Literature DB >> 19705826

CO2-formatics: how do proteins bind carbon dioxide?

Thomas R Cundari1, Angela K Wilson, Michael L Drummond, Hector Emanuel Gonzalez, Kameron R Jorgensen, Stacy Payne, Jordan Braunfeld, Margarita De Jesus, Vanessa M Johnson.   

Abstract

The rising atmospheric concentration of CO(2) has motivated researchers to seek routes for improved utilization, increased mitigation, and enhanced sequestration of this greenhouse gas. Through a combination of bioinformatics, molecular modeling, and first-principles quantum mechanics the binding of carbon dioxide to proteins is analyzed. It is concluded that acid/base interactions are the principal chemical force by which CO(2) is bound inside proteins. With respect to regular secondary structural elements, beta-sheets show a marked preference for CO(2) binding compared to alpha-helices. The data also support the inference that while either or both oxygens of CO(2) are generally tightly bound in the protein environment, the carbon is much less "sequestered." First principles and more approximate modeling techniques are assessed for quantifying CO(2) binding thermodynamics.

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Year:  2009        PMID: 19705826     DOI: 10.1021/ci9002377

Source DB:  PubMed          Journal:  J Chem Inf Model        ISSN: 1549-9596            Impact factor:   4.956


  11 in total

1.  Structure and function of LCI1: a plasma membrane CO2 channel in the Chlamydomonas CO2 concentrating mechanism.

Authors:  Alfredo Kono; Tsung-Han Chou; Abhijith Radhakrishnan; Jani Reddy Bolla; Kannan Sankar; Sayane Shome; Chih-Chia Su; Robert L Jernigan; Carol V Robinson; Edward W Yu; Martin H Spalding
Journal:  Plant J       Date:  2020-04-18       Impact factor: 6.417

2.  The importance of secondary structure in determining CO2-protein binding patterns.

Authors:  Michael L Drummond; Angela K Wilson; Thomas R Cundari
Journal:  J Mol Model       Date:  2011-10-27       Impact factor: 1.810

3.  Ion release from magnesium materials in physiological solutions under different oxygen tensions.

Authors:  Frank Feyerabend; Heiko Drücker; Daniel Laipple; Carla Vogt; Michael Stekker; Norbert Hort; Regine Willumeit
Journal:  J Mater Sci Mater Med       Date:  2011-12-04       Impact factor: 3.896

4.  Site-Specific Detection and Characterization of Ubiquitin Carbamylation.

Authors:  Westley Pawloski; Teppei Komiyama; Christos Kougentakis; Ananya Majumdar; David Fushman
Journal:  Biochemistry       Date:  2022-04-05       Impact factor: 3.321

5.  Zebrafish and mouse TASK-2 K(+) channels are inhibited by increased CO2 and intracellular acidification.

Authors:  Gaspar Peña-Münzenmayer; María Isabel Niemeyer; Francisco V Sepúlveda; L Pablo Cid
Journal:  Pflugers Arch       Date:  2013-10-01       Impact factor: 3.657

6.  Elevated carbon dioxide blunts mammalian cAMP signaling dependent on inositol 1,4,5-triphosphate receptor-mediated Ca2+ release.

Authors:  Zara C Cook; Michael A Gray; Martin J Cann
Journal:  J Biol Chem       Date:  2012-05-31       Impact factor: 5.157

7.  Structure of the Cyanuric Acid Hydrolase TrzD Reveals Product Exit Channel.

Authors:  Asim K Bera; Kelly G Aukema; Mikael Elias; Lawrence P Wackett
Journal:  Sci Rep       Date:  2017-03-27       Impact factor: 4.379

8.  Awakening the Sleeping Carboxylase Function of Enzymes: Engineering the Natural CO2-Binding Potential of Reductases.

Authors:  Iria Bernhardsgrütter; Kristina Schell; Dominik M Peter; Farshad Borjian; David Adrian Saez; Esteban Vöhringer-Martinez; Tobias J Erb
Journal:  J Am Chem Soc       Date:  2019-06-14       Impact factor: 15.419

9.  Inactivation, Aggregation and Conformational Changes of Polyphenol Oxidase from Quince (Cydonia oblonga Miller) Juice Subjected to Thermal and High-Pressure Carbon Dioxide Treatment.

Authors:  Aamir Iqbal; Ayesha Murtaza; Zafarullah Muhammad; Abdeen E Elkhedir; Mingfang Tao; Xiaoyun Xu
Journal:  Molecules       Date:  2018-07-17       Impact factor: 4.411

10.  The identification of carbon dioxide mediated protein post-translational modifications.

Authors:  Victoria L Linthwaite; Joanna M Janus; Adrian P Brown; David Wong-Pascua; AnnMarie C O'Donoghue; Andrew Porter; Achim Treumann; David R W Hodgson; Martin J Cann
Journal:  Nat Commun       Date:  2018-08-06       Impact factor: 14.919

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