2018 Song NY, Zhu F, Wang Z, Willette-Brown J, Xi S, Sun Z, Su L, Wu X, Ma B, Nussinov R, Xia X, Schrump DS, Johnson PF, Karin M, Hu Y. IKKα inactivation promotes Kras-initiated lung adenocarcinoma development through disrupting major redox regulatory pathways. Proceedings of the National Academy of Sciences of the United States of America. PMID 29311298 DOI: 10.1073/pnas.1717520115  0.52
2018 Nussinov R, Tsai CJ, Jang H. Is Nanoclustering essential for all oncogenic KRas pathways? Can it explain why wild-type KRas can inhibit its oncogenic variant? Seminars in Cancer Biology. PMID 29307569 DOI: 10.1016/j.semcancer.2018.01.002  0.48
2017 Nussinov R, Tsai CJ, Jang H. Oncogenic Ras Isoforms Signaling Specificity at the Membrane. Cancer Research. PMID 29273632 DOI: 10.1158/0008-5472.CAN-17-2727  0.48
2017 Zhao J, Zhang B, Zhu J, Nussinov R, Ma B. Structure and energetic basis of overrepresented λ light chain in systemic light chain amyloidosis patients. Biochimica Et Biophysica Acta. PMID 29241665 DOI: 10.1016/j.bbadis.2017.12.009  0.52
2017 Wang M, Zhu D, Zhu J, Nussinov R, Ma B. Local and global anatomy of antibody-protein antigen recognition. Journal of Molecular Recognition : Jmr. PMID 29218757 DOI: 10.1002/jmr.2693  0.52
2017 Guven-Maiorov E, Tsai CJ, Ma B, Nussinov R. Prediction of Host-Pathogen Interactions for Helicobacter pylori by Interface Mimicry and Implications to Gastric Cancer. Journal of Molecular Biology. PMID 29106933 DOI: 10.1016/j.jmb.2017.10.023  0.52
2017 Nussinov R, Zhang M, Tsai CJ, Jang H. Calmodulin and IQGAP1 activation of PI3Kα and Akt in KRAS, HRAS and NRAS-driven cancers. Biochimica Et Biophysica Acta. PMID 29097261 DOI: 10.1016/j.bbadis.2017.10.032  0.48
2017 Guven-Maiorov E, Tsai CJ, Nussinov R. Structural host-microbiota interaction networks. Plos Computational Biology. 13: e1005579. PMID 29023448 DOI: 10.1371/journal.pcbi.1005579  0.48
2017 Dong X, Sun Y, Wei G, Nussinov R, Ma B. Binding of protofibrillar Aβ trimers to lipid bilayer surface enhances Aβ structural stability and causes membrane thinning. Physical Chemistry Chemical Physics : Pccp. PMID 28979963 DOI: 10.1039/c7cp05959k  0.52
2017 Zhao J, Nussinov R, Ma B. Mechanisms of recognition of Aβ monomer, oligomer, and fibril by homologous antibodies. The Journal of Biological Chemistry. PMID 28924036 DOI: 10.1074/jbc.M117.801514  0.52
2017 Libardo MDJ, Bahar AA, Ma B, Fu R, McCormick LE, Zhao J, McCallum SA, Nussinov R, Ren D, Angeles-Boza AM, Cotten ML. Nuclease Activity Gives an Edge to Host-Defense Peptide Piscidin 3 over Piscidin 1, Rendering it more Effective against Persisters and Biofilms. The Febs Journal. PMID 28892294 DOI: 10.1111/febs.14263  0.52
2017 Nussinov R, Jang H, Tsai CJ, Liao TJ, Li S, Fushman D, Zhang J. Intrinsic protein disorder in oncogenic KRAS signaling. Cellular and Molecular Life Sciences : Cmls. PMID 28597297 DOI: 10.1007/s00018-017-2564-3  0.48
2017 Zhang M, Zheng J, Nussinov R, Ma B. Release of Cytochrome C from Bax Pores at the Mitochondrial Membrane. Scientific Reports. 7: 2635. PMID 28572603 DOI: 10.1038/s41598-017-02825-7  0.52
2017 Nussinov R, Wang G, Tsai CJ, Jang H, Lu S, Banerjee A, Zhang J, Gaponenko V. Calmodulin and PI3K Signaling in KRAS Cancers. Trends in Cancer. 3: 214-224. PMID 28462395 DOI: 10.1016/j.trecan.2017.01.007  0.48
2017 Tsai CJ, Nussinov R. Allostery modulates the beat rate of a cardiac pacemaker. The Journal of Biological Chemistry. 292: 6429-6430. PMID 28411213 DOI: 10.1074/jbc.H116.773697  0.48
2017 Nussinov R, Tsai CJ, Jang H. A New View of Pathway-Driven Drug Resistance in Tumor Proliferation. Trends in Pharmacological Sciences. PMID 28245913 DOI: 10.1016/j.tips.2017.02.001  0.48
2017 Liao TJ, Jang H, Tsai CJ, Fushman D, Nussinov R. The dynamic mechanism of RASSF5 and MST kinase activation by Ras. Physical Chemistry Chemical Physics : Pccp. PMID 28197608 DOI: 10.1039/c6cp08596b  0.48
2017 Xu L, Ma B, Nussinov R, Thompson D. Familial Mutations May Switch Conformational Preferences in α-Synuclein Fibrils. Acs Chemical Neuroscience. PMID 28075555 DOI: 10.1021/acschemneuro.6b00406  0.52
2017 Gan W, Schneidman D, Zhang N, Ma B, Nussinov R. Probing Oligomerized Conformations of Defensin in the Membrane. Methods in Molecular Biology (Clifton, N.J.). 1529: 353-362. PMID 27914061 DOI: 10.1007/978-1-4939-6637-0_18  0.52
2017 Haspel N, Zheng J, Aleman C, Zanuy D, Nussinov R. A Protocol for the Design of Protein and Peptide Nanostructure Self-Assemblies Exploiting Synthetic Amino Acids. Methods in Molecular Biology (Clifton, N.J.). 1529: 323-352. PMID 27914060 DOI: 10.1007/978-1-4939-6637-0_17  0.52
2017 Zhao J, Nussinov R, Ma B. Allosteric control of antibody-prion recognition through oxidation of a disulfide bond between the CH and CL chains. Protein Engineering, Design & Selection : Peds. 30: 67-76. PMID 27899437 DOI: 10.1093/protein/gzw065  0.52
2016 Gong Y, Zhu Y, Zou Y, Ma B, Nussinov R, Zhang Q. Human Neuronal Calcium Sensor-1 Protein Avoids Histidine Residues to Decrease pH Sensitivity. The Journal of Physical Chemistry. B. PMID 28030949 DOI: 10.1021/acs.jpcb.6b11094  0.52
2016 Ma B, Nussinov R. Protein dynamics: Conformational footprints. Nature Chemical Biology. 12: 890-891. PMID 27755531 DOI: 10.1038/nchembio.2212  0.52
2016 Liao TJ, Tsai CJ, Jang H, Fushman D, Nussinov R. RASSF5: An MST activator and tumor suppressor in vivo but opposite in vitro. Current Opinion in Structural Biology. 41: 217-224. PMID 27643882 DOI: 10.1016/j.sbi.2016.09.001  0.52
2016 Zhang M, Zheng J, Nussinov R, Ma B. Oncogenic Mutations Differentially Affect Bax Monomer, Dimer, and Oligomeric Pore Formation in the Membrane. Scientific Reports. 6: 33340. PMID 27630059 DOI: 10.1038/srep33340  0.52
2016 Zhan C, Qi R, Wei G, Guven-Maiorov E, Nussinov R, Ma B. Conformational dynamics of cancer-associated MyD88-TIR domain mutant L252P (L265P) allosterically tilts the landscape toward homo-dimerization. Protein Engineering, Design & Selection : Peds. PMID 27503954 DOI: 10.1093/protein/gzw033  0.52
2016 Lu S, Jang H, Gu S, Zhang J, Nussinov R. Drugging Ras GTPase: a comprehensive mechanistic and signaling structural view. Chemical Society Reviews. PMID 27396271 DOI: 10.1039/c5cs00911a  0.52
2016 Nussinov R, Tsai CJ, Jang H. Independent and core pathways in oncogenic KRAS signaling. Expert Review of Proteomics. PMID 27389825 DOI: 10.1080/14789450.2016.1209417  0.52
2016 Guven-Maiorov E, Tsai CJ, Nussinov R. Pathogen Mimicry of Host Protein-Protein Interfaces Modulates Immune Response. Seminars in Cell & Developmental Biology. PMID 27287306 DOI: 10.1016/j.semcdb.2016.06.004  0.52
2016 Ma B, Zhao J, Nussinov R. Conformational selection in amyloid-based immunotherapy: Survey of crystal structures of antibody-amyloid complexes. Biochimica Et Biophysica Acta. PMID 27266343 DOI: 10.1016/j.bbagen.2016.05.040  0.52
2016 Guven-Maiorov E, Keskin O, Gursoy A, VanWaes C, Chen Z, Tsai CJ, Nussinov R. TRAF3 Signaling: Competitive Binding and Evolvability of Adaptive Viral Molecular Mimicry. Biochimica Et Biophysica Acta. PMID 27208423 DOI: 10.1016/j.bbagen.2016.05.021  0.52
2016 Maximova T, Moffatt R, Ma B, Nussinov R, Shehu A. Principles and Overview of Sampling Methods for Modeling Macromolecular Structure and Dynamics. Plos Computational Biology. 12: e1004619. PMID 27124275 DOI: 10.1371/journal.pcbi.1004619  0.52
2016 Nussinov R, Tsai CJ, Jang H, Korcsmáros T, Csermely P. Oncogenic KRAS signaling and YAP1/β-catenin: Similar cell cycle control in tumor initiation. Seminars in Cell & Developmental Biology. PMID 27058752 DOI: 10.1016/j.semcdb.2016.04.001  0.52
2016 Hewitt WM, Lountos GT, Zlotkowski K, Dahlhauser SD, Saunders LB, Needle D, Tropea JE, Zhan C, Wei G, Ma B, Nussinov R, Waugh DS, Schneekloth JS. Insights Into the Allosteric Inhibition of the SUMO E2 Enzyme Ubc9. Angewandte Chemie (International Ed. in English). PMID 27038327 DOI: 10.1002/anie.201511351  0.52
2016 Zhu Y, Ma B, Qi R, Nussinov R, Zhang Q. Temperature-dependent Conformational Properties of Human Neuronal Calcium Sensor-1 Protein Revealed by All-atom Simulations. The Journal of Physical Chemistry. B. PMID 27007011 DOI: 10.1021/acs.jpcb.5b12299  0.52
2016 Lei J, Qi R, Wei G, Nussinov R, Ma B. Self-aggregation and coaggregation of the p53 core fragment with its aggregation gatekeeper variant. Physical Chemistry Chemical Physics : Pccp. PMID 26923710 DOI: 10.1039/c5cp06538k  0.52
2016 Lu S, Jang H, Nussinov R, Zhang J. The Structural Basis of Oncogenic Mutations G12, G13 and Q61 in Small GTPase K-Ras4B. Scientific Reports. 6: 21949. PMID 26902995 DOI: 10.1038/srep21949  0.52
2016 Xu L, Nussinov R, Ma B. Coupling of the non-amyloid-component (NAC) domain and the KTK(E/Q)GV repeats stabilize the α-synuclein fibrils. European Journal of Medicinal Chemistry. PMID 26873872 DOI: 10.1016/j.ejmech.2016.01.044  0.52
2016 Nussinov R, Muratcioglu S, Tsai CJ, Jang H, Gursoy A, Keskin O. K-Ras4B/calmodulin/PI3Kα: A promising new adenocarcinoma-specific drug target? Expert Opinion On Therapeutic Targets. 1-12. PMID 26873344 DOI: 10.1517/14728222.2016.1135131  0.52
2016 Nussinov R, Udgaonkar JB. Editorial overview: Folding and binding: Dynamic conformational heterogeneity is pivotal to cell life. Current Opinion in Structural Biology. PMID 26873135 DOI: 10.1016/j.sbi.2016.01.012  0.52
2016 Xu L, Zheng J, Margittai M, Nussinov R, Ma B. Hyperphopsphorylation Promotes Tau Aggregation by Modulating Filament Structure and Stability. Acs Chemical Neuroscience. PMID 26854860 DOI: 10.1021/acschemneuro.5b00294  0.52
2016 Zou Y, Sun Y, Zhu Y, Ma B, Nussinov R, Zhang Q. Critical Nucleus Structure and Aggregation Mechanism of the C-terminal Fragment of SOD1 Protein. Acs Chemical Neuroscience. PMID 26815332 DOI: 10.1021/acschemneuro.5b00242  0.52
2016 Wei G, Xi W, Nussinov R, Ma B. Protein Ensembles: How Does Nature Harness Thermodynamic Fluctuations for Life? The Diverse Functional Roles of Conformational Ensembles in the Cell. Chemical Reviews. PMID 26807783 DOI: 10.1021/acs.chemrev.5b00562  0.52
2016 Chakrabarti M, Jang H, Nussinov R. The Hypervariable Region (HVR) of GDP-Bound K-Ras4A Is Unlikely to Autoinhibit the Effector Binding Site. The Journal of Physical Chemistry. B. PMID 26761128 DOI: 10.1021/acs.jpcb.5b11110  0.52
2016 Jang H, Arce FT, Lee J, Gillman AL, Ramachandran S, Kagan BL, Lal R, Nussinov R. Computational Methods for Structural and Functional Studies of Alzheimer's Amyloid Ion Channels. Methods in Molecular Biology (Clifton, N.J.). 1345: 251-68. PMID 26453217 DOI: 10.1007/978-1-4939-2978-8_16  0.52
2015 Jang H, Banerjee A, Chavan TS, Lu S, Zhang J, Gaponenko V, Nussinov R. The higher level of complexity of K-Ras4B activation at the membrane. Faseb Journal : Official Publication of the Federation of American Societies For Experimental Biology. PMID 26718888 DOI: 10.1096/fj.15-279091  0.52
2015 Chavan TS, Jang H, Khavrutskii L, Abraham SJ, Banerjee A, Freed BC, Johannessen L, Tarasov SG, Gaponenko V, Nussinov R, Tarasova NI. High-Affinity Interaction of the K-Ras4B Hypervariable Region with the Ras Active Site. Biophysical Journal. 109: 2602-13. PMID 26682817 DOI: 10.1016/j.bpj.2015.09.034  0.52
2015 Xu L, Nussinov R, Ma B. Allosteric stabilization of the amyloid-β peptide hairpin by the fluctuating N-terminal. Chemical Communications (Cambridge, England). PMID 26666686 DOI: 10.1039/c5cc08107f  0.52
2015 Nussinov R, Tsai CJ, Chakrabarti M, Jang H. A New View of Ras Isoforms in Cancers. Cancer Research. PMID 26659836 DOI: 10.1158/0008-5472.CAN-15-1536  0.52
2015 Datta SA, Clark PK, Fan L, Ma B, Harvin DP, Sowder RC, Nussinov R, Wang YX, Rein A. DIMERIZATION OF THE SP-1 REGION OF HIV-1 GAG INDUCES A HELICAL CONFORMATION AND ASSOCIATION INTO HELICAL BUNDLES: IMPLICATIONS FOR PARTICLE ASSEMBLY. Journal of Virology. PMID 26637452 DOI: 10.1128/JVI.02061-15  0.52
2015 Lu S, Jang H, Zhang J, Nussinov R. Inhibitors of Ras-SOS Interactions. Chemmedchem. PMID 26630662 DOI: 10.1002/cmdc.201500481  0.52
2015 Nussinov R, Tsai CJ. Tandem Domains with Tuned Interactions Are a Powerful Biological Design Principle. Plos Biology. 13: e1002306. PMID 26618518 DOI: 10.1371/journal.pbio.1002306  0.48
2015 Shehu A, Nussinov R. Computational Methods for Exploration and Analysis of Macromolecular Structure and Dynamics. Plos Computational Biology. 11: e1004585. PMID 26505479 DOI: 10.1371/journal.pcbi.1004585  0.52
2015 Nussinov R, Tsai CJ, Muratcioglu S, Jang H, Gursoy A, Keskin O. Principles of K-Ras effector organization and the role of oncogenic K-Ras in cancer initiation through G1 cell cycle deregulation. Expert Review of Proteomics. 1-14. PMID 26496174 DOI: 10.1586/14789450.2015.1100079  0.48
2015 Lu S, Banerjee A, Jang H, Zhang J, Gaponenko V, Nussinov R. GTP Binding and Oncogenic Mutations May Attenuate Hypervariable Region (HVR)-Catalytic Domain Interactions in Small GTPase KRAS4B, Exposing the Effector Binding Site. The Journal of Biological Chemistry. PMID 26453300 DOI: 10.1074/jbc.M115.664755  0.52
2015 Zhu Y, Yang S, Qi R, Zou Y, Ma B, Nussinov R, Zhang Q. Effects of the C-Terminal Tail on the Conformational Dynamics of Human Neuronal Calcium Sensor-1 Protein. The Journal of Physical Chemistry. B. PMID 26447771 DOI: 10.1021/acs.jpcb.5b07962  0.52
2015 Baram M, Atsmon-Raz Y, Ma B, Nussinov R, Miller Y. Amylin-Aβ oligomers at atomic resolution using molecular dynamics simulations: a link between Type 2 diabetes and Alzheimer's disease. Physical Chemistry Chemical Physics : Pccp. PMID 26349542 DOI: 10.1039/c5cp03338a  0.52
2015 Clausen R, Ma B, Nussinov R, Shehu A. Mapping the Conformation Space of Wildtype and Mutant H-Ras with a Memetic, Cellular, and Multiscale Evolutionary Algorithm. Plos Computational Biology. 11: e1004470. PMID 26325505 DOI: 10.1371/journal.pcbi.1004470  0.52
2015 Guven-Maiorov E, Keskin O, Gursoy A, VanWaes C, Chen Z, Tsai CJ, Nussinov R. The Architecture of the TIR Domain Signalosome in the Toll-like Receptor-4 Signaling Pathway. Scientific Reports. 5: 13128. PMID 26293885 DOI: 10.1038/srep13128  0.48
2015 Muratcioglu S, Presman DM, Pooley JR, Grøntved L, Hager GL, Nussinov R, Keskin O, Gursoy A. Structural Modeling of GR Interactions with the SWI/SNF Chromatin Remodeling Complex and C/EBP. Biophysical Journal. 109: 1227-39. PMID 26278180 DOI: 10.1016/j.bpj.2015.06.044  0.52
2015 Lu S, Deng R, Jiang H, Song H, Li S, Shen Q, Huang W, Nussinov R, Yu J, Zhang J. The Mechanism of ATP-Dependent Allosteric Protection of Akt Kinase Phosphorylation. Structure (London, England : 1993). PMID 26256536 DOI: 10.1016/j.str.2015.06.027  0.52
2015 Nussinov R, Tsai CJ. The Role of Allostery in the Termination of Second Messenger Signaling. Biophysical Journal. 109: 1080-1. PMID 26248688 DOI: 10.1016/j.bpj.2015.07.007  0.48
2015 Zhou P, Zhang N, Nussinov R, Ma B. Defining the Domain Arrangement of the Mammalian Target of Rapamycin Complex Component Rictor Protein. Journal of Computational Biology : a Journal of Computational Molecular Cell Biology. PMID 26176550 DOI: 10.1089/cmb.2015.0103  0.52
2015 Nussinov R, Bonhoeffer S, Papin JA, Sporns O. From "What Is?" to "What Isn't?" Computational Biology. Plos Computational Biology. 11: e1004318. PMID 26134043 DOI: 10.1371/journal.pcbi.1004318  0.52
2015 Sali A, Berman HM, Schwede T, Trewhella J, Kleywegt G, Burley SK, Markley J, Nakamura H, Adams P, Bonvin AM, Chiu W, Peraro MD, Di Maio F, Ferrin TE, Grünewald K, ... ... Nussinov R, et al. Outcome of the First wwPDB Hybrid/Integrative Methods Task Force Workshop. Structure (London, England : 1993). PMID 26095030 DOI: 10.1016/j.str.2015.05.013  0.52
2015 Nussinov R, Muratcioglu S, Tsai CJ, Jang H, Gursoy A, Keskin O. The Key Role of Calmodulin in KRAS-Driven Adenocarcinomas. Molecular Cancer Research : McR. PMID 26085527 DOI: 10.1158/1541-7786.MCR-15-0165  0.48
2015 Xu L, Shan S, Chen Y, Wang X, Nussinov R, Ma B. Coupling of Zinc-Binding and Secondary Structure in Nonfibrillar Aβ40 Peptide Oligomerization. Journal of Chemical Information and Modeling. 55: 1218-30. PMID 26017140 DOI: 10.1021/acs.jcim.5b00063  0.52
2015 Xiao Y, Ma B, McElheny D, Parthasarathy S, Long F, Hoshi M, Nussinov R, Ishii Y. Aβ(1-42) fibril structure illuminates self-recognition and replication of amyloid in Alzheimer's disease. Nature Structural & Molecular Biology. 22: 499-505. PMID 25938662 DOI: 10.1038/nsmb.2991  0.52
2015 Jang H, Abraham SJ, Chavan TS, Hitchinson B, Khavrutskii L, Tarasova NI, Nussinov R, Gaponenko V. Mechanisms of membrane binding of small GTPase K-Ras4B farnesylated hypervariable region. The Journal of Biological Chemistry. 290: 9465-77. PMID 25713064 DOI: 10.1074/jbc.M114.620724  0.52
2015 Fetics SK, Guterres H, Kearney BM, Buhrman G, Ma B, Nussinov R, Mattos C. Allosteric effects of the oncogenic RasQ61L mutant on Raf-RBD. Structure (London, England : 1993). 23: 505-16. PMID 25684575 DOI: 10.1016/j.str.2014.12.017  0.52
2015 Nussinov R, Tsai CJ. 'Latent drivers' expand the cancer mutational landscape. Current Opinion in Structural Biology. 32: 25-32. PMID 25661093 DOI: 10.1016/j.sbi.2015.01.004  0.48
2015 Miller Y, Ma B, Nussinov R. Polymorphism in self-assembly of peptide-based β-hairpin contributes to network morphology and hydrogel mechanical rigidity. The Journal of Physical Chemistry. B. 119: 482-90. PMID 25545881 DOI: 10.1021/jp511485n  0.52
2015 Nussinov R, Tsai CJ. Allostery without a conformational change? Revisiting the paradigm. Current Opinion in Structural Biology. 30: 17-24. PMID 25500675 DOI: 10.1016/j.sbi.2014.11.005  0.48
2015 Nussinov R, Tsai CJ. The design of covalent allosteric drugs. Annual Review of Pharmacology and Toxicology. 55: 249-67. PMID 25149918 DOI: 10.1146/annurev-pharmtox-010814-124401  0.48
2015 Cronin M, Coolbaugh MJ, Nellis D, Zhu J, Wood DW, Nussinov R, Ma B. Dynamics differentiate between active and inactive inteins. European Journal of Medicinal Chemistry. 91: 51-62. PMID 25087201 DOI: 10.1016/j.ejmech.2014.07.094  0.52
2014 Nussinov R, Tsai CJ, Liu J. Principles of allosteric interactions in cell signaling. Journal of the American Chemical Society. 136: 17692-701. PMID 25474128 DOI: 10.1021/ja510028c  0.48
2014 Ma B, Kolb S, Diprima M, Karna M, Tosato G, Yang Q, Huang Q, Nussinov R. Investigation of the interactions between the EphB2 receptor and SNEW peptide variants. Growth Factors (Chur, Switzerland). 32: 236-46. PMID 25410963 DOI: 10.3109/08977194.2014.985786  0.52
2014 Nussinov R, Jang H, Tsai CJ. The structural basis for cancer treatment decisions. Oncotarget. 5: 7285-302. PMID 25277176 DOI: 10.18632/oncotarget.2439  0.48
2014 Luo Y, Ma B, Nussinov R, Wei G. Structural Insight into Tau Protein's Paradox of Intrinsically Disordered Behavior, Self-Acetylation Activity, and Aggregation. The Journal of Physical Chemistry Letters. 5: 3026-3031. PMID 25206938 DOI: 10.1021/jz501457f  0.52
2014 Cui Q, Nussinov R. Making biomolecular simulations accessible in the post-Nobel Prize era. Plos Computational Biology. 10: e1003786. PMID 25122142 DOI: 10.1371/journal.pcbi.1003786  0.52
2014 Sudha G, Nussinov R, Srinivasan N. An overview of recent advances in structural bioinformatics of protein-protein interactions and a guide to their principles. Progress in Biophysics and Molecular Biology. 116: 141-50. PMID 25077409 DOI: 10.1016/j.pbiomolbio.2014.07.004  0.52
2014 Ji X, Huang Q, Yu L, Nussinov R, Ma B. Bioinformatics study of cancer-related mutations within p53 phosphorylation site motifs. International Journal of Molecular Sciences. 15: 13275-98. PMID 25075982 DOI: 10.3390/ijms150813275  0.52
2014 Acuner-Ozbabacan ES, Engin BH, Guven-Maiorov E, Kuzu G, Muratcioglu S, Baspinar A, Chen Z, Van Waes C, Gursoy A, Keskin O, Nussinov R. The structural network of Interleukin-10 and its implications in inflammation and cancer. Bmc Genomics. 15: S2. PMID 25056661 DOI: 10.1186/1471-2164-15-S4-S2  0.52
2014 Nussinov R, Jang H. Dynamic multiprotein assemblies shape the spatial structure of cell signaling Progress in Biophysics and Molecular Biology. 116: 158-164. PMID 25046855 DOI: 10.1016/j.pbiomolbio.2014.07.002  0.52
2014 Dai D, Huang Q, Nussinov R, Ma B. Promiscuous and specific recognition among ephrins and Eph receptors. Biochimica Et Biophysica Acta. 1844: 1729-40. PMID 25017878 DOI: 10.1016/j.bbapap.2014.07.002  0.52
2013 Zanuy D, Kotla R, Nussinov R, Teesalu T, Sugahara KN, Alemán C, Haspel N. Sequence dependence of C-end rule peptides in binding and activation of neuropilin-1 receptor. Journal of Structural Biology. 182: 78-86. PMID 23462097 DOI: 10.1016/j.jsb.2013.02.006  0.52
2012 Haspel N, Laurent AD, Zanuy D, Nussinov R, Alemán C, Puiggalí J, Revilla-López G. Conformational exploration of two peptides and their hybrid polymer conjugates: potentialities as self-aggregating materials. The Journal of Physical Chemistry. B. 116: 13941-52. PMID 23157485 DOI: 10.1021/jp3043363  0.52
2011 Haspel N, Zanuy D, Nussinov R, Teesalu T, Ruoslahti E, Aleman C. Binding of a C-end rule peptide to the neuropilin-1 receptor: a molecular modeling approach. Biochemistry. 50: 1755-62. PMID 21247217 DOI: 10.1021/bi101662j  0.52
2009 Zanuy D, Ballano G, Jiménez AI, Casanovas J, Haspel N, Cativiela C, Curcó D, Nussinov R, Alemán C. Protein segments with conformationally restricted amino acids can control supramolecular organization at the nanoscale. Journal of Chemical Information and Modeling. 49: 1623-9. PMID 19548653 DOI: 10.1021/ci9001487  0.52
2007 Zanuy D, Rodríguez-Ropero F, Haspel N, Zheng J, Nussinov R, Aleman C. Stability of tubular structures based on beta-helical proteins: self-assembled versus polymerized nanoconstructs and wild-type versus mutated sequences. Biomacromolecules. 8: 3135-46. PMID 17854222 DOI: 10.1021/bm700561t  0.52
2007 Haspel N, Zanuy D, Zheng J, Aleman C, Wolfson H, Nussinov R. Changing the charge distribution of beta-helical-based nanostructures can provide the conditions for charge transfer. Biophysical Journal. 93: 245-53. PMID 17416628 DOI: 10.1529/biophysj.106.100644  0.52
2007 Tsai CJ, Zheng J, Zanuy D, Haspel N, Wolfson H, Alemán C, Nussinov R. Principles of nanostructure design with protein building blocks. Proteins. 68: 1-12. PMID 17407160 DOI: 10.1002/prot.21413  0.52
2007 Zheng J, Zanuy D, Haspel N, Tsai CJ, Alemán C, Nussinov R. Nanostructure design using protein building blocks enhanced by conformationally constrained synthetic residues. Biochemistry. 46: 1205-18. PMID 17260950 DOI: 10.1021/bi061674a  0.52
2007 Haspel N, Wainreb G, Inbar Y, Tsai HH, Tsai CJ, Wolfson HJ, Nussinov R. A hierarchical protein folding scheme based on the building block folding model. Methods in Molecular Biology (Clifton, N.J.). 350: 189-204. PMID 16957324  0.52
2006 Haspel N, Zanuy D, Alemán C, Wolfson H, Nussinov R. De novo tubular nanostructure design based on self-assembly of beta-helical protein motifs. Structure (London, England : 1993). 14: 1137-48. PMID 16843895 DOI: 10.1016/j.str.2006.05.016  0.52
2006 Alemán C, Zanuy D, Jiménez AI, Cativiela C, Haspel N, Zheng J, Casanovas J, Wolfson H, Nussinov R. Concepts and schemes for the re-engineering of physical protein modules: generating nanodevices via targeted replacements with constrained amino acids. Physical Biology. 3: S54-62. PMID 16582465 DOI: 10.1088/1478-3975/3/1/S06  0.52
2006 Wainreb G, Haspel N, Wolfson HJ, Nussinov R. A permissive secondary structure-guided superposition tool for clustering of protein fragments toward protein structure prediction via fragment assembly. Bioinformatics (Oxford, England). 22: 1343-52. PMID 16543273 DOI: 10.1093/bioinformatics/btl098  0.52
2005 Haspel N, Zanuy D, Ma B, Wolfson H, Nussinov R. A comparative study of amyloid fibril formation by residues 15-19 of the human calcitonin hormone: a single beta-sheet model with a small hydrophobic core. Journal of Molecular Biology. 345: 1213-27. PMID 15644216 DOI: 10.1016/j.jmb.2004.11.002  0.52
2004 Zanuy D, Haspel N, Tsai HH, Ma B, Gunasekaran K, Wolfson HJ, Nussinov R. Side chain interactions determine the amyloid organization: a single layer beta-sheet molecular structure of the calcitonin peptide segment 15-19. Physical Biology. 1: 89-99. PMID 16204826 DOI: 10.1088/1478-3967/1/2/005  0.52
2004 Tsai HH, Zanuy D, Haspel N, Gunasekaran K, Ma B, Tsai CJ, Nussinov R. The stability and dynamics of the human calcitonin amyloid peptide DFNKF. Biophysical Journal. 87: 146-58. PMID 15240453 DOI: 10.1529/biophysj.104.040352  0.52
2003 Schneidman-Duhovny D, Inbar Y, Polak V, Shatsky M, Halperin I, Benyamini H, Barzilai A, Dror O, Haspel N, Nussinov R, Wolfson HJ. Taking geometry to its edge: fast unbound rigid (and hinge-bent) docking. Proteins. 52: 107-12. PMID 12784375 DOI: 10.1002/prot.10397  0.52
2003 Haspel N, Tsai CJ, Wolfson H, Nussinov R. Reducing the computational complexity of protein folding via fragment folding and assembly. Protein Science : a Publication of the Protein Society. 12: 1177-87. PMID 12761388 DOI: 10.1110/ps.0232903  0.52
2003 Haspel N, Tsai CJ, Wolfson H, Nussinov R. Hierarchical protein folding pathways: a computational study of protein fragments. Proteins. 51: 203-15. PMID 12660989 DOI: 10.1002/prot.10294  0.52
2002 Sham YY, Ma B, Tsai CJ, Nussinov R. Thermal unfolding molecular dynamics simulation of Escherichia coli dihydrofolate reductase: Thermal stability of protein domains and unfolding pathway Proteins: Structure, Function and Genetics. 46: 308-320. PMID 11835506 DOI: 10.1002/prot.10040  0.52
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