"Direct
evaluation of thermal fluctuations in proteins using a single parameter
harmonic potential",
I. Bahar, A. R. Atilgan, and B. Erman, Folding & Design, 2, 173-181,
(1997)
"Gaussian
dynamics of folded proteins",
Haliloglu, T. Bahar, I., and Erman, B., Phys. Rev. Lett., 79, 3090-3093,
(1997)
"Vibrational
Dynamics of Folded Proteins: Significance of Slow and Fast Motions in
Relation to Function and Stability,"
Bahar, I., Atilgan, A. R., Demirel, M. C. and Erman B., Phys. Rev. Lett.,
80 (1998)
"Correlation
between native state hydrogen exchange and cooperative residue
fluctuations from a simple model"
I. Bahar, A. Wallqvist, D. G. Covell, & R.L. Jernigan, Biochemistry 37,
1067-1075, (1998)
"Identification
of Kinetically Hot Residues in Proteins,"
Demirel, M. C., Atilgan, A. R., Jernigan, R. L., Erman, B. and Bahar I.,
submitted to Protein Science, (1998)
"Vibrational
dynamics of transfer RNAs. Comparison of the free and enzyme-bound
forms."
I. Bahar & R. L. Jernigan, J. Mol. Biol. 281, 871-884 (1998)
"Collective
dynamics of HIV-1 reverse transcriptase: Examination of
Flexibility and Enzyme Function"
I. Bahar, B. Erman, R. L. Jernigan, A. R. Atilgan, & D. Covell J. Mol.
Biol. 285, 1023-1037, (1999)
"Cooperative
fluctuations and subunit communication in tryptophan synthase"
I. Bahar & R.L. Jernigan Biochemistry 38, 3478-3490, (1999)
Full
paper (PDF)
"Relating
structure to function through the dominant modes of motion of DNA
topoisomerase II"
R.L. Jernigan, M. C. Demirel & I. Bahar Int.J. Quantum Chem. 75,
301-312, (1999). Full
paper (.pdf)
"Dynamics of
proteins and biomolecular complexes. Inferring functional motions from
structure"
I. Bahar, Reviews in Chemical Engineering, 15, 319-349, (1999).
"Proteins with
similar architecture exhibit similar large-scale dynamic behavior.
Specificity resides in local differences"
O. Keskin, R. L. Jernigan & I. Bahar, Biophysical Journal 78, 2093-2106,
(2000). Full
paper (PDF)
"Characterization of anticancer agents by their growth inhibitory
activity and relationships to mechanism of action and structure"
O. Keskin, I. Bahar, R.L.Jernigan, T.G.Myers, J.A.Beutler, R.H.Shoemaker,
E.A.Sausville, D.G.Covell Anticancer Drug Design 15, 79-98, (2000). Full
paper (.pdf)
"Collective
dynamics of class I MHC/peptide complexes and binding to T cell
receptors"
T. Haliloglu, I. Bahar & R.L. Jernigan Biophys. J. 78, 34A, (2000).
"Dynamics of proteins predicted by molecular dynamics simulations and
analytical approaches: Application to a-amylase inhibitor" P. Doruker,
A. R. Atilgan & I. Bahar, Proteins: Structure, Function & Genetics 40,
512-524, (2000).
Full paper (.pdf)
"Relating the
structure of HIV-1 reverse transcriptase to its processing step"
R.L.Jernigan, I. Bahar, D.G.Covell, A.R.Atilgan, B. Erman & D. Flatow,
J. Biomol. Structure & Dynamics, 1, 49-55, (2000).
"Anisotropy of
fluctuation dynamics of proteins with an elastic network model"
Atilgan, AR, Durrell, SR, Jernigan, RL, Demirel, MC, Keskin, O. & Bahar,
I. Biophys. J. 80, 505-515, (2001).
Full Paper (.pdf)
"Collective
motions of neutral and low pH forms of incluenza virus hemagglutinin"
Isin, B., Bahar, I. & Doruker, P. Biochemistry 40 (29), (2001).
"Large
functional motions of proteins"
O. Keskin, Bahar I, Covell D, Atilgan AR, Durell S, Jernigan RL, Biophys.
J. 80 (661), 2001.
"Dynamics of
large proteins through hierarchical levels of coarse-grained
structures".
Doruker P, Jernigan RL, Bahar I. J Comp Chem 23:119-127,(2002).
Full paper (.pdf)
"Functional
motions of influenza virus hemagglutinin: A structure-based analytical
approach"
Isin B, Doruker P, Bahar I. Biophys J. 82:569-581, (2002).
Full paper (.pdf)
"Molecular
mechanisms of chaperonin GroEL/GroES function"
Keskin O, Bahar I, Flatow D, Covell DG, Jernigan RL. Biochemistry
41:491-501, 2002.
Full paper (.pdf)
"Relating
molecular flexibility to function: A case study of tubulin"
Keskin O, Durell SR, Bahar I, Jernigan RL, Covell, DG. Biophys J. 83,
663-680, (2002). Full
paper (.pdf)
"Inhibitor
binding alters the directions of domain motions in HIV-1 reverse
transcriptase"
Temiz NA, Bahar I, Proteins: Structure, Function and Genetics, 49 (1):
61-70 (2002)
