Postdoctoral Researcher, Biological Chemistry Department Contact
3315 MSRB III
SPC5606, 1150 W. Medical Center Drive
Ann Arbor, MI 48109-0600
Education
- Ph.D, Computational Biophysics, University of South Bohemia and ASCR, Czech republic, Nove Hrady, 2011
- M.Sc., Biophysics, IBB, University of Tehran, Iran, 2007
- B.Sc., Biology, Tarbiat Moallem University, Tehran, Iran, 2004
Research Interests - Regulatory networks play a key role to control the level of expression
of various genes in a given genome. The main players in regulatory networks are
DNA-binding proteins, also called transcription factors as they modulate the
first step in gene expression. The activity of TFs that interact
directly with DNA depend on their potent ability to recognize and bind to
specific DNA sequence. Among
them, the one which provide enough information or has the lowest energy will typically
arise as a consensus binding site sequence. I have recently started working on
the protein-DNA interactions. I try to provide a clear picture of the full
landscape of binding affinities of a given TF for different sequences, or
insight into the structure-function interactions that characterize these
landscapes with more accuracy using atomistic molecular dynamic simulations.
- In the interdisciplinary environment of the Peter' Lab I also started to
work on mapping of genetic regulatory
networks of large nucleotide dataset. In this project I try linking regulatory sites with transcription factors,
identifying a transcription factor, finding the genes bound/regulated by a
particular TF, and finding regulatory interactions between transcription
factors.
- Of course these new fields did not distract me from Kv potassium
channels ;-). I am always fascinated by these amazing membrane proteins, that
how they can distinguish the ions in the solutions or regulate the ion passage
through the membrane.
- Morteza Khabiri* ,
Azadeh Nikouee* , Lukasz Cwiklik , Stephan Grissmer , and Rudiger Ettrich. (2011) Charybdotoxin Unbinding
from the mKv1.3 Potassium Channel: A Combined Computational and
Experimental Study. J.
Phys. Chem. B, 2011, 115,
11490–11500
- M. Khabiri,
M. Roeselova, L. Cwiklik, (2011) Properties of Oxidized Phospholipid Monolayers: an Atomistic Molecular Dynamics
Study. J. Chemical Physics Letters 519–520 (2012) 93–99
- Azadeh Nikouee*, Morteza
Khabiri*, Stephan Grissmer, Rüdiger Ettrich (2012) Charybdotoxin and margatoxin acting on the
human voltage-gated potassium channel hKv1.3 and its H399N mutant: An
experimental and computational comparison. J.
Phys. Chem. B (2012), 116, 5132−5140
- Morteza Khabiri, Babak
Minofar, Jan Březovsky, Jiří Damborský, Rudiger Ettrich (2012) Interaction of organic solvents with protein structures at
protein-solvent interface. J.
Mol. Model. 19: 4701–4711
- Veronika
Štěpánková*, Morteza Khabiri*, Jan
Brezovský, Antonín Pavelka, Babak Minofar, Rudiger Ettrich, Radka
Chaloupková, Jiří Damborský (2013) Expansion of Access Tunnels and Active-Site Cavities Influence
Activity of Haloalkane Dehalogenases in Organic Cosolvents. Chem.Bio.Chem.(in the section: Very Important Paper
(VIP)) Very Important Paper (VIP), 14: 890–897
- Tana Koudelakova,
Radka Chaloupkova, Jan Brezovsky, Zbynek Prokop, Martina Pavlova, Martin Hessler, Morteza Khabiri,
Maryia Plevaka, Daryna Kulik, Ivana Kuta Smatanova, Pavlina Rezacova, Rudiger
Ettrich, Uwe T Bornscheuer, Jiří Damborský (2013) Engineering Enzyme
Stability and Resistance to an Organic Cosolvent by Modification of Residues in the
Access Tunnel. Angewandte Chemie (International Edition) 52: 1959 –1963.
- Vazdar M, Wernersson
E, Khabiri M,
Cwiklik L, Jurkiewicz P, Hof M, Mann E, Kolusheva S, Jelinek R, Jungwirth P. (2013) Aggregation of
Oligoarginines at Phospholipid Membranes: Molecular Dynamics
Simulations, Time-Dependent Fluorescence Shift, and Biomimetic
Colorimetric Assays. J.
Phys. Chem. B, 117 (39), pp 11530–140
- D Sinha, K
Shamayeva, V Ramasubramani, D Reha, V Bialevich, M Khabiri, A Guzanova, M Weiserova, E Csefalvay, J
Carey, R Ettrich (2014) Interdomain communication in the endonuclease/motor
subunit of Type I restriction-modification enzyme EcoR124I. Journal of Molecular
Modeling, Jul;20(7):2334. doi:
10.1007/s00894-014-2334-1
- Nikouee A, Khabiri
M, Cwiklik L. Scorpion toxins prefer salt solutions. J Mol Model. 2015 ;21(11):287
Professional History
2015 to Present Postdoctoral Researcher, Freddolino Lab, Biological Chemistry Department, University of Michigan 2014 to 2015 Postdoctoral Fellow, Dr. Martina Roeselova, Institute of Organic Chemistry and Biochemistry, Academy of sciences of the Czech Republic, Prague
2012 to 2014 Lecturer, Golestan University of Medical Sciences, Gorgan, Iran
2007 to 2011 Graduate Student, University of South Bohemia and Academy of Sciences of the Czech Republic, Nove Hrady
2004 to 2007: Graduate Student, University of Tehran, Iran
Awards and Fellowships
Young Scientist Award at the First International MEFOMP Conference of Medical Physics, Shiraz, Iran, 2011
FEBS Advance Course Fellowship Nove Hrady, Czech Republic, Jun, 2010
International travel grants of the Biophysical Society's 54th Annual Meeting, San Francisco , USA, Feb, 2010
The Novartis International Biotechnology Leadership Camp (BioCamp) award, Basel , Switzerland, Aug, 2009
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