Creator/Author/Editor: Atılgan, Ali Rana

2012

Negi, Sunita and Atılgan, Ali Rana and Atılgan, Canan (2012) Driving calmodulin protein towards conformational shift by changing ionization states of selected residues. In: IUPAP Conference on Computational Physics (CCP 2011), Gatlinburg, Tennessee

Atılgan, Canan and İnanç, İbrahim and Atılgan, Ali Rana (2012) On modifying properties of polymeric melts by nanoscopic particles. Journal of Polymer Science Part B: Polymer Physics, 50 (23). pp. 1653-1662. ISSN 0887-6266 (Print) 1099-0488 (Online)

Atılgan, Ali Rana and Atılgan, Canan (2012) Local motifs in proteins combine to generate global functional moves. Briefings in Functional Genomics, 11 (6). pp. 479-488. ISSN 2041-2649 (Print) 2041-2657 (Online)

Negi, Sunita and Aykut, Ayşe Özlem and Atılgan, Ali Rana and Atılgan, Canan (2012) Calmodulin readily switches conformation upon protonating high pK(a) acidic residues. Journal of Physical Chemistry B, 116 (24). pp. 7145-7153. ISSN 1520-6106

Atılgan, Canan and Okan, Osman Burak and Atılgan, Ali Rana (2012) Network-based models as tools hinting at nonevident protein functionality. Annual Review of Biophysics, 41 . pp. 205-225. ISSN 1936-122X (Print) 1936-1238 (Online)

Atılgan, Canan and İnanç, İbrahim and Atılgan, Ali Rana (2012) Effect of van der Waals interaction strength and nanocluster size on the dynamical and mechanical properties of 1,4-cis-polybutadiene melts. In: Materials Research Society Fall Meeting 2011 , Boston

2011

Atılgan, Ali Rana and Aykut, Ayşe Özlem and Atılgan, Canan (2011) Subtle pH differences trigger single residue motions for moderating conformations of calmodulin. Journal of Chemical Physics, 135 (15). ISSN 0021-9606

Özden Yenigün, Elif and Atılgan, Ali Rana and Bilge, Kaan and Menceloğlu, Yusuf Z. and Atılgan, Canan and Papila, Melih (2011) Designed-in molecular interactions lead to superior thermo-mechanical properties in nanocomposites. In: 2010 MRS Fall Meeting, Boston, Massachusetts

Aykut, Ayşe Özlem and Atılgan, Ali Rana and Atılgan, Canan (2011) Molecular recognition mechanisms of calmodulin examined by perturbation-response scanning. In: 2010 MRS Fall Meeting, Boston, Massachusetts

2010

Turgut, Deniz and Atılgan, Ali Rana and Atılgan, Canan (2010) Assortative mixing in close-packed spatial networks. PLoS One, 5 (12). ISSN 1932-6203

Atılgan, Canan and Okan, Osman Burak and Atılgan, Ali Rana (2010) How orientational order governs collectivity of folded proteins. Proteins: Structure, Function, Bioinformatics, 78 (16). pp. 3363-3375. ISSN 1097-0134

Servantie, James and Atılgan, Canan and Atılgan, Ali Rana (2010) Depth dependent dynamics in the hydration shell of a protein. Journal of Chemical Physics, 133 (8). ISSN 0021-9606

Atılgan, Canan and Gerek, Z. N. and Özkan, S. B. and Atılgan, Ali Rana (2010) Manipulation of conformational change in proteins by single-residue perturbations. Biophysical Journal, 99 (3). pp. 933-943. ISSN 0006-3495

Atılgan, Canan and İnanç, İbrahim and Atılgan, Ali Rana (2010) Long-range structural regularities and collectivity of folded proteins. In: 2009 MRS Fall Meeting, Boston, MA

2009

Atılgan, Canan and Atılgan, Ali Rana (2009) Perturbation-response scanning reveals ligand entry-exit mechanisms of ferric binding protein. PLoS Computational Biology, 5 (10). pp. 1-14. ISSN 1553-734X

Okan, Osman Burak and Atılgan, Ali Rana and Atılgan, Canan (2009) Nanosecond motions in proteins impose bounds on the timescale distributions of local dynamics. Biophysical Journal, 97 (7). pp. 2080-2088. ISSN 0006-3495

2008

Atılgan, Canan and İnanç, İbrahim and Atılgan, Ali Rana (2008) Residue Network Construction and Predictions of Elastic Network Models. (Submitted)

Atılgan, Canan and Demirel, Güven and Atılgan, Ali Rana (2008) Collective behavior of El Farol attendees. Advances in Complex Systems, 11 (4). pp. 629-639. ISSN 0219-5259

Atılgan, Canan and Aykut, Ayşe Özlem and Atılgan, Ali Rana (2008) How a vicinal layer of solvent modulates the dynamics of proteins. Biophysical Journal, 94 . pp. 79-89. ISSN 0006-3495

2007

Atılgan, Canan and Demirel, Güven and Atılgan, Ali Rana (2007) Landscape Dynamics of El Farol Attendees. In: The 2007 International Conference of the System Dynamics Society, Boston

Atılgan, Ali Rana and Turgut, Deniz and Atılgan, Canan (2007) Screened nonbonded interactions in native proteins manipulate optimal paths for robust residue communication. Biophysical Journal, 92 (9). 3052-3062 . ISSN 0006-3495

Atılgan, Ali Rana and Turgut, Deniz and Atılgan, Canan (2007) A Few designed-in interactions imposed on chain connectivity are sufficient for robust residue communications. Biophysical Journal , Suppl S (Abstract Issue). 217A-218A. ISSN 0006-3495

Atılgan, Canan and Sezerman, Ayşe Özlem and Baloğlu, Çetin and Sirer, Irmak and Okan, Osman Burak and Atılgan, Ali Rana (2007) Solvent mobility and surface group flexibility at the dynamical transition. Biophysical Journal, Suppl S (Abstract issue). 405A-406A. ISSN 0006-3495

2006

Atılgan, Canan and Atılgan, Ali Rana (2006) Algorithm stickiness and the memory extent delimit the rationality of El Farol attendees. (Submitted)

2005

Okan, Osman Burak and Atılgan, Ali Rana and Baysal, Canan (2005) Distribution of relaxation times on the pico-nano time scales for a functional protein (ABSTRACT). Biophysical Journal, 88 (1). 16A-16A. ISSN 0006-3495

2004

Atılgan, Ali Rana and Atılgan, Canan (2004) Thermodynamics of residue networks in folded proteins. WSEAS Transactions in Biology and Biomedicine, 1 (2). pp. 205-209. ISSN 1109-9518

2001

Baysal, Canan and Atılgan, Ali Rana (2001) Coordination topology and stability for the native and binding conformers of chymotrypsin inhibitor 2. Proteins: Structure, Function, and Bioinformatics, 45 (1). pp. 62-70. ISSN 0887-3585

Baysal, Canan and Atılgan, Ali Rana (2001) Elucidating the structural mechanisms for biological activity of the chemokine family. Proteins: Structure, Function, and Bioinformatics, 43 (2). pp. 150-160. ISSN 0887-3585

1999

Bahar, Ivet and Erman, Burak and Jernigan, Robert L. and Atılgan, Ali Rana and Covell, David G. (1999) Collective motions in HIV-1 reverse transcriptase: examination of flexibility and enzyme function. Journal of Molecular Biology, 285 (3). pp. 1023-1037. ISSN 0022-2836