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2010
Haspel, N, Moll M, Baker ML, Chiu W, Kavraki LE.  2010.  Tracing conformational changes in proteins. BMC Structural Biology. 10:S1.
Abstract      Preprint PDF     Publisher's web site     
2009
Haspel, N, Geisbrecht B, Lambris JD, Kavraki LE.  2009.  Multi-scale Characterization of the Energy Landscape of Proteins with Application to the C3d/Efb-C Complex. Proteins: Structure, function and bioinformatics. 78:1004-1014.
     Publisher's web site     
Haspel, N, Moll M, Baker ML, Chiu W, Kavraki LE.  2009.  Tracing Conformational Changes in Proteins. IEEE Intl. Conf. on Bioinformatics and Biomedicine Workshops (BIBMW).
Abstract      Preprint PDF     Publisher's web site     
2008
Ricklin, D, Ricklin-Lichtsteiner SK, Sfyroera G, Chen H, Tzekou A, Magotti P, Wu Y-Q, Garcia BL, McWorther WJ, Haspel N et al..  2008.  Novel insights into target specificities and molecular mechanisms for two potent complement evasion proteins from Staphylococcus aureus.. XXII International Complement Workshop.
Abstract           Publisher's web site     
Haspel, N, Ricklin D, Geisbrecht B, Lambris JD, Kavraki LE.  2008.  Electrostatic Contributions Drive the Interaction Between Staphylococcus aureus Protein Efb-C and its Complement Target C3d.. Protein Science. 17(11):1894-1906.
Abstract           Publisher's web site     
2007
Haspel, N, Zanuy D, Zheng J, Aleman C, Wolfson HJ, Nussinov R.  2007.  Changing the charge distribution of beta-helical based nanostructures can provide the conditions for charge transfer. Biophysics Journal. 93(1):245-253.
     Publisher's web site     
Haspel, N, Wainreb G, Inbar Y, Tsai HH, Tsai CJ, Wolfson HJ, Nussinov R.  2007.  A hierarchical protein folding scheme based on the building block folding model.. Methods in Molecular Biology. 350:189-204.
Abstract           Publisher's web site     
Zheng, J, Zanuy D, Haspel N, Tsai CJ, Aleman C, Nussinov R.  2007.  Nanostructure design using protein building blocks enhanced by conformationally constrained synthetic residues.. Biochemistry. 46:1205-1218.
Abstract           Publisher's web site     
Tsai, CJ, Zheng J, Zanuy D, Haspel N, Nussinov R.  2007.  Principles of nanostructure design with protein building blocks. Proteins. 68:1-12.
Abstract           Publisher's web site     
Zanuy, D, Rodriguez-Ropero F, Haspel N, Zheng J, Nussinov R, Aleman C.  2007.  Stability of tubular structures based on beta-helical proteins: self-assembled versus polymerized nanoconstructs and wild-type versus mutated sequences.. Biomacromolecules. 8:3135-3146.
2006
Aleman, C, Zanuy D, Jimenez AI, Cativiela C, Haspel N, Zheng J, Casanovas J, Wolfson HJ, Nussinov R.  2006.  Concepts and schemes for the re-engineering of physical protein modules: generating nanodevices via targeted replacements with constrained amino acids. Physical Biology. 3:54-62.
     Publisher's web site     
Haspel, N, Zanuy D, Aleman C, Wolfson HJ, Nussinov R.  2006.  De-novo tubular nanostructure design based on self-assembly of beta-helical protein motifs. Structure. 14:1137-1148.
Abstract           Publisher's web site     
Wainreb, G, Haspel N, Wolfson HJ, Nussinov R.  2006.  A permissive secondary structure-guided superposition tool for clustering of protein fragments toward protein structure prediction via fragment assembly. Bioinformatics. 22:1343-1352.
Abstract           Publisher's web site     
2005
Haspel, N, Zanuy D, Ma B, Wolfson HJ, Nussinov R.  2005.  A comparative study of amyloid fibril formation by residues 15-19 of the human calcitonin hormone: A single beta-sheet model with a small hydrohpobic core. Journal of Molecular Biology. 345:1213-1227.
Abstract           Publisher's web site     
Haspel, N, Zanuy D, Tsai HH, Ma B, Wolfson HJ, Nussinov R, Sipe JD.  2005.  Computational approaches and tools for establishing structural models for short amyloid-forming peptides.. Amyloid Proteins. 1:301-318.
     Publisher's web site     
2004
Zanuy, D, Haspel N, Tsai HH, Ma B, Kannan G, Wolfson HJ, Nussinov R.  2004.  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.
Abstract           Publisher's web site     
Tsai, HH, Zanuy D, Haspel N, Gunasekaran K, Ma B, Tsai CJ, Nussinov R.  2004.  The stability and dynamic of the human Calcitonin amyloid peptide DFNKF. Biophysical Journal. 87:146-158.
Abstract           Publisher's web site     
2003
Haspel, N, Tsai CJ, Wolfson HJ, Nussinov R.  2003.  Hierarchical protein folding pathways: A computational study of protein fragments. Proteins. 51:203-215.
Abstract      Preprint PDF     Publisher's web site     
Haspel, N, Tsai CJ, Wolfson HJ, Nussinov R.  2003.  Reducing the computational complexity of protein folding via fragment folding and assembly. Protein Science. 12:1177-1187.
Abstract           Publisher's web site     
Schneidman-Duhovny, D, Inbar Y, Polak V, Shatsky M, Halperin I, Benyamini H, Barzilai A, Dror O, Haspel N, Nussinov R et al..  2003.  Taking geometry to its edge: Fast unbound rigid (and hinge-bent) docking. Proteins. 52:107-112.
Abstract           Publisher's web site     
2002
Kumar, S, Barzilai A, Haspel N, Sham YY, Tsai CJ, Wolfson HJ, Nussinov R.  2002.  Critical building blocks in proteins: a common theme in folding and function. Recent Research Developments in Protein Folding, Stability and Design..
Preprint PDF
Haspel, N, Tsai CJ, Wolfson HJ, Nussinov R.  2002.  From the building blocks folding model to protein structure prediction. Protein Structure Prediction: Bioinformatics approach. :201-226.
     Publisher's web site