Canan Atılgan | Mühendislik ve Doğa Bilimleri Fakültesi

DİNLE

Fakülte Üyeleri

Canan Atılgan Öğretim Üyesi

cananatilgan@sabanciunivedu

(216) 483 9523

Kişisel Web

http://people.sabanciuniv.edu/canan

İş Tanımı

Öğretim Üyesi

Eğitim

Boğaziçi Üniversitesi Kimya Mühendisliği Lisans (1991), Yüksek Lisans (1993), ve Doktorası (1996)

Araştırma Alanları

Polimer ve protein dinamiği; karmaşık moleküler sistemlerin teorik ve hesapsal yöntemlerle incelenmesi; konformasyonel katlılık

Üyelikler

• Bilim Akademisi (2012 – ) • American Chemical Society (2000 – ) • Biophysical Society (2001 – ) • Türk Biyofizik Derneği (2020 – ) • Protein Society (2001 – 2008) • International Society for Computational Biology (2004 – 2008) • System Dynamics Society (2007) • Complex Systems Society (2007 – 2008)

Yayınlar

Abdizadeh, Haleh and Jalalypour, Farzaneh and Atılgan, Ali Rana and Atılgan, Canan (2020) "A coarse-grained methodology identifies intrinsic mechanisms that dissociate interacting protein pairs", Frontiers in Molecular Biosciences, Vol.7 (SCI)

Seviniş Özbulut, Emine Billur and Seven, Merve Senem and Bilge, Kaan and Akkaş, Tuğçe and Taş, Cüneyt Erdinç and Yıldız, Burçin and Atılgan, Canan and Menceloğlu, Yusuf Z. and Ünal, Serkan (2020) "Blends of highly branched and linear poly(arylene ether sulfone)s: multiscale effect of the degree of branching on the morphology and mechanical properties", Polymer, Vol.188 (SCI)

Tamer, Yusuf Talha and Gazsek, Ilona K. and Abdizadeh, Haleh and Batur, Tuğçe and Reynolds, Kimberly and Atılgan, Ali Rana and Atılgan, Canan and Toprak, Erdal (2019) "High-order epistasis in catalytic power of dihydrofolate reductase gives rise to a rugged fitness landscape in the presence of trimethoprim selection", Molecular Biology and Evolution, Vol.36, No.7, 1533-1550 (SCI)

Seven, Merve Senem and Oğuz, Oğuzhan and Menceloğlu, Yusuf Z. and Atılgan, Canan (2019) "Tuning interaction parameters of thermoplastic polyurethanes in a binary solvent to achieve precise control over microphase separation", Journal of Chemical Information and Modeling (SI), Vol.59, No.5, 1946-1956 (SCI)

Bülbül, Gonca and Liu, Gökşin and Vithalapur, Namrata Rao and Atılgan, Canan and Sayers, Zehra and Pourmand, Nader (2019) "Employment of iron-binding protein from Haemophilus influenzae in functional nanopipettes for iron monitoring", ACS Chemical Neuroscience (SI), Vol.10, No.4, 1970-1977 (SCI)

Penkler, David L. and Atılgan, Canan and Taştan Bishop, Özlem (2018) "Allosteric modulation of human Hsp90 alpha conformational dynamics", Journal of Chemical Information and Modeling, Vol.58, No.2, 383-404 (SCI)

Ross, Caroline Jane and Atılgan, Ali Rana and Taştan Bishop, Özlem and Atılgan, Canan (2018) "Unraveling the motions behind Enterovirus 71 uncoating", Biophysical Journal, Vol.114, No.4, 822-838 (SCI)

Abdizadeh, Haleh and Atılgan, Ali Rana and Atılgan, Canan and Dedeoğlu, Burcu (2017) "Computational approaches for deciphering the equilibrium and kinetic properties of iron transport proteins", Metallomics, Vol.9, No.11, 1513-1533 (SCI)

Avaz, Merve Senem and Oğuz, Oğuzhan and Kurt, Hasan and Menceloğlu, Yusuf Z. and Atılgan, Canan (2017) "Soft segment length controls morphology of poly(ethylene oxide) based segmented poly(urethane-urea) copolymers in a binary solvent", Computational Materials Science, Vol.138, 58-69 (SCI)

Brown, David K. and Penkler, David L. and Amamuddy, Olivier Sheik and Ross, Caroline and Atılgan, Ali Rana and Atılgan, Canan and Bishop, Özlem Taştan (2017) "MD-TASK: a software suite for analyzing molecular dynamics trajectories", Bioinformatics, Vol.33, No.17, 2768-2771 (SCI)

Penkler, David and Şensoy, Özge and Atılgan, Canan and Tastan Bishop, Özlem (2017) "Perturbation-response scanning reveals key residues for allosteric control in Hsp70", Journal of Chemical Information and Modeling, Vol.57, No.6, 1359-1374 (SCI)

Abdizadeh, Haleh and Atılgan, Ali Rana and Atılgan, Canan (2017) "Mechanisms by which salt concentration moderates the dynamics of human serum transferrin", Journal of Physical Chemistry B, Vol.121, No.18, 4778-4789 (SCI)

Abdizadeh, Haleh and Tamer, Yusuf Talha and Acar, Ömer and Toprak, Erdal and Atılgan, Ali Rana and Atılgan, Canan (2017) "Increased substrate affinity in the escherichia coli L28R dihydrofolate reductase mutant causes trimethoprim resistance", Physical Chemistry Chemical Physics, Vol.19, No.18, 11416-11428 (SCI)

Furuncuoğlu Özaltın, Tuğba and Aviyente, Viktorya and Atılgan, Canan and Demirel, Levent (2017) "Multiscale modeling of poly(2-isopropyl-2-oxazoline) chains in aqueous solution", European Polymer Journal, Vol.88, 594-604 (SCI)

Özden-Yenigün, Elif and Atılgan, Canan and Elliott, James A. (2017) "Multi-scale modelling of carbon nanotube reinforced crosslinked interfaces", Computational Materials Science, Vol.129, 279-289 (SCI)

Şensoy, Özge and Atılgan, Ali Rana and Atılgan, Canan (2017) "FbpA iron storage and release are governed by periplasmic microenvironments", Physical Chemistry Chemical Physics, Vol.19, No.8, 6064-6075 (SCI)

Abdizadeh, Haleh and Atılgan, Canan (2016) "Predicting long term cooperativity and specific modulators of receptor interactions in human transferrin from dynamics within a single microstate", Physical Chemistry Chemical Physics, Vol.18, No.11, 7916-7926 (SCI)

Abdizadeh, Haleh and Güven, Gökçe and Atılgan, Ali Rana and Atılgan, Canan (2015) "Perturbation response scanning specifies key regions in subtilisin serine protease for both function and stability", Journal of Enzyme Inhibition and Medicinal Chemistry, Vol.30, No.6, 867-873 (SCI)

Özbaykal, Gizem and Atılgan, Ali Rana and Atılgan, Canan (2015) "In silico mutational studies of Hsp70 disclose sites with distinct functional attributes", Proteins: Structure, Function and Bioinformatics, Vol.83, No.11, 2077-2090 (SCI)

Abdizadeh, Haleh and Atılgan, Ali Rana and Atılgan, Canan (2015) "Detailed molecular dynamics simulations of human transferrin provide insights into iron release dynamics at serum and endosomal pH", Journal of Biological Inorganic Chemistry, Vol.20, No.4, 705-718 (SCI)

Güven, Gökçe and Atılgan, Ali Rana and Atılgan, Canan (2014) "Protonation states of remote residues affect binding-release dynamics of the ligand but not the conformation of apo ferric binding protein", Journal of Physical Chemistry B, Vol.118, No.40, 11677-11687 (SCI)

Aykut, Ayşe Özlem and Atılgan, Ali Rana and Atılgan, Canan (2013) "Designing molecular dynamics simulations to shift populations of the conformational states of calmodulin", PLoS Computational Biology, Vol.9, No.12 (SCI)

Özden-Yenigün, Elif and Şimşek, Eren and Menceloğlu, Yusuf Z. and Atılgan, Canan (2013) "Molecular basis for solvent dependent morphologies observed on electrosprayed surfaces", Physical Chemistry Chemical Physics, Vol.15, No.41, 17862-17872 (SCI)

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, Vol.50, No.23, 1653-1662 (SCI)

Atılgan, Ali Rana and Atılgan, Canan (2012) "Local motifs in proteins combine to generate global functional moves", Briefings in Functional Genomics (Sl), Vol.11, No.6, 479-488 (SCI)

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, Vol.116, No.24, 7145-7153 (SCI)

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, Vol.41, 205-225 (SCI)

Özaltın, Furuncuoğlu T. and Değirmenci, İsa and Aviyente, Viktorya and Atılgan, Canan and De Sterck, B. and Van Speybroeck, V. and Waroquier, M. (2011) "Controlling the tacticity in the polymerization of n-isopropylacrylamide: a computational study", Polymer, Vol.52, No.24, 5503-5512 (SCI)

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, Vol.135, No.15 (SCI)

Atılgan, Canan and Okan, Osman Burak and Atılgan, Ali Rana (2010) "How orientational order governs collectivity of folded proteins", Proteins: Structure, Function, Bioinformatics, Vol.78, No.16, 3363-3375 (SCI)

Turgut, Deniz and Atılgan, Ali Rana and Atılgan, Canan (2010) "Assortative mixing in close-packed spatial networks", PLoS One, Vol.5, No.12 (SCI)

Meersman, Filip and Atılgan, Canan and Miles, Andrew J. and Bader, Reto and Shang, Weifeng and Matagne, Andre and Wallace, B. A. and Koch, Michel H. J. (2010) "Consistent picture of the reversible thermal unfolding of hen egg-white lysozyme from experiment and molecular dynamics", Biophysical Journal, Vol.99, No.7, 2255-2263 (SCI)

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, Vol.99, No.3, 933-943 (SCI)

Servantie, James and Atılgan, Canan and Atılgan, Ali Rana (2010) "Depth dependent dynamics in the hydration shell of a protein", Journal of Chemical Physics, Vol.133, No.8 (SCI)

Kaçar, Gökhan and Atılgan, Canan and Özen, Alimet Sema (2010) "Mapping and reverse-mapping of the morphologies for a molecular understanding of the self-assembly of fluorinated block copolymers", Journal of Physical Chemistry C, Vol.114, No.1, 370-382 (SCI)

Topal, Kevser Göçmen and Atılgan, Canan and Demir, Ayhan S. and Aviyente, Viktorya (2010) "Understanding the mode of action of ThDP in benzoylformate decarboxylase", Biopolymers, Vol.93, No.1, 32-46 (SCI)

Atılgan, Canan and Atılgan, Ali Rana (2009) "Perturbation-response scanning reveals ligand entry-exit mechanisms of ferric binding protein", PLoS Computational Biology, Vol.5, No.10, 1-14 (SCI)

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, Vol.97, No.7, 2080-2088 (SCI)

Can, Hatice and Kaçar, Gökhan and Atılgan, Canan (2009) "Surfactant formation efficiency of fluorocarbon-hydrocarbon oligomers in supercritical CO2", Journal of Chemical Physics, Vol.131, No.12 (SCI)

Atılgan, Canan and Demirel, Güven and Atılgan, Ali Rana (2008) "Collective behavior of El Farol attendees", Advances in Complex Systems, Vol.11, No.4, 629-639 (SCI)

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

Özen, Alimet Sema and Atılgan, Canan and Sönmez, Gürsel (2007) "Noncovalent intramolecular interactions in the monomers and oligomers of the acceptor and donor type of low band gap conducting polymers", Journal of Physical Chemistry C, Vol.111, No.44, 16362-16371 (SCI)

Atılgan, Canan and Aviyente, Viktorya (2007) "Hybrid usage of computational tools in drug synthesis", Current Computer - Aided Drug Design, Vol.3, No.2, 149-159 (SCI)

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, Vol.92, No.9, 3052-3062 (SCI)

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 , Vol.Suppl S, No.Abstract Issue, 217A-218A (SCI)

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, Vol.Suppl S, No.Abstract issue, 405A-406A (SCI)

Özen, Alimet Sema and Şen, Ünal and Atılgan, Canan (2006) "Complete mapping of the morphologies of some linear and graft fluorinated co-oligomers in an aprotic solvent by dissipative particle dynamics", The Journal of chemical physics, Vol.124, No.6 (SCI)

Bilgin, Nalan and Atılgan, Canan and Menceloğlu, Yusuf Z. (2005) "Synthesis of Fluorinated Segment Containing Oligomers for Supercritical CO2 Applications", Polymer, Vol.43, No.21, 5312-5322 (SCI)

Baloğlu, Çetin and Baysal, Canan and Koch, Michel and Taralp, Alpay (2005) "Influence of Ph on the thermal gelation of food proteins modeled by a variable pD NMR study of lysozyme in D20", Abstracts of Papers of the American Chemical Society, Vol.229, U49-U49 (SCI)

Baloğlu, Çetin and Baysal, Canan and Koch, Michel and Taralp, Alpay (2005) "Protein gelation impeded in the presence of vitamins: a kinetic study using NMR", Abstracts of Papers of the American Chemical Society, Vol.229, U49-U49 (SCI)

Baloğlu, Çetin and Baysal, Canan and Koch, Michel H. J. and Taralp, Alpay (2005) "Food stability examined at the level of protein structure: NMR and molecular dynamics study of an egg-white protein", Abstracts of Papers of the American Chemical Society, Vol.229, U62-U62 (SCI)

Baysal, Canan and Atılgan, Ali Rana (2005) "Relaxation kinetics and the glassiness of native proteins: coupling of timescales ", Biophysical Journal, Vol.88, No.3, 1570-1576 (SCI)

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, Vol.88, No.1, 16A-16A (SCI)

Atılgan, Ali Rana and Atılgan, Canan (2004) "Thermodynamics of residue networks in folded proteins", WSEAS Transactions in Biology and Biomedicine, Vol.1, No.2, 205-209 (NA)

Duran, Dilek and Aviyente, Viktorya and Baysal, Canan (2004) "A computational approach to the synthesis of dirithromycin", Journal of molecular modeling, Vol.10, No.2, 94-101 (SCI)

Yıldız, Burçin and Soydaner, Umut Mehmet Ali and Öztürk, Gözde İpek and Vakos, Helen T. and Baysal, Canan and Taralp, Alpay (2004) "Physico-chemical studies of food proteins facilitated using deuterium-labeled iodomethane and NMR spectroscopic analysis (Abstract)", Abstracts of Papers of the American Chemical Society, Vol.227, U36-U36 (SCI)

Atılgan, Ali Rana and Akan, Pelin and Baysal, Canan (2004) "Small-world communication of residues and significance for protein dynamics", Biophysical Journal, Vol.86, No.Issue: 1 Part: 1, 85-91 (SCI)

Duran, Dilek and Aviyente, Viktorya and Baysal, Canan (2004) "Theoretical study of selective methylation in the synthesis of azithromycin", Journal of computer-aided molecular design, Vol.18, No.1, 1-11 (SCI)

Kırmızıaltın, Serdal and Menceloğlu, Yusuf Z. and Baysal, Canan (2003) "New surfactants design for CO2 applications: molecular dynamics simulations of fluorocarbon-hydrocarbon oligomers", The Journal of chemical physics, Vol.119, No.9, 4953-4961 (SCI)

Kırmızıaltın, Serdal and Baysal, Canan and Erman, Burak (2003) "Conformational properties of the bacterial polyester poly(3-hydroxy-5,8-decadienoate) ", Macromolecules, Vol.36, No.4, 1132-1137 (SCI)

Baysal, Canan and Atılgan, Ali Rana (2002) "Relaxation kinetics and the glassiness of proteins: the case of bovine pancreatic trypsin inhibitor", Biophysical Journal, Vol.83, No.2, 699-705 (SCI)

Doruker, Pemra and Bahar, Ivet and Baysal, Canan and Erman, Burak (2002) "Collective deformations in proteins determined by a mode analysis of molecular dynamics trajectories", Polymer, Vol.43, No.2, 431-439 (SCI)

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, Vol.45, No.1, 62-70 (SCI)

Baysal, Canan and Atılgan, Ali Rana (2001) "Elucidating the structural mechanisms for biological activity of the chemokine family", Proteins: Structure, Function, and Bioinformatics, Vol.43, No.2, 150-160 (SCI)

Baysal, Canan and Erman, Burak and Chu, Benjamin (2001) "Conformational features of poly(1,1-dihydroperfluorooctyl acrylate) and poly(vinyl acetate) diblock oligomers in supercritical carbon dioxide", Journal of Chemical Physics, Vol.114, No.12, 5444-5449 (SCI)

Liu, Gökşin and Atılgan, Canan and Sayers, Zehra, "Structure-function investigation of haemophilus influenzae ferric binding protein under changing environmental conditions", 64th Annual Meeting of the Biophysical-Society, Biophysical Society, February 2020, 335A-335A

Liu, Gökşin and Altun, Ezgi and Ünal, Süleyman Mert and Atılgan, Canan and Sayers, Zehra, "Characterization and iron binding dynamics of haemophilus influenzae ferric binding protein", 63rd Annual Meeting of the Biophysical-Society, Biophysical Society, February 2019, 182A-182A

Liu, Gökşin and Atılgan, Canan and Sayers, Zehra, "Structural characterization of haemophilus influenzae ferric bindind protein in different environmental conditions", XVII International Small Angle Scattering Conference - SAS2018, ANL, October 2018

Abdizadeh, Haleh and Atılgan, Ali Rana and Atılgan, Canan, "Computational modeling of iron binding and release in human serum transferrin", 41st FEBS Congress on Molecular and Systems Biology for a Better Life, Wiley Online Library, September 2016, 73-73

Abdizadeh, Haleh and Acar, Ömer and Güçlü, Tandaç Fürkan and Tamer, Yusuf Talha and Altınuşak, Tuğçe and Toprak, Erdal and Atılgan, Ali Rana and Atılgan, Canan, "Computational assessment of trimethoprim resistance in dihydrofolate reductase", 60th Annual Meeting of the Biophysical Society, Cell Press, February 2016, 47A-48A

Abdizadeh, Haleh and Atılgan, Canan, "Mechanically hot spots correlate with cooperativity and function in human transferrin", 10th European-Biophysical-Societies-Association (EBSA) European Biophysics Congress, Springer, July 2015, S48-S48

Özden Yenigün, Elif and Atılgan, Canan and Elliott, James, "Tuning interface via multi-scale modeling for superior carbon nanotube-polymer nanocomposites/ Yarns", 20th International Conference on Composite Materials (ICCM20), Copenhagen, Denmark: International Committee on Composite Materials, July 2015

Özden Yenigün, Elif and Şimşek, Eren and Menceloğlu, Yusuf Z. and Atılgan, Canan, "Theoretical and experimental investigation of dual-scale roughness via electro-spraying", 246th National Meeting of the American-Chemical-Society (ACS), Washington, DC, USA: American Chemical Society, September 2013

Atılgan, Ali Rana and Aykut, Ayşe Özlem and Atılgan, Canan, "Non-equilibrium fluctuation theorems, redundant paths in proteins, and elucidating conformational changes by single-residue perturbations", 57th Annual Meeting of the Biophysical-Society, Cambridge, MA, USA: Biophysical Society, January 2013, 70A-70A

Atılgan, Canan and Güven, Gökçe and Atılgan, Ali Rana, "Structural basis of how ferric binding proteins utilize pH differences for controlled release of iron", 57th Annual Meeting of the Biophysical-Society, Cambridge, MA, USA: Biophysical Society, January 2013, 212A-212A

Negi, Sunita and Atılgan, Ali Rana and Atılgan, Canan, "Driving calmodulin protein towards conformational shift by changing ionization states of select residues", Stocks, G. M. and Troparevsky, M. C. (eds.), 23rd IUPAP C20 Conference on Computational Physics (CCP 2011), Bristol, England: Institute of Physics, December 2012

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

Özden Yenigün, Elif and Atılgan, Canan and Menceloğlu, Yusuf Z. and Papila, Melih, "Tracing the superior thermo-mechanical properties in nanocomposites of crosslinked fillers at the interface: molecular point of view", 15th European Conference on Composite Materials (ECCM15), Venice, Italy: European Society for Composite Materials 2012

Aykut, Ayşe Özlem and Atılgan, Ali Rana and Atılgan, Canan, "Molecular recognition mechanisms of calmodulin examined by perturbation-response scanning", 2010 MRS Fall Meeting, UK: Cambridge University Press Academic and Professional Books 2011

Özden Yenigün, Elif and Atılgan, Ali Rana and Bilge, Kaan and Menceloğlu, Yusuf Z. and Atılgan, Canan and Papila, Melih, "Designed-in molecular interactions lead to superior thermo-mechanical properties in nanocomposites", 2010 MRS Fall Meeting, UK: Cambridge University Press Academic and Professional Books 2011

Atılgan, Canan and İnanç, İbrahim and Atılgan, Ali Rana, "Long-range structural regularities and collectivity of folded proteins", Levitz, P. and Metzler, R. and Reichman, D. (eds.), 2009 MRS Fall Meeting, Warrendale, PA: MRS (Materials Research Society) 2010

Atılgan, Canan and Demirel, Güven and Atılgan, Ali Rana, "Landscape Dynamics of El Farol Attendees", The 2007 International Conference of the System Dynamics Society, Boston, Massachusetts, USA: System Dynamics Society, October 2007