Slowed Diffusion and Excluded Volume Both Contribute to the Effects of Macromolecular Crowding on Alcohol Dehydrogenase Steady-State Kinetics

Biochemistry
Samuel H SchneiderKristin M Slade

Abstract

To understand the consequences of macromolecular crowding, studies have largely employed in vitro experiments with synthetic polymers assumed to be both pure and "inert". These polymers alter enzyme kinetics by excluding volume that would otherwise be available to the enzymes, substrates, and products. Presented here is evidence that other factors, in addition to excluded volume, must be considered in the interpretation of crowding studies with synthetic polymers. Dextran has a weaker effect on the Michaelis-Menten kinetic parameters of yeast alcohol dehydrogenase (YADH) than its small molecule counterpart, glucose. For glucose, the decreased Vmax values directly correlate with slower translational diffusion and the decreased Km values likely result from enhanced substrate binding due to YADH stabilization. Because dextran is unable to stabilize YADH to the same extent as glucose, this polymer's ability to decrease Km is potentially due to the nonideality of the solution, a crowding-induced conformational change, or both. Chronoamperometry reveals that glucose and dextran have surprisingly similar ferricyanide diffusion coefficients. Thus, the reduction in Vmax values for glucose is partially offset by an additional macromolecu...Continue Reading

References

Oct 5, 1989·Biochimica Et Biophysica Acta·A P DemchenkoE A Saburova
Aug 25, 1971·European Journal of Biochemistry·T C Laurent
Dec 7, 1982·Biochemistry·T Arakawa, S N Timasheff
Jan 1, 1993·The Journal of Cell Biology·H P KaoA S Verkman
Aug 1, 1996·International Journal of Biological Macromolecules·T Zhang, H M Zhou
Apr 28, 2001·Biophysical Journal·J T Vivian, P R Callis
Oct 9, 2001·Trends in Biochemical Sciences·R J Ellis
Apr 19, 2003·FEMS Yeast Research·Vladimir LeskovacDraginja Pericin
Oct 22, 2003·Biological Procedures Online·Salvador Uribe, José G. Sampedro
Sep 14, 2004·Journal of Molecular Recognition : JMR·Natalia A ChebotarevaBoris I Kurganov
Mar 29, 2005·Biophysical Journal·Patrizia CioniGiovanni B Strambini
Aug 23, 2005·Biophysical Journal·Daniel S Banks, Cécile Fradin
May 25, 2006·Biochimica Et Biophysica Acta·Barry K Derham, John J Harding
Aug 10, 2006·Chemical Reviews·Zachary D Nagel, Judith P Klinman
Jan 22, 2008·Journal of the American Chemical Society·Kiichiro TotaniYukishige Ito
Jun 25, 2008·Annual Review of Biophysics·James A Dix, A S Verkman
Jun 25, 2008·Annual Review of Biophysics·Huan-Xiang ZhouAllen P Minton
Oct 2, 2009·The Journal of Physical Chemistry. B·Conggang LiGary J Pielak
Nov 26, 2009·Biochimica Et Biophysica Acta·Irina Pozdnyakova, Pernilla Wittung-Stafshede
Feb 20, 2010·Current Opinion in Structural Biology·Adrian H Elcock
Mar 12, 2010·PLoS Computational Biology·Sean R McGuffee, Adrian H Elcock
Jun 22, 2010·Journal of the American Chemical Society·Yaqiang WangGary J Pielak
Jul 10, 2010·PLoS Computational Biology·Hao DongHuan-Xiang Zhou
Jul 29, 2010·Journal of the American Chemical Society·Jiang Hong, Lila M Gierasch
Oct 6, 2010·Proceedings of the National Academy of Sciences of the United States of America·Apratim DharMargaret S Cheung
Nov 17, 2011·International Journal of Biological Macromolecules·Giuseppe Graziano
Jul 5, 2012·PloS One·Tobias Vöpel, George I Makhatadze
Sep 8, 2012·Journal of the American Chemical Society·Yaqiang WangGary J Pielak
Nov 22, 2012·Biochemistry·Laura A BentonGary J Pielak
Jan 23, 2013·FEBS Letters·Yael Phillip, Gideon Schreiber
Jan 2, 2014·International Review of Cell and Molecular Biology·Matthias Weiss
Feb 21, 2014·Biochemistry·Mohona SarkarGary J Pielak
Mar 26, 2014·Pharmaceutics·Hirokazu ShigaHidefumi Yoshii
Aug 27, 2014·Biochemistry·Savarimuthu Baskar RajBryce V Plapp

❮ Previous
Next ❯

Citations

Oct 4, 2017·Protein Science : a Publication of the Protein Society·Luis C AcostaAnnelise H Gorensek-Benitez
Mar 26, 2019·Biochemistry and Molecular Biology Education : a Bimonthly Publication of the International Union of Biochemistry and Molecular Biology·Todd P Silverstein
Mar 13, 2019·Protein Science : a Publication of the Protein Society·Hannah C HuffAditi Das
Jul 15, 2016·Physical Review. E·C Antoine, J Talbot
Nov 2, 2019·Comparative Biochemistry and Physiology. Toxicology & Pharmacology : CBP·Temidayo OgunmoyoleAdeyinka Afolayan
Jan 18, 2021·Drug Discovery Today·Arne Christian Rufer
Mar 6, 2021·Biochemistry and Biophysics Reports·Xander E WilcoxKristin M Slade
Jun 15, 2020·Pharmacology & Therapeutics·Aditi DasHannah C Huff
Jul 24, 2021·Biochimica Et Biophysica Acta. Proteins and Proteomics·Harshita Rastogi, Pramit K Chowdhury
Mar 30, 2018·The Journal of Physical Chemistry. B·Juan M Hernández-Meza, José G Sampedro
Oct 6, 2021·The Journal of Physical Chemistry Letters·Arthur V StraubeFelix Höfling

❮ Previous
Next ❯

Related Concepts

Trending Feeds

COVID-19

Coronaviruses encompass a large family of viruses that cause the common cold as well as more serious diseases, such as the ongoing outbreak of coronavirus disease 2019 (COVID-19; formally known as 2019-nCoV). Coronaviruses can spread from animals to humans; symptoms include fever, cough, shortness of breath, and breathing difficulties; in more severe cases, infection can lead to death. This feed covers recent research on COVID-19.

Blastomycosis

Blastomycosis fungal infections spread through inhaling Blastomyces dermatitidis spores. Discover the latest research on blastomycosis fungal infections here.

Nuclear Pore Complex in ALS/FTD

Alterations in nucleocytoplasmic transport, controlled by the nuclear pore complex, may be involved in the pathomechanism underlying multiple neurodegenerative diseases including Amyotrophic Lateral Sclerosis and Frontotemporal Dementia. Here is the latest research on the nuclear pore complex in ALS and FTD.

Applications of Molecular Barcoding

The concept of molecular barcoding is that each original DNA or RNA molecule is attached to a unique sequence barcode. Sequence reads having different barcodes represent different original molecules, while sequence reads having the same barcode are results of PCR duplication from one original molecule. Discover the latest research on molecular barcoding here.

Chronic Fatigue Syndrome

Chronic fatigue syndrome is a disease characterized by unexplained disabling fatigue; the pathology of which is incompletely understood. Discover the latest research on chronic fatigue syndrome here.

Evolution of Pluripotency

Pluripotency refers to the ability of a cell to develop into three primary germ cell layers of the embryo. This feed focuses on the mechanisms that underlie the evolution of pluripotency. Here is the latest research.

Position Effect Variegation

Position Effect Variagation occurs when a gene is inactivated due to its positioning near heterochromatic regions within a chromosome. Discover the latest research on Position Effect Variagation here.

STING Receptor Agonists

Stimulator of IFN genes (STING) are a group of transmembrane proteins that are involved in the induction of type I interferon that is important in the innate immune response. The stimulation of STING has been an active area of research in the treatment of cancer and infectious diseases. Here is the latest research on STING receptor agonists.

Microbicide

Microbicides are products that can be applied to vaginal or rectal mucosal surfaces with the goal of preventing, or at least significantly reducing, the transmission of sexually transmitted infections. Here is the latest research on microbicides.