Publications

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Critical assessment of methods of protein structure prediction (CASP)--round x.
Moult J, Fidelis K, Kryshtafovych A, Schwede T, Tramontano A. 2014. Critical assessment of methods of protein structure prediction (CASP)--round x. Proteins 82 Suppl 2: 1-6. DOI: 10.1002/prot.24452
Structural basis for HIV-1 neutralization by 2F5-like antibodies m66 and m66.6.
Ofek G, Zirkle B, Yang Y, Zhu Z, McKee K, Zhang B, Chuang GY, Georgiev IS, O'Dell S, Doria-Rose N, et al. 2014. Structural basis for HIV-1 neutralization by 2F5-like antibodies m66 and m66.6. Journal of virology 88(5): 2426-41. DOI: 10.1128/JVI.02837-13
Challenging the state of the art in protein structure prediction: Highlights of experimental target structures for the 10th Critical Assessment of Techniques for Protein Structure Prediction Experiment CASP10.
Kryshtafovych A, Moult J, Bales P, Bazan JF, Biasini M, Burgin A, Chen C, Cochran FV, Craig TK, Das R, et al. 2014. Challenging the state of the art in protein structure prediction: Highlights of experimental target structures for the 10th Critical Assessment of Techniques for Protein Structure Prediction Experiment CASP10. Proteins 82 Suppl 2: 26-42. DOI: 10.1002/prot.24489
Structure of human apurinic/apyrimidinic endonuclease 1 with the essential Mg2+ cofactor.
Manvilla BA, Pozharski E, Toth EA, Drohat AC. 2013. Structure of human apurinic/apyrimidinic endonuclease 1 with the essential Mg2+ cofactor. Acta crystallographica. Section D, Biological crystallography 69(Pt 12): 2555-62. DOI: 10.1107/S0907444913027042
Using Small-Angle Scattering Techniques to Understand Mechanical Properties of Biopolymer-Based Biomaterials.
Hyland LL, Taraban MB, Yu YB. 2013. Using Small-Angle Scattering Techniques to Understand Mechanical Properties of Biopolymer-Based Biomaterials. Soft matter 9(43): . DOI: 10.1039/C3SM51209F
Structure of the S100A4/myosin-IIA complex.
Ramagopal UA, Dulyaninova NG, Varney KM, Wilder PT, Nallamsetty S, Brenowitz M, Weber DJ, Almo SC, Bresnick AR. 2013. Structure of the S100A4/myosin-IIA complex. BMC structural biology 13: 31. DOI: 10.1186/1472-6807-13-31
Inclusion of multiple fragment types in the site identification by ligand competitive saturation (SILCS) approach.
Raman EP, Yu W, Lakkaraju SK, MacKerell AD. 2013. Inclusion of multiple fragment types in the site identification by ligand competitive saturation (SILCS) approach. Journal of chemical information and modeling 53(12): 3384-98. DOI: 10.1021/ci4005628
Turning defense into offense: defensin mimetics as novel antibiotics targeting lipid II.
Varney KM, Bonvin AM, Pazgier M, Malin J, Yu W, Ateh E, Oashi T, Lu W, Huang J, Diepeveen-de Buin M, et al. 2013. Turning defense into offense: defensin mimetics as novel antibiotics targeting lipid II. PLoS pathogens 9(11): e1003732. DOI: 10.1371/journal.ppat.1003732
Biological functionalization of drug delivery carriers to bypass size restrictions of receptor-mediated endocytosis independently from receptor targeting.
Ansar M, Serrano D, Papademetriou I, Bhowmick TK, Muro S. 2013. Biological functionalization of drug delivery carriers to bypass size restrictions of receptor-mediated endocytosis independently from receptor targeting. ACS nano 7(12): 10597-611. DOI: 10.1021/nn404719c
Tobacco Mosaic Virus assembled high aspect ratio surfaces.
Brown AD, Culver JN. 2014. Tobacco Mosaic Virus assembled high aspect ratio surfaces. Methods in molecular biology (Clifton, N.J.) 1108: 113-21. DOI: 10.1007/978-1-62703-751-8_9
Systems approaches to unraveling plant metabolism: identifying biosynthetic genes of secondary metabolic pathways.
Spiering MJ, Kaur B, Parsons JF, Eisenstein E. 2014. Systems approaches to unraveling plant metabolism: identifying biosynthetic genes of secondary metabolic pathways. Methods in molecular biology (Clifton, N.J.) 1083: 253-73. DOI: 10.1007/978-1-62703-661-0_15
Coordination of MYH DNA glycosylase and APE1 endonuclease activities via physical interactions.
Luncsford PJ, Manvilla BA, Patterson DN, Malik SS, Jin J, Hwang BJ, Gunther R, Kalvakolanu S, Lipinski LJ, Yuan W, et al. 2013. Coordination of MYH DNA glycosylase and APE1 endonuclease activities via physical interactions. DNA repair 12(12): 1043-52. DOI: 10.1016/j.dnarep.2013.09.007
Models and methods to evaluate transport of drug delivery systems across cellular barriers.
Ghaffarian R, Muro S. 2013. Models and methods to evaluate transport of drug delivery systems across cellular barriers. Journal of visualized experiments : JoVE (80): e50638. DOI: 10.3791/50638
Redox-capacitor to connect electrochemistry to redox-biology.
Kim E, Leverage WT, Liu Y, White IM, Bentley WE, Payne GF. 2014. Redox-capacitor to connect electrochemistry to redox-biology. The Analyst 139(1): 32-43. DOI: 10.1039/c3an01632c
Blind prediction of interfacial water positions in CAPRI.
Lensink MF, Moal IH, Bates PA, Kastritis PL, Melquiond AS, Karaca E, Schmitz C, van Dijk M, Bonvin AM, Eisenstein M, et al. 2014. Blind prediction of interfacial water positions in CAPRI. Proteins 82(4): 620-32. DOI: 10.1002/prot.24439