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Literature DB >> 18573087

Macromolecular crowding and confinement: biochemical, biophysical, and potential physiological consequences.

Huan-Xiang Zhou¹, Germán Rivas, Allen P Minton.

Abstract

Expected and observed effects of volume exclusion on the free energy of rigid and flexible macromolecules in crowded and confined systems, and consequent effects of crowding and confinement on macromolecular reaction rates and equilibria are summarized. Findings from relevant theoretical/simulation and experimental literature published from 2004 onward are reviewed. Additional complexity arising from the heterogeneity of local environments in biological media, and the presence of nonspecific interactions between macromolecules over and above steric repulsion, are discussed. Theoretical and experimental approaches to the characterization of crowding- and confinement-induced effects in systems approaching the complexity of living organisms are suggested.

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Year: 2008 PMID： 18573087 PMCID： PMC2826134 DOI： 10.1146/annurev.biophys.37.032807.125817

Source DB: PubMed Journal: Annu Rev Biophys ISSN： 1936-122X Impact factor: 12.981

91 in total

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Authors: Arezou Ghahghaei; Agata Rekas; William E Price; John A Carver
Journal: Biochim Biophys Acta Date: 2006-10-12

2. Energy landscape and transition state of protein-protein association.

Authors: Ramzi Alsallaq; Huan-Xiang Zhou
Journal: Biophys J Date: 2006-12-01 Impact factor: 4.033

3. Molecular dissection of ø29 scaffolding protein function in an in vitro assembly system.

Authors: Chi-yu Fu; Marc C Morais; Anthony J Battisti; Michael G Rossmann; Peter E Prevelige
Journal: J Mol Biol Date: 2006-12-06 Impact factor: 5.469

4. From the test tube to the cell: exploring the folding and aggregation of a beta-clam protein.

Authors: Zoya Ignatova; Beena Krishnan; Jeffrey P Bombardier; Anna Marie C Marcelino; Jiang Hong; Lila M Gierasch
Journal: Biopolymers Date: 2007 Impact factor: 2.505

5. Effects of macromolecular crowding on the intrinsic catalytic efficiency and structure of enterobactin-specific isochorismate synthase.

Authors: Ming Jiang; Zhihong Guo
Journal: J Am Chem Soc Date: 2007-01-31 Impact factor: 15.419

6. Early events in the binding of the pPS10 replication protein RepA to single iteron and operator DNA sequences.

Authors: Teresa Díaz-López; Cristina Dávila-Fajardo; Franca Blaesing; M Pilar Lillo; Rafael Giraldo
Journal: J Mol Biol Date: 2006-09-08 Impact factor: 5.469

7. Synergetic effects of nanoporous support and urea on enzyme activity.

Authors: Chenghong Lei; Yongsoon Shin; Jun Liu; Eric J Ackerman
Journal: Nano Lett Date: 2007-03-07 Impact factor: 11.189

8. Protein-protein association in polymer solutions: from dilute to semidilute to concentrated.

Authors: Noga Kozer; Yosef Yehuda Kuttner; Gilad Haran; Gideon Schreiber
Journal: Biophys J Date: 2006-12-22 Impact factor: 4.033

9. Escherichia coli AspP activity is enhanced by macromolecular crowding and by both glucose-1,6-bisphosphate and nucleotide-sugars.

Authors: María Teresa Morán-Zorzano; Alejandro Miguel Viale; Francisco José Muñoz; Nora Alonso-Casajús; Gustavo Gabriel Eydallín; Beatriz Zugasti; Edurne Baroja-Fernández; Javier Pozueta-Romero
Journal: FEBS Lett Date: 2007-02-12 Impact factor: 4.124

10. Effect of crowding by dextrans and Ficolls on the rate of alkaline phosphatase-catalyzed hydrolysis: a size-dependent investigation.

Authors: L Homchaudhuri; Navanita Sarma; Rajaram Swaminathan
Journal: Biopolymers Date: 2006-12-05 Impact factor: 2.505

576 in total

1. Quantitative experimental assessment of macromolecular crowding effects at membrane surfaces.

Authors: Rania Leventis; John R Silvius
Journal: Biophys J Date: 2010-10-06 Impact factor: 4.033

2. Identification of primary and secondary UBA footprints on the surface of ubiquitin in cell-mimicking crowded solution.

Authors: Francesca Munari; Andrea Bortot; Serena Zanzoni; Mariapina D'Onofrio; David Fushman; Michael Assfalg
Journal: FEBS Lett Date: 2017-03-19 Impact factor: 4.124

Review 3. Assessment and significance of protein-protein interactions during development of protein biopharmaceuticals.

Authors: Sandeep Yadav; Jun Liu; Thomas M Scherer; Yatin Gokarn; Barthélemy Demeule; Sonoko Kanai; James D Andya; Steven J Shire
Journal: Biophys Rev Date: 2013-03-14

4. Crowding effects on the mechanical stability and unfolding pathways of ubiquitin.

Authors: David L Pincus; D Thirumalai
Journal: J Phys Chem B Date: 2009-01-08 Impact factor: 2.991

5. Diffusion NMR study of complex formation in membrane-associated peptides.

Authors: Suliman Barhoum; Valerie Booth; Anand Yethiraj
Journal: Eur Biophys J Date: 2013-02-07 Impact factor: 1.733

6. Hypertonic stress promotes autophagy and microtubule-dependent autophagosomal clusters.

Authors: Paula Nunes; Thomas Ernandez; Isabelle Roth; Xiaomu Qiao; Déborah Strebel; Richard Bouley; Anne Charollais; Pierluigi Ramadori; Michelangelo Foti; Paolo Meda; Eric Féraille; Dennis Brown; Udo Hasler
Journal: Autophagy Date: 2013-02-04 Impact factor: 16.016