Резюмеи окодемии Абдусаломи Одиназода

 

ACADEMIC RESUME

 

Name

Abdussalam Adina-Zada  

عبدالسلام آدینه‌ زاده

Nationality

Australian

Country of

the origin

Tajikistan
 

Education:

 

PhD: Biophysics (Russia)

MSc: Biophysics (Russia)

BSc: Biology and Chemistry (Russia)

 

Postdoctoral trainings:

 

Purdue University (USA) – 2 years

Stockholm University (Sweden) – 0.5 years

The University of Western Australia – 7 years

 

Courses

  

Introduction to Management

(The University of Western Australia)

DNA Technologies: New Generation Sequencing

(Alliance Global, Dubai, UAE)

 

Languages:

  

English – fluent

Persian (Farsi, Dari, Tajiki) – native

Russian – fluent

Arabic – basic

 

Current address

 Perth city, Western Australia

LinkedIn

 https://www.linkedin.com/in/abdussalam-adina-zada-259ab632

 

Academic Employment:

 

— The University of Western Australia, Perth — Australia:

  • Visitor Scientist, Sept 2016 — present
  • Research Associate, Jan 2006 – Dec 2012.

— Ibn Sina Medical University, Dushanbe — Tajikistan:

  • Teacher in Biochemistry, Oct 2015 – Mar 2016.

— Stockholm University, Stockholm — Sweden:

  • Research Associate, May 2002 to Oct 2002.

— Purdue University, West Lafayette (IN) — USA:

  • Research Associate, Aug 1999 to Nov 2000.

 

Employment in Biotech Industry

 

— Alliance Global DNA Centre, Dubai, UAE:

  • Application Scientist, May 2016 – Jul 2016.

— SibEnzyme Ltd, Novosibirsk — Russia:

  • International Operations Manager, Jan 2005 to Jan 2006
  • Australian representative, Aug 2012 – Sept 2015.

— Medical Biological Union Company, Novosibirsk — Russia:

  • International Operations Manager, Oct 2002 to Dec 2003.

— Biotest Company, Novosibirsk — Russia:

  • Research and Development Manager, Jan 2005 to Jan 2006.

 

PUBLICATIONS*

 

* Two different spellings of the name: Adina-Zada and Adeenah-Zadah.

1: Choosangtong K, Sirithanakorn C, Adina-Zada A , Wallace JC, Jitrapakdee S, Attwood PV. Residues in the acetyl CoA binding site of pyruvate carboxylase involved in allosteric regulation. FEBS Lett. 2015 Jul 22;589(16):2073-9.

2: Sirithanakorn C, Adina-Zada A , Wallace JC, Jitrapakdee S, Attwood PV. Mechanisms of inhibition of Rhizobium etli pyruvate carboxylase by L-aspartate. Biochemistry. 2014 Nov 18;53(45)

3: Adina-Zada A , Jitrapakdee S, Wallace JC, Attwood PV. Coordinating role of His216 in MgATP binding and cleavage in pyruvate carboxylase. Biochemistry. 2014 Feb 18;53(6):1051-8.

4: Panigrahi R, Adina-Zada A, Whelan J, Vrielink A. Ligand recognition by the TPR domain of the import factor Toc64 from Arabidopsis thaliana. PLoS One. 2013 Dec 31;8(12).

5: Adina-Zada A, Sereeruk C, Jitrapakdee S, Zeczycki TN, St Maurice M, Cleland WW, Wallace JC, Attwood PV. The roles of Arg427 and Arg472 in the binding and allosteric effects of acetyl CoA in pyruvate carboxylase. Biochemistry. 2012 Oct 16;51(41):8208-17.

6: Adina-Zada A, Zeczycki TN, Maurice MS, Jitrapakdee S, Cleland WW, Attwood PV. Allosteric regulation of the biotin-dependent enzyme pyruvate carboxylase by acetyl-CoA. Biochemical Society Transactions. 2012. 40(1) 290-3.

7: Adina-Zada A, Zeczycki TN, Attwood PV. Regulation of the structure and activity of pyruvate carboxylase by acetyl CoA. Arch Biochem Biophys.2012 Mar 15;519(2):118-30.

8: Zeczycki TN, Menefee AL, Adina-Zada A, Jitrapakdee S, Surinya KH, Wallace JC, Attwood PV, St Maurice M, Cleland WW. Novel Insights into the Biotin Carboxylase Domain Reactions of Pyruvate Carboxylase from Rhizobium etli. Biochemistry. 2011 Nov 15;50(45):9724-37.

9: Adina-Zada A, Hazra R, Sereeruk C, Jitrapakdee S, Zeczycki TN, Maurice MS, Cleland WW, Wallace JC, Attwood PV. Probing the allosteric activation of pyruvate carboxylase using 2′,3′-O-(2,4,6-trinitrophenyl) adenosine 5′-triphosphate as a fluorescent mimic of the allosteric activator acetyl CoA. Arch Biochem Biophys. 2011 May 15;509(2):117-26.

10: Duangpan S, Jitrapakdee S, Adina-Zada A, Byrne L, Zeczycki TN, St Maurice M, Cleland WW, Wallace JC, Attwood PV. Probing the catalytic roles of Arg548 and Gln552 in the carboxyl transferase domain of the Rhizobium etli pyruvate carboxylase by site-directed mutagenesis. Biochemistry. 2010 Apr 20;49(15):3296-304.

11: Attwood PV, Ludwig K, Bergander K, Besant PG, Adina-Zada A, Krieglstein J, Klumpp S. Chemical phosphorylation of histidine-containing peptides based on the sequence of histone H4 and their dephosphorylation by protein histidine phosphatase. Biochim Biophys Acta. 2010 Jan;1804(1):199-205.

12: Adina-Zada A, Jitrapakdee S, Surinya KH, McIldowie MJ, Piggott MJ, Cleland WW, Wallace JC, Attwood PV. Insights into the mechanism and regulation of pyruvate carboxylase by characterisation of a biotin-deficient mutant of the Bacillus thermodenitrificans enzyme. Int J Biochem Cell Biol. 2008;40(9):1743-52.

13: Jitrapakdee S, Surinya KH, Adina-Zada A, Polyak SW, Stojkoski C, Smyth R, Booker GW, Cleland WW, Attwood PV, Wallace JC. Conserved Glu40 and Glu433 of the biotin carboxylase domain of yeast pyruvate carboxylase I isoenzyme are essential for the association of tetramers. Int J Biochem Cell Biol. 2007;39(11):2120-34.

14: Jitrapakdee S, Adina-Zada A, Besant PG, Surinya KH, Cleland WW, Wallace JC, Attwood PV. Differential regulation of the yeast isozymes of pyruvate carboxylase and the locus of action of acetyl CoA. Int J Biochem Cell Biol. 2007;39(6):1211-23.

15: Knorre DG, Adina-zada A, Fedorova OS. [Cooperative interactions in tandems of oligonucleotides and their derivatives on complementary template]. Mol Biol (Mosk). 1998 Jan-Feb;32(1):141-7. Russian

16: Adeenah-Zadah A, Knorre DG, Fedorova OS. Cooperative interactions of the oligodeoxyribonucleotides on the complementary template. The influence of chemical groups and mismatched nucleotides at the 5′- and 3′-ends of oligonucleotides on the parameters of cooperativity. J Biomol Struct Dyn. 1997 Oct;15(2):369-80.

17: Bichenkova EV, Adina-Zada A, Fedorova OS. [Study of the secondary structure of a single-stranded DNA fragment using self-modification reaction]. Bioorg Khim. 1997 Jan;23(1):21-32. Russian.

18: Knorre D.G., Adina-Zada A., Koval V.V., Fedorova O.S. [Kinetics of Chemical Conversions in Highly Organized Biological Systems. The Chemical Conversions in Systems Based on Watson-Crick interactions within the duplexes] (in Russian). In: «Chemical Physics on the Threshold of the 21 century», 1996. Moscow. Nauka. P. 199-212.

19: Adina-Zada A, Fedorova OS. [Cooperative interactions of oligodeoxyribonucleotides upon binding with DNA by chemical modification]. Bioorg Khim. 1995 Sep;21(9):703-8. Russian.

20: Fedorova OS, Adeenah-Zadah A, Knorre DG. Cooperative interactions in the tandem of oligonucleotide derivatives arranged at complementary target. Quantitative estimates and contribution of the target secondary structure. FEBS Lett. 1995 Aug 7;369(2-3):287-9.

21: Fedorova OS, Adeenah-Zadah A, Bichenkova EV, Knorre DG. Thermodynamic and structural features of cooperative interactions in tandem oligonucleotide derivatives arranged at the complementary template. Chemical modification data. J Biomol Struct Dyn. 1995 Aug;13(1):145-66.

22: Fedovora OS, Odinaev AD (Adina-Zada), Gorn VV, Maksakova GA, Pereboeva OS, Knoppe DG. [Quantitative characteristics of modifying nucleic acids by alkylating oligonucleotide derivatives in the presence of oligonucleotide effectors]. Bioorg Khim. 1994 Aug-Sep;20(8-9):932-43. Russian.

 

CONFERENCE CONTRIBUTIONS

 

  1. Given talk: “Allosteric communications between functional entities of the multifunctional and multisubunit enzyme pyruvate carboxylase”. Adina-Zada A, Kolpashchikov DM, Attwood PV. VIII International Voevodsky Conference, Novosibirsk (Russia). 2012.
  1. Poster: “Allosteric regulation of pyruvate carboxylase by acetyl CoA”. Adina-Zada A, Kolpashchikov D, Jitrapakdee Y, Zeczycki TN, St Maurice M, Cleland WW, Wallace JC and Attwood PV. COMBIO2011 by the Australian Society for Biochemistry and Molecular Biology, Cairns. 2011.
  1. Poster: “The role of His216 in carboxylation of biotin in the Rhizobium etli pyruvate carboxylase” by Adina-Zada A., Jitrapakdee S., Kolpashchikov D.M., Cleland W.W., Wallace J.C., and Attwood P.V. COMBIO2009 by the New Zealand Society for Biochemistry and Molecular Biology, Christchurch, New Zealand, 2009.
  1. Poster: “Characterisation of a biotin-deficient mutant of Bacillus thermodenitrificans pyruvate carboxylase” by Adina-Zada A., Besant P., Jitrapakdee S., Surinya K.H., Cleland W.W., Wallace J.C. and Attwood P.V. COMBIO2007 by Australian Society for Biochemistry and Molecular Biology, Sydney, NSW, Australia, 2007.
  1. Poster: “Probing the structures of Phi29 pRNA by photoaffinity agent bisphen, phenphi, and tetrafluoroarylazide as well as by thermically active nitrogen mustard” by Adinehzadeh A., Chen C., Mohammad T., Morrison H., Dobrikov M., Fedorova O.S., and Guo P. RNA2000 by RNA Society, Madison, WI, USA, 2000.
  1. Poster: “Effects of Different Chemical Groups Covalently Attached to oligodeoxyribo-nucleotide as well as the Presence of the Mismatch at these Junctions on the co-operative Interactions” by Adeenah-Zadah A. and Fedorova O.S. The Tenth Conversation in the Discipline Biomolecular Stereodynamics, The University at Albany, Albany, NY USA,1997.

 

LECTURES/SEMINARS GIVEN

Course seminars in Biochemistry. Ibn Sina University, Tajikistan. Oct 2015 – Mar 2016. Second-year medical students.

 

SUPERVISION OF RESEARCH

MSc and PhD Students

2012: Rashmi Panigarhi’s PhD project: “Interaction of the heat shock proteins Hsp70 and Hsp90 with tetratricopeptide repeat (TPR)”.The School of Chemistry and Biochemistry, the University of Western Australia (co-supervising with Prof. Alice Vrielink).

2010 – 2011: Chutima SEREERUK’s MSc project: “Probing the roles of Arg427 and Arg472 in the binding and allosteric effects of acetyl CoA in pyruvate carboxylase”. School of Biomedical, Biomolecular and Chemical Sciences, the University of Western Australia (co-supervised with Prof. Paul V. Attwood and Prof. Sarayut Jitrapakdee).

2009 — 2010 Rasmani HAZRA’s part of PhD project: “Probing the allosteric activation of pyruvate carboxylase using 2′,3′-O-(2,4,6-trinitrophenyl) adenosine 5′-triphosphate as a fluorescent mimic of the allosteric activator acetyl CoA.” School of Biomedical, Biomolecular and Chemical Sciences, the University of Western Australia (co-supervised with Prof. Paul Attwood).

2008 — 2009   Saowapa DUANGPAN’s MSc project: “Probing the catalytic roles of Arg548 and Gln552 in the carboxyl transferase domain of the Rhizobium etli pyruvate carboxylase by site-directed mutagenesis”. School of Biomedical, Biomolecular and Chemical Sciences, the University of Western Australia (co-supervised with Prof. Paul Attwood and Prof. Sarayut Jitrapakdee).

Other students

2006 – 2012. Two to three third-year undergraduate students every year in Molecular Biology and Enzymology.14 mini-projects were successfully completed.

 

ORGANISATION AND PROMOTION OF RESEARCH

Grant Applications

I actively participated in writing and preparation of two grants shown below during my PhD project.

  1. “Physico-Chemical Aspects of Nucleic Acid Modifications in Complementary Complexes”. Russian Foundation for Fundamental Research, 1995-1997, No 95-04-1198 (Russia).

2.“Physico-Chemical Studies of Processes in Complementary Complexes of Nucleic Acids as Scientific Basis of Directed Actions on Genetic Structures”. Russian Foundation for Fundamental Research. 1996-1999, No 96-15-97824 (Russia).

 

Research Seminars Given

2016: Alliance Global DNA Centre, Dubai, UAE. The Central Dogma of Molecular Biology.

2016: Nazarbayev University (Kazakhstan), Department of Biology. Allosteric regulation of metabolic enzyme Pyruvate Carboxylase.

2016: National Centre for Biotechnology, Kazakhstan. Allosteric regulation of metabolic enzyme Pyruvate Carboxylase.

2015: Ibn Sina University (Tajikistan), Department of Biochemistry. Metabolic enzyme Pyruvate Carboxylase: structure and function.

2011: The University of Western Australia, School of Biomedical, Biomolecular and Chemical Sciences, “Allosteric activation of pyruvate carboxylase by acetyl CoA”.

2012: Institute of Chemical Biology and Fundamental Medicine, Russia, “Allosteric communications between functional entities of the multifunctional and multisubunit enzyme pyruvate carboxylase”.

 

RESEARCH OVERVIEW

 

The areas of research:

Biochemistry and Biophysics.

DNA Technologies.

 

METHODS

Biophysical and biochemical experimental methods:

  • Biochemical assays (absorbance, fluorescence, radioactive). Optimization of conventional and development of new biochemical methods. Mechanistic evaluation of kinetic data. Application of quantitative data analysis and modeling of experimental data.
  • Stopped-Flow: rapid kinetics, binding of ligands to proteins.
  • Quench-Flow: rapid kinetics, catalytic single turnovers.
  • Isothermal Titration Calorimetry: thermodymics of ligand binding, allosteric activation, stoichiometry, general energetics and dynamics of proteins.
  • Analytical Ultracentrifugation: quaternary structure of proteins.
  • Circular Dichroism: secondary structure and stability of proteins.
  • Dynamic Light Scattering: protein particles in the solution.

Molecular biological methods:

  • All range, from plasmid construction and bacterial transfection to protein purification and analysis as well as RNA and plasmid extraction and analysis.

Other methods:

  • Chemical cross-linking and modification of proteins, RNA and DNA molecules.
  • Quantitative physicochemical characterization of processes involving RNA, DNA and proteins: RNA folding, DNA hybridization, formation of DNA-protein, RNA-protein and other essential biological complexes.
  • Oligonucleotide technologies.
  • ELISA and rapid test (lateral flow format) design and engineering.

 

SELECTED RESEARCH PROJECTS:

PhD project:

1992 – 1998. Institute of Chemical Biology and Fundamental Medicine, Russia.

Thesis title: “Quantitative parameters of the single-stranded DNA modification by the (N-2-chloroethyl-N-methyl)-aminobenzyl-phosphamids of oligonucleotides». Grade A.

Description. Oligonicleotide technologies. Making of reactive antisense oligonucleotides. The kinetics and thermodynamics of DNA hybridization. Impact of attached synthetic groups on DNA hybridization. Stacking interactions and cooperativity parameters. 9 original scientific papers were published during the period.

MSc project.

1990 – 1992. Novosibirsk State University, Russia.

Thesis title: “Quantitative parameters of the single-stranded DNA modification by the (N-2-chloroethyl-N-methyl)-aminobenzyl-phosphamids of oligonucleotides»

Description. Oligonicleotide technologies. Development of reactive antisense oligonucleotides. The kinetics and thermodynamics of of DNA hybridization. Effect of intercalating groups and intra-molecular secondary structures on DNA hybridization. Stacking interactions and cooperativity parameters. 9 original scientific papers were published during the period in leading journals of Russia, USA and Europe. PhD thesis was defended.

 

Other projects completed.

  • A special mode of cooperativity of the binding allosteric activator acetyl CoA to pyruvate carboxylase drives enzyme’s half-of-the-sites reactivity. The thermodynamics of the binding was measured by the isothermal titration calorimetry (ITC). Complex isotherms data were analyzed using restrains derived from the stead-state kinetic and X-Ray crystallography data. A paper is being written for a high-profile journal (PNAS is targeted).
  • Interaction of the heat shock proteins Hsp70 and Hsp90 with tetratricopeptide repeat (TPR). Thermodynamics of the binding of the Hsp70 and Hsp90 peptides to TPR was resolved and the quaternary structure of the TPR protein was determined by analytical centrifugation. The project is a part of an ongoing PhD thesis.
  • Synergistic effect of acetyl CoA and Mg2+ ions on the binding of acetyl CoA to pyruvate carboxylase. The kinetics of the binding of nucleotide to the enzyme was examined using fluorescent analogue of ATP, formycin-5’-triphosphate by Stopped-Flow method. A paper is planned to write for the Plos One online journal.
  • The rate of a single turnover of ATP cleavage catalyzed by pyruvate carboxulase. The rate of ATP cleavage by pyruvate carboxylase was measured by Quench-Flow method at different holoenzyme concentrations and from the dependence of the catalytic rate on the enzyme concentration, the rate of a single turnover was determined. Several point-mutated enzymes were examined to identify amino acid residues involved in nucleotide binding and catalysis of the ATP cleavage reaction. The project is in the stage of completion.
  • Several mutagenesis projects were completed and the data were published in 7 papers (listed above). The amino acid residues were mutated in different functional units of the tetrameric holoenzyme pyruvate carbozylase from Rhizobium etli. Mutants were analyzed using analytical centrifugation to examine whether the quaternary structure was affected by the point mutation. The effect of the point mutations to the function of the enzyme was studies by steady-state kinetic analysis. Amino acid residues responsible for the following functions were identifies: 1) binding of allosteric activator acetyl CoA; 2) binding of ATP, catalysis of the reaction of the ATP cleavage; 3) binding of pyruvate and proton exchange between pyruvate and the enzyme; 4) binding of biotin prosthetic group; 5) tetramerization of the enzyme.

 

R&D PROJECT

  • Development of immunochromatographic lateral flow rapid tests for cardiac markers. I was driving force behind the project that was created through idea generation, idea screening, concept development and business analysis. With my active participation as one of two leaders, a new laboratory was set up for these purposes and R&D works were launched.