George D. Rose - Related publications

Affiliations: 
1976 Biochemistry and Biophysics Oregon State University, Corvallis, OR 
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50 most relevant papers in past 60 days:
Year Citation  Score
2021 Milorey B, Schwalbe H, O'Neill N, Schweitzer-Stenner R. Repeating Aspartic Acid Residues Prefer Turn-like Conformations in the Unfolded State: Implications for Early Protein Folding. The Journal of Physical Chemistry. B. PMID 34619031 DOI: 10.1021/acs.jpcb.1c06472   
2021 Catalano C, Al Mughram MH, Guo Y, Kellogg GE. 3D interaction homology: Hydropathic interaction environments of serine and cysteine are strikingly different and their roles adapt in membrane proteins. Current Research in Structural Biology. 3: 239-256. PMID 34693344 DOI: 10.1016/j.crstbi.2021.09.002   
2021 Kumar A, Kumar P, Saumya KU, Giri R. Investigating the conformational dynamics of SARS-CoV-2 NSP6 protein with emphasis on non-transmembrane 91-112 & 231-290 regions. Microbial Pathogenesis. 161: 105236. PMID 34648928 DOI: 10.1016/j.micpath.2021.105236   
2021 Wong SWK, Liu Z. Conformational variability of loops in the SARS-CoV-2 spike protein. Proteins. PMID 34661307 DOI: 10.1002/prot.26266   
2021 Parker JB, Tenorio CA, Blaber M. The ubiquitous buried water in the beta-trefoil architecture contributes to the folding nucleus and ~20% of the folding enthalpy. Protein Science : a Publication of the Protein Society. PMID 34562298 DOI: 10.1002/pro.4192   
2021 Collu G, Bierig T, Krebs AS, Engilberge S, Varma N, Guixà-González R, Sharpe T, Deupi X, Olieric V, Poghosyan E, Benoit RM. Chimeric single α-helical domains as rigid fusion protein connections for protein nanotechnology and structural biology. Structure (London, England : 1993). PMID 34587504 DOI: 10.1016/j.str.2021.09.002   
2021 Hassan M, Coutsias EA. Kinematic Reconstruction of Cyclic Peptides and Protein Backbones from Partial Data. Journal of Chemical Information and Modeling. PMID 34570494 DOI: 10.1021/acs.jcim.1c00453   
2021 Xu YC, ShangGuan TJ, Ding XM, Cheung NJ. Accurate prediction of protein torsion angles using evolutionary signatures and recurrent neural network. Scientific Reports. 11: 21033. PMID 34702851 DOI: 10.1038/s41598-021-00477-2   
2021 Nijhawan AK, Chan AM, Hsu DJ, Chen LX, Kohlstedt KL. Resolving Dynamics in the Ensemble: Finding Paths through Intermediate States and Disordered Protein Structures. The Journal of Physical Chemistry. B. PMID 34748336 DOI: 10.1021/acs.jpcb.1c05820   
2021 James JK, Nanda V. A Folding Insulator Defines Cryptic Domains in Tropomyosin. Journal of Molecular Biology. 433: 167281. PMID 34606830 DOI: 10.1016/j.jmb.2021.167281   
2021 Pal S, Banerjee S, Prabhakaran EN. α-Helices Propagating from Stable Nucleators Exhibit Unconventional Thermal Folding. Febs Letters. PMID 34716991 DOI: 10.1002/1873-3468.14216   
2021 Morand J, Nunes A, Faísca PFN. The folding space of protein2-microglobulin is modulated by a single disulfide bridge. Physical Biology. 18. PMID 34098544 DOI: 10.1088/1478-3975/ac08ec   
2021 Contessoto VG, Ferreira PHB, Chahine J, Leite VBP, Oliveira RJ. Small Neutral Crowding Solute Effects on Protein Folding Thermodynamic Stability and Kinetics. The Journal of Physical Chemistry. B. PMID 34644091 DOI: 10.1021/acs.jpcb.1c07663   
2021 Dubois C, Planelles-Herrero VJ, Tillatte-Tripodi C, Delbecq S, Mammri L, Sirkia EM, Ropars V, Roumestand C, Barthe P. Pressure and Chemical Unfolding of an α-Helical Bundle Protein: The GH2 Domain of the Protein Adaptor GIPC1. International Journal of Molecular Sciences. 22. PMID 33808390 DOI: 10.3390/ijms22073597   
2021 Agarwal N, Jaiswal N, Gulati K, Gangele K, Nagar N, Kumar D, Poluri KM. Molecular Insights into Conformational Heterogeneity and Enhanced Structural Integrity of DNA Binding Protein Hup at Low pH. Biochemistry. PMID 34665609 DOI: 10.1021/acs.biochem.1c00395   
2021 Perišić O, Wriggers W. Mechanism for the Unfolding of the TOP7 Protein in Steered Molecular Dynamics Simulations as Revealed by Mutual Information Analysis. Frontiers in Molecular Biosciences. 8: 696609. PMID 34660691 DOI: 10.3389/fmolb.2021.696609   
2021 Guo L, Dutton OJ, Kucukdisli M, Davy M, Wagnières O, Butts CP, Myers EL, Aggarwal VK. Conformationally Controlled Linear and Helical Hydrocarbons Bearing Extended Side Chains. Journal of the American Chemical Society. PMID 34590479 DOI: 10.1021/jacs.1c07778   
2021 Modi V, Dunbrack RL. Kincore: a web resource for structural classification of protein kinases and their inhibitors. Nucleic Acids Research. PMID 34643709 DOI: 10.1093/nar/gkab920   
2021 Sheikh AY, Mattei A, Miglani Bhardwaj R, Hong RS, Abraham NS, Schneider-Rauber G, Engstrom KM, Diwan M, Henry RF, Gao Y, Juarez V, Jordan E, DeGoey DA, Hutchins CW. Implications of the Conformationally Flexible, Macrocyclic Structure of the First-Generation, Direct-Acting Anti-Viral Paritaprevir on Its Solid Form Complexity and Chameleonic Behavior. Journal of the American Chemical Society. PMID 34637297 DOI: 10.1021/jacs.1c06837   
2021 Dawson WM, Martin FJO, Rhys GG, Shelley KL, Brady RL, Woolfson DN. Coiled coils 9-to-5: rational design of α-helical barrels with tunable oligomeric states. Chemical Science. 12: 6923-6928. PMID 34745518 DOI: 10.1039/d1sc00460c   
2021 Sanejouand YH. Normal-mode driven exploration of protein domain motions. Journal of Computational Chemistry. 42: 2250-2257. PMID 34599620 DOI: 10.1002/jcc.26755   
2021 Zagotta WN, Sim BS, Nhim AK, Raza MM, Evans EG, Venkatesh Y, Jones CM, Mehl RA, Petersson EJ, Gordon SE. An improved fluorescent noncanonical amino acid for measuring conformational distributions using time-resolved transition metal ion FRET. Elife. 10. PMID 34623258 DOI: 10.7554/eLife.70236   
2021 Raj N, Click T, Yang H, Chu JW. Mechanical couplings of protein backbone and side chains exhibit scale-free network properties and specific hotspots for function. Computational and Structural Biotechnology Journal. 19: 5309-5320. PMID 34765086 DOI: 10.1016/j.csbj.2021.09.004   
2021 Taujale R, Zhou Z, Yeung W, Moremen KW, Li S, Kannan N. Mapping the glycosyltransferase fold landscape using interpretable deep learning. Nature Communications. 12: 5656. PMID 34580305 DOI: 10.1038/s41467-021-25975-9   
2021 Busto-Moner L, Feng CJ, Antoszewski A, Tokmakoff A, Dinner AR. Structural Ensemble of the Insulin Monomer. Biochemistry. PMID 34637307 DOI: 10.1021/acs.biochem.1c00583   
2021 Juanes-Gusano D, Santos M, Reboto V, Alonso M, Rodríguez-Cabello JC. Self-assembling systems comprising intrinsically disordered protein polymers like elastin-like recombinamers. Journal of Peptide Science : An Official Publication of the European Peptide Society. e3362. PMID 34545666 DOI: 10.1002/psc.3362   
2021 Sun L, Fu T, Zhao D, Fan H, Zhong S. Divide-and-link peptide docking: a fragment-based peptide docking protocol. Physical Chemistry Chemical Physics : Pccp. PMID 34596658 DOI: 10.1039/d1cp02098f   
2021 Tabandeh S, Lemus CE, Leon L. Deciphering the Role of π-Interactions in Polyelectrolyte Complexes Using Rationally Designed Peptides. Polymers. 13. PMID 34202468 DOI: 10.3390/polym13132074   
2021 Plessa E, Chu LP, Chan SHS, Thomas OL, Cassaignau AME, Waudby CA, Christodoulou J, Cabrita LD. Nascent chains can form co-translational folding intermediates that promote post-translational folding outcomes in a disease-causing protein. Nature Communications. 12: 6447. PMID 34750347 DOI: 10.1038/s41467-021-26531-1   
2021 Lamichhane TR, Ghimire MP. Evaluation of SARS-CoV-2 main protease and inhibitor interactions using dihedral angle distributions and radial distribution function. Heliyon. 7: e08220. PMID 34693066 DOI: 10.1016/j.heliyon.2021.e08220   
2021 Beuvin F, de Givry S, Schiex T, Verel S, Simoncini D. Iterated local search with partition crossover for computational protein design. Proteins. 89: 1522-1529. PMID 34228826 DOI: 10.1002/prot.26174   
2021 Hussain M, Cummins MC, Endo-Streeter S, Sondek J, Kuhlman B. Designer proteins that competitively inhibit Gα by targeting its effector site. The Journal of Biological Chemistry. 101348. PMID 34715131 DOI: 10.1016/j.jbc.2021.101348   
2021 Skolnick J, Gao M, Zhou H, Singh S. AlphaFold 2: Why It Works and Its Implications for Understanding the Relationships of Protein Sequence, Structure, and Function. Journal of Chemical Information and Modeling. PMID 34586808 DOI: 10.1021/acs.jcim.1c01114   
2021 Soltanikazemi E, Quadir F, Roy RS, Guo Z, Cheng J. Distance-based Reconstruction of Protein Quaternary Structures from Inter-Chain Contacts. Proteins. PMID 34716620 DOI: 10.1002/prot.26269   
2021 Grahame DAS, Dupuis JH, Bryksa BC, Tanaka T, Yada RY. Improving the alkaline stability of pepsin through rational protein design using renin, an alkaline-stable aspartic protease, as a structural and functional reference. Enzyme and Microbial Technology. 150: 109871. PMID 34489030 DOI: 10.1016/j.enzmictec.2021.109871   
2021 Robertson AJ, Courtney JM, Shen Y, Ying J, Bax A. Concordance of X-ray and AlphaFold2 Models of SARS-CoV-2 Main Protease with Residual Dipolar Couplings Measured in Solution. Journal of the American Chemical Society. PMID 34757725 DOI: 10.1021/jacs.1c10588   
2021 Vankayala SL, Warrensford LC, Pittman AR, Pollard BC, Kearns FL, Larkin JD, Woodcock HL. CIFDock: A novel CHARMM-based flexible receptor-flexible ligand docking protocol. Journal of Computational Chemistry. PMID 34741467 DOI: 10.1002/jcc.26759   
2021 Sun Z, Zheng S, Zhao H, Niu Z, Lu Y, Pan Y, Yang Y. To improve the predictions of binding residues with DNA, RNA, carbohydrate, and peptide via multi-task deep neural networks. Ieee/Acm Transactions On Computational Biology and Bioinformatics. PMID 34637380 DOI: 10.1109/TCBB.2021.3118916   
2021 Bradford SYC, El Khoury L, Ge Y, Osato M, Mobley DL, Fischer M. Temperature artifacts in protein structures bias ligand-binding predictions. Chemical Science. 12: 11275-11293. PMID 34667539 DOI: 10.1039/d1sc02751d   
2021 Yan X, Weng P, Shi D, Jiang YB. Supramolecular helices from helical building blocks head-to-tail intermolecular interactions. Chemical Communications (Cambridge, England). 57: 12562-12574. PMID 34781336 DOI: 10.1039/d1cc04991g   
2021 Du Z, Su H, Wang W, Ye L, Wei H, Peng Z, Anishchenko I, Baker D, Yang J. The trRosetta server for fast and accurate protein structure prediction. Nature Protocols. PMID 34759384 DOI: 10.1038/s41596-021-00628-9   
2021 Stoppelman JP, Ng TT, Nerenberg PS, Wang LP. Development and Validation of AMBER-FB15-Compatible Force Field Parameters for Phosphorylated Amino Acids. The Journal of Physical Chemistry. B. PMID 34668708 DOI: 10.1021/acs.jpcb.1c07547   
2021 Takashima H, Yoshimori A, Honda E, Taguri T, Ozawa J, Kasai M, Shuto S, Takehara D. Visualized and Quantitative Conformational Analysis of Peptidomimetics. Acs Omega. 6: 26601-26612. PMID 34661014 DOI: 10.1021/acsomega.1c03967   
2021 Anchal, Kaushik V, Goel M. Distribution of Peptidyl-Prolyl Isomerase (PPIase) in the Archaea. Frontiers in Microbiology. 12: 751049. PMID 34691003 DOI: 10.3389/fmicb.2021.751049   
2021 Konovalov KA, Unarta IC, Cao S, Goonetilleke EC, Huang X. Markov State Models to Study the Functional Dynamics of Proteins in the Wake of Machine Learning. Jacs Au. 1: 1330-1341. PMID 34604842 DOI: 10.1021/jacsau.1c00254   
2021 P R, Ramireddy S, Chakraborty S, Mukherjee S, J S, C S. Structural localization of pathogenic mutations in the central nucleotide-binding domain (NBD) of nucleotide-binding oligomerization domain-2 (NOD2) protein and their inference in inflammatory disorders. Nucleosides, Nucleotides & Nucleic Acids. 1-22. PMID 34622739 DOI: 10.1080/15257770.2021.1986719   
2021 Jia Z, Liu C, Chen Y, Jiang H, Wang Z, Yao J, Yang J, Zhu J, Zhang B, Yuchi Z. Crystal structures of the SARS-CoV-2 nucleocapsid protein C-terminal domain and development of nucleocapsid-targeting nanobodies. The Febs Journal. PMID 34665939 DOI: 10.1111/febs.16239   
2021 Zhang W, Liu M, Dupont RL, Huang K, Yu L, Liu S, Wang X, Wang C. Conservation and Identity Selection of Cationic Residues Flanking the Hydrophobic Regions in Intermediate Filament Superfamily. Frontiers in Chemistry. 9: 752630. PMID 34540811 DOI: 10.3389/fchem.2021.752630   
2021 Yang J, Zhang P, Cheng WX, Lu Y, Gang W, Ren G. Exposing structural variations in SARS-CoV-2 evolution. Scientific Reports. 11: 22042. PMID 34764391 DOI: 10.1038/s41598-021-01650-3   
2021 Arakawa T, Tokunaga M, Kita Y, Niikura T, Baker RW, Reimer JM, Leschziner AE. Structure Analysis of Proteins and Peptides by Difference Circular Dichroism Spectroscopy. The Protein Journal. PMID 34709521 DOI: 10.1007/s10930-021-10024-7