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Structural and functional properties of Antarctic fish cytoglobins-1: Cold-reactivity in multi-ligand reactions

Authors :
Herald Berghmans
Paolo Ascenzi
Marco Nardini
Cinzia Verde
Daniela Giordano
Francesco Marchesani
Stijn Vermeylen
Stefania Abbruzzetti
Martino Bolognesi
Cristiano Viappiani
Constantí Seira
Guido di Prisco
Sylvia Dewilde
Alessandra Pesce
Stefano Bruno
F. Javier Luque
Source :
Computational and Structural Biotechnology Journal 18 (2020): 2132–2144. doi:10.1016/j.csbj.2020.08.007, info:cnr-pdr/source/autori:Giordano D.; Pesce A.; Vermeylen S.; Abbruzzetti S.; Nardini M.; Marchesani F.; Berghmans H.; Seira C.; Bruno S.; Javier Luque F.; di Prisco G.; Ascenzi P.; Dewilde S.; Bolognesi M.; Viappiani C.; Verde C./titolo:Structural and functional properties of Antarctic fish cytoglobins-1: Cold-reactivity in multi-ligand reactions/doi:10.1016%2Fj.csbj.2020.08.007/rivista:Computational and Structural Biotechnology Journal/anno:2020/pagina_da:2132/pagina_a:2144/intervallo_pagine:2132–2144/volume:18, Computational and Structural Biotechnology Journal, Dipòsit Digital de la UB, Universidad de Barcelona, 'Computational and Structural Biotechnology Journal ', vol: 18, pages: 2132-2144 (2020), Computational and Structural Biotechnology Journal, Vol 18, Iss, Pp 2132-2144 (2020)
Publication Year :
2020
Publisher :
Chalmers University of Technology, Göteborg , Svezia, 2020.

Abstract

Graphical abstract 1These authors contributed equally as First Author.<br />While the functions of the recently discovered cytoglobin, ubiquitously expressed in vertebrate tissues, remain uncertain, Antarctic fish provide unparalleled models to study novel protein traits that may arise from cold adaptation. We report here the spectral, ligand-binding and enzymatic properties (peroxynitrite isomerization, nitrite-reductase activity) of cytoglobin-1 from two Antarctic fish, Chaenocephalus aceratus and Dissostichus mawsoni, and present the crystal structure of D. mawsoni cytoglobin-1. The Antarctic cytoglobins-1 display high O2 affinity, scarcely compatible with an O2-supply role, a slow rate constant for nitrite-reductase activity, and do not catalyze peroxynitrite isomerization. Compared with mesophilic orthologues, the cold-adapted cytoglobins favor binding of exogenous ligands to the hexa-coordinated bis-histidyl species, a trait related to their higher rate constant for distal-His/heme-Fe dissociation relative to human cytoglobin. At the light of a remarkable 3D-structure conservation, the observed differences in ligand-binding kinetics may reflect Antarctic fish cytoglobin-1 specific features in the dynamics of the heme distal region and of protein matrix cavities, suggesting adaptation to functional requirements posed by the cold environment. Taken together, the biochemical and biophysical data presented suggest that in Antarctic fish, as in humans, cytoglobin-1 unlikely plays a role in O2 transport, rather it may be involved in processes such as NO detoxification.

Subjects

Subjects :
Myoglobin
NGB
CO, Carbon monoxide
Cytoglobin-1 of C. aceratus
CO
Molecular biology
C.aceCygb-1*, Mutant of C.aceCygb-1
Human neuroglobin
NO dioxygenase
NO
Ligand properties
Penta-coordinated Cygb
Cytoglobin
D.mawCygb-1
Chaenocephalus aceratus
Cytoglobin 2
Cygbh
Biochemistry
Cygb-1, Cytoglobin 1
Nitric oxide
RNS
chemistry.chemical_compound
p50, O2 partial pressure required to achieve half saturation
0302 clinical medicine
Cold-adaptation
Structural Biology
Cinètica enzimàtica
Heme
NGB, Human neuroglobin
chemistry.chemical_classification
0303 health sciences
Reactive Nitrogen Species
ROS
biology
Chemistry
Mutant of D.mawCygb-1
Reactive Oxygen Species
X-ray structure
p50
Fishes
Human Cygb
Cygb
Vertebrate
Peixos
Metabolisme
Hemoglobin
MD
Computer Science Applications
Cytoglobin-1 of D. mawsoni
DTT
030220 oncology & carcinogenesis
Molecular Dynamics
Mb
C.aceCygb-1
Cytoglobin 1
Cygb-2
Cygbp, Penta-coordinated Cygb
Engineering sciences. Technology
Peroxynitrite
Biotechnology
Research Article
Dissostichus
RNS, Reactive Nitrogen Species
lcsh:Biotechnology
Biophysics
MD, Molecular Dynamics
Cygb, Cytoglobin
DTT, Dithiothreitol
Hb, Hemoglobin
NO, Nitric oxide
rms, Root-mean square
03 medical and health sciences
Cygbh, Hexa-coordinated bis-histidyl species
D.mawCygb-1*, Mutant of D.mawCygb-1
lcsh:TP248.13-248.65
biology.animal
Genetics
Mutant of C.aceCygb-1
14. Life underwater
Hexa-coordinated bis-histidyl species
Cygbp
D.mawCygb-1, Cytoglobin-1 of D. mawsoni
Biology
030304 developmental biology
Biologia molecular
C.aceCygb-1, Cytoglobin-1 of C. aceratus
Ligand
Carbon monoxide
CYGB
O2 partial pressure required to achieve half saturation
rms
CYGB, Human Cygb
Enzyme kinetics
Cygb-2, Cytoglobin 2
Mb, Myoglobin
biology.organism_classification
Enzyme
Metabolism
Cygb-1
Root-mean square
Dithiothreitol
Hb
Genètica
ROS, Reactive Oxygen Species

Details

Language :
English
ISSN :
20010370
Database :
OpenAIRE
Journal :
Computational and Structural Biotechnology Journal 18 (2020): 2132–2144. doi:10.1016/j.csbj.2020.08.007, info:cnr-pdr/source/autori:Giordano D.; Pesce A.; Vermeylen S.; Abbruzzetti S.; Nardini M.; Marchesani F.; Berghmans H.; Seira C.; Bruno S.; Javier Luque F.; di Prisco G.; Ascenzi P.; Dewilde S.; Bolognesi M.; Viappiani C.; Verde C./titolo:Structural and functional properties of Antarctic fish cytoglobins-1: Cold-reactivity in multi-ligand reactions/doi:10.1016%2Fj.csbj.2020.08.007/rivista:Computational and Structural Biotechnology Journal/anno:2020/pagina_da:2132/pagina_a:2144/intervallo_pagine:2132–2144/volume:18, Computational and Structural Biotechnology Journal, Dipòsit Digital de la UB, Universidad de Barcelona, 'Computational and Structural Biotechnology Journal ', vol: 18, pages: 2132-2144 (2020), Computational and Structural Biotechnology Journal, Vol 18, Iss, Pp 2132-2144 (2020)
Accession number :
edsair.doi.dedup.....af750df4e2640ee580dfff3ddf04032f