Our Publications

M54 selectively stabilizes the circadian clock component of CRY1 and enhances the period of circadian rhythm at cellular level

Gul Z. M., Aydogan S., Surme S., Efendi S. N. H.,Ozcan O., Uyanik E., Baris I., Gul S., Kavakli I. H.

Journal of Biological Chemistry, 2025

Identification of potential SARS-CoV-2 inhibitors among well-tolerated drugs using drug repurposing and in vitro approaches

Orucoglu B., Cetin I., Simsek H., Topcul M., Caliskan M., Aydin C., Kavakli I. H., Okyar A., Gul S.

Scientific Reports, vol.15, 2025

The impact of circadian rhythm disruption on oxaliplatin tolerability and pharmacokinetics in Cry1−/−Cry2−/− mice under constant darkness

Akyel Y. K., Seyhan N. O., Gul S., Celik M., Taskin A. C., Selby C. P., Sancar A., Kavakli I. H., Okyar A.
Archives of Toxicology, 2025

Discovering Lassa virus nucleoprotein inhibitors via in silico drug repositioning approach

Simsek H., Gul S.

Journal of Biomolecular Structure and Dynamics, 2024

Boric acid supplementation promotes the development of in vitro-produced mouse embryos by related pluripotent and antioxidant genes

Taskin A. C., Kocabay A., Gul S., Sahin G. N., Karahuseyinoglu S., Kavakli I. H., et al.
Zygote, 2024

A novel smart disinfection system using 3D-printed and electrically conductive composite hydrogel

Khan S. A., Malik A. N., Velioglu B., Gul S., Kavakli I. H., Lazoglu I.
Emergent Materials, 2024

Dynamic regulation of the serine loop by distant mutations reveals allostery in cryptochrome1

Ozcan O., Gul S., Kavakli I. H.

Journal of Biomolecular Structure and Dynamics, vol.42, no.19, pp.10417-10428, 2024

TW68, cryptochromes stabilizer, regulates fasting blood glucose levels in diabetic ob/ob and high fat-diet-induced obese mice

Surme S., Ergun C., Gul S., Akyel Y. K., Gul Z. M., Ozcan O., et al.

Biochemical Pharmacology, vol.218, 2023

Functional characterization of the CRY2 circadian clock component variant p.Ser420Phe revealed a new degradation pathway for CRY2

Parlak G. C., Baris I., Gul S., Kavakli I. H.

The Journal of biological chemistry, vol.299, no.12, pp.105451, 2023

Synthesis of Novel Hybrid Lonidamine-Coumarin Derivatives and Their Anticancer Activities

Ipek O. S., Sucu B. O., Gul S., Yolacan C., Guzel M.

Journal of Molecular Structure, vol.1281, 2023

Diurnal Changes in Capecitabine Clock-Controlled Metabolism Enzymes Are Responsible for Its Pharmacokinetics in Male Mice

Akyel Y. K., Öztürk Civelek D., Ozturk Seyhan N., Gul S., Gazioglu I., Pala Kara Z., et al.
Journal of biological rhythms, vol.38, no.2, pp.171-184, 2023

Discovery of a small molecule that selectively destabilizes Cryptochrome 1 and enhances life span in p53 knockout mice

Gul S., Akyel Y. K., Gul Z. M., Isin S., Ozcan O., Korkmaz T., et al.
Nature Communications, vol.13, no.1, 2022

Analysis of ACE2 and TMPRSS2 coding variants as a risk factor for SARS-CoV-2 from 946 whole-exome sequencing data in the Turkish population

Duman N., Tuncel G., Bisgin A., Tug Bozdogan S., Ozemri Sag S., Gul S., et al.
Journal of Medical Virology, vol.94, no.11, pp.5225-5243, 2022

The secondary pocket of cryptochrome 2 is important for the regulation of its stability and localization

Parlak G. C., Camur B. B., Gul S., Ozcan O., Baris I., Kavakli I. H.
Journal of Biological Chemistry, vol.298, no.9, 2022

The Structure-Based Molecular-Docking Screen Against Core Clock Proteins to Identify Small Molecules to Modulate the Circadian Clock

Gul S., Kavakli I. H.
Methods in molecular biology (Clifton, N.J.), vol.2482, pp.15-34, 2022

Proteome analysis of the circadian clock protein PERIOD2

Gul H., Selvi S., Yilmaz F., Ozcelik G., Olfaz-Aslan S., Yazan S., et al.
Proteins: Structure, Function and Bioinformatics , vol.90, no.6, pp.1315-1330, 2022

In Silico Analysis of a de Novo OTC Variant as a Cause of Ornithine Transcarbamylase Deficiency

Ozdemir Y., Cag M., Gul S., Yüksel Z., Ergoren M. C.
Applied Immunohistochemistry and Molecular Morphology, vol.30, no.2, pp.153-156, 2022

Structure-based design and classifications of small molecules regulating the circadian rhythm period

Gul S., Rahim F., Isin S., Yilmaz F., Ozturk N., Turkay M., et al.
Scientific Reports, vol.11, no.1, 2021

Identification of a Novel de Novo COMP Gene Variant as a Likely Cause of Pseudoachondroplasia

Tuncel G., Akcan N., Gul S., Sag S. O., Bundak R., Mocan G., et al.
Applied Immunohistochemistry and Molecular Morphology, vol.29, no.7, pp.546-550, 2021

In silico drug repositioning against human nrp1 to block sars-cov-2 host entry

Gul S.
Turkish Journal of Biology, vol.45, no.Special Issue 1, pp.442-458, 2021

Transcriptome analysis of the circadian clock gene BMAL1 deletion with opposite carcinogenic effects

Emisoglu-Kulahli H., Gul S., Morgil Gercek H., Ozcan O., Aygenli F., Selvi S., et al.
Functional and Integrative Genomics , vol.21, no.1, pp.1-16, 2021

In silico identification of widely used and well-tolerated drugs as potential SARS-CoV-2 3C-like protease and viral RNA-dependent RNA polymerase inhibitors for direct use in clinical trials

Gul S., Ozcan O., Asar S., Okyar A., Barıs I., Kavakli I. H.
Journal of Biomolecular Structure and Dynamics , vol.39, no.17, pp.6772-6791, 2021

The Arg-293 of Cryptochrome1 is responsible for the allosteric regulation of CLOCK-CRY1 binding in circadian rhythm

Gul S., Aydin C., Ozcan O., Gurkan B., Surme S., Baris I., et al.
Journal of Biological Chemistry , vol.295, no.50, pp.17187-17199, 2020

Unique combination and in silico modeling of biallelic POLR3A variants as a cause of Wiedemann–Rautenstrauch syndrome

Temel S. G., Ergoren M. C., Manara E., Paolacci S., Tuncel G., Gul S., et al.
European Journal of Human Genetics , vol.28, no.12, pp.1675-1680, 2020

Human CRY1 variants associate with attention deficit/hyperactivity disorder

Emre Onat O. E., Ece Kars M., Gul S., Bilguvar K., Wu Y., Ozhan A., et al.
The Journal of clinical investigation , vol.130, no.7, pp.3885-3900, 2020

A CLOCK-binding small molecule disrupts the interaction between CLOCK and BMAL1 and enhances circadian rhythm amplitude

Doruk Y. U., Yarparvar D., Akyel Y. K., Gul S., Taskin A. C., Yilmaz F., et al.
Journal of Biological Chemistry , vol.295, no.11, pp.3518-3531, 2020

Identification and Characterization of a New Class of (6-4) Photolyase from Vibrio cholerae

Dikbas U. M., Tardu M., Canturk A., Gul S., Ozcelik G., Baris I., et al.
Biochemistry , vol.58, no.43, pp.4352-4360, 2019

Centriolar satellites are required for efficient ciliogenesis and ciliary content regulation

Odabasi E., Gul S., Kavakli I. H., Firat-Karalar E. N.
EMBO Reports , vol.20, no.6, 2019

DNA repair by photolyases

Kavakli I. H., Ozturk N., Gul S.
Advances in protein chemistry and structural biology , vol.115, pp.1-19, 2019

The Photolyase/Cryptochrome Family of Proteins as DNA Repair Enzymes and Transcriptional Repressors

Kavakli I. H., Baris I., Tardu M., Gul S., Oner H., Cal S., et al.
Photochemistry and Photobiology , vol.93, no.1, pp.93-103, 2017

Glu-370 in the large subunit influences the substrate binding, allosteric, and heat stability properties of potato ADP-glucose pyrophosphorylase

Seferoglu A. B., Gul S., Dikbas U. M., Baris I., Koper K., Caliskan M., et al.
Plant Science , vol.252, pp.125-132, 2016

Conformational sampling of peptides in the presence of protein crowders from AA/CG-multiscale simulations

Predeus A. V., Gul S., Gopal S. M., Feig M.
Journal of Physical Chemistry B , vol.116, no.29, pp.8610-8620, 2012

Computational study of factors controlling the boat and chair transition states of ireland-claisen rearrangements

Gul S., Schoenebeck F., Aviyente V., Houk K.
Journal of Organic Chemistry, vol.75, no.6, pp.2115-2118, 2010