Literature DB >> 20230836

Direct determination of protonation states of histidine residues in a 2 A neutron structure of deoxy-human normal adult hemoglobin and implications for the Bohr effect.

Andrey Y Kovalevsky1, Toshiyuki Chatake, Naoya Shibayama, Sam-Yong Park, Takuya Ishikawa, Marat Mustyakimov, Zoe Fisher, Paul Langan, Yukio Morimoto.   

Abstract

We have investigated the protonation states of histidine residues (potential Bohr groups) in the deoxy form (T state) of human hemoglobin by direct determination of hydrogen (deuterium) positions with the neutron protein crystallography technique. The reversible binding of protons is key to the allosteric regulation of human hemoglobin. The protonation states of 35 of the 38 His residues were directly determined from neutron scattering omit maps, with 3 of the remaining residues being disordered. Protonation states of 5 equivalent His residues--alpha His20, alpha His50, alpha His89, beta His143, and beta His146--differ between the symmetry-related globin subunits. The distal His residues, alpha His58 and beta His63, are protonated in the alpha 1 beta 1 heterodimer and are neutral in alpha 2 beta 2. Buried residue alpha His103 is found to be protonated in both subunits. These distal and buried residues have the potential to act as Bohr groups. The observed protonation states of His residues are compared to changes in their pK(a) values during the transition from the T to the R state and the results provide some new insights into our understanding of the molecular mechanism of the Bohr effect. (c) 2010 Elsevier Ltd. All rights reserved.

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Year:  2010        PMID: 20230836     DOI: 10.1016/j.jmb.2010.03.016

Source DB:  PubMed          Journal:  J Mol Biol        ISSN: 0022-2836            Impact factor:   5.469


  15 in total

1.  Joint X-ray and neutron refinement with phenix.refine.

Authors:  Pavel V Afonine; Marat Mustyakimov; Ralf W Grosse-Kunstleve; Nigel W Moriarty; Paul Langan; Paul D Adams
Journal:  Acta Crystallogr D Biol Crystallogr       Date:  2010-10-20

2.  Hemoglobin redux: combining neutron and X-ray diffraction with mass spectrometry to analyse the quaternary state of oxidized hemoglobins.

Authors:  Timothy C Mueser; Wendell P Griffith; Andrey Y Kovalevsky; Jingshu Guo; Sean Seaver; Paul Langan; B Leif Hanson
Journal:  Acta Crystallogr D Biol Crystallogr       Date:  2010-10-20

3.  Protonation states of histidine and other key residues in deoxy normal human adult hemoglobin by neutron protein crystallography.

Authors:  Andrey Kovalevsky; Toshiyuki Chatake; Naoya Shibayama; Sam Yong Park; Takuya Ishikawa; Marat Mustyakimov; S Zoe Fisher; Paul Langan; Yukio Morimoto
Journal:  Acta Crystallogr D Biol Crystallogr       Date:  2010-10-20

4.  Macromolecular neutron crystallography at the Protein Crystallography Station (PCS).

Authors:  Andrey Kovalevsky; Zoe Fisher; Hannah Johnson; Marat Mustyakimov; Mary Jo Waltman; Paul Langan
Journal:  Acta Crystallogr D Biol Crystallogr       Date:  2010-10-20

5.  Response to comment on 'Valid molecular dynamics simulations of human hemoglobin require a surprisingly large box size'.

Authors:  Krystel El Hage; Florent Hédin; Prashant K Gupta; Markus Meuwly; Martin Karplus
Journal:  Elife       Date:  2019-06-20       Impact factor: 8.140

Review 6.  Structural origin of cooperativity in human hemoglobin: a view from different roles of α and β subunits in the α2β2 tetramer.

Authors:  Shigenori Nagatomo; Masako Nagai; Teizo Kitagawa
Journal:  Biophys Rev       Date:  2022-04-18

7.  Protein charge ladders reveal that the net charge of ALS-linked superoxide dismutase can be different in sign and magnitude from predicted values.

Authors:  Yunhua Shi; Alireza Abdolvahabi; Bryan F Shaw
Journal:  Protein Sci       Date:  2014-08-07       Impact factor: 6.725

8.  Molecular modeling of the human hemoglobin-haptoglobin complex sheds light on the protective mechanisms of haptoglobin.

Authors:  Chanin Nantasenamat; Virapong Prachayasittikul; Leif Bulow
Journal:  PLoS One       Date:  2013-04-26       Impact factor: 3.240

9.  Collective dynamics underlying allosteric transitions in hemoglobin.

Authors:  Martin D Vesper; Bert L de Groot
Journal:  PLoS Comput Biol       Date:  2013-09-19       Impact factor: 4.475

10.  Visualizing the Bohr effect in hemoglobin: neutron structure of equine cyanomethemoglobin in the R state and comparison with human deoxyhemoglobin in the T state.

Authors:  Steven Dajnowicz; Sean Seaver; B Leif Hanson; S Zoë Fisher; Paul Langan; Andrey Y Kovalevsky; Timothy C Mueser
Journal:  Acta Crystallogr D Struct Biol       Date:  2016-06-28       Impact factor: 7.652

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