Cytochrome c
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Location (UCSC) | Chr 7: 25.12 – 25.13 Mb | Chr 6: 50.54 – 50.54 Mb | |||||||
PubMed search | [3] | [4] |
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The cytochrome complex, or cyt c, is a small
Species distribution
Cytochrome c is a highly conserved protein across the spectrum of eukaryotic species, found in plants, animals, fungi, and many unicellular organisms. This, along with its small size (molecular weight about 12,000 daltons),[7] makes it useful in studies of cladistics.[8] Cytochrome c has been studied for the glimpse it gives into evolutionary biology.
Cytochrome c has a primary structure consisting of a chain of about 100 amino acids. Many higher-order organisms possess a chain of 104 amino acids.[9] The sequence of cytochrome c in humans is identical to that of chimpanzees (our closest relatives), but differs from that of horses.[10]
Cytochrome c has an amino acid sequence that is highly conserved in eukaryotes, varying by only a few residues. In more than thirty species tested in one study, 34 of the 104 amino acids were conserved (identical at their characteristic position).
Structure
Cytochrome c belongs to class I of the c-type cytochrome family[13] and contains a characteristic CXXCH (cysteine-any-any-cysteine-histidine) amino acid motif that binds heme.[14] This motif is located towards the N-terminus of the peptide chain and contains a histidine as the 5th ligand of the heme iron. The 6th ligand is provided by a methionine residue found towards the C-terminus. The protein backbone is folded into five α-helices that are numbered α1-α5 from N-terminus to C-terminus. Helices α3, α4 and α5 are referred to as 50s, 60s and 70s helices, respectively, when referring to mitochondrial cytochrome c.[15]
Heme c
While most heme proteins are attached to the prosthetic group through iron ion ligation and tertiary interactions, the heme group of cytochrome c makes thioether bonds with two cysteine side chains of the protein.[16] One of the main properties of heme c, which allows cytochrome c to have variety of functions, is its ability to have different reduction potentials in nature. This property determines the kinetics and thermodynamics of an electron transfer reaction.[17]
Dipole moment
The dipole moment has an important role in orienting proteins to the proper directions and enhancing their abilities to bind to other molecules.[18][19] The dipole moment of cytochrome c results from a cluster of negatively charged amino acid side chains at the "back" of the enzyme.[19] Despite variations in the number of bound heme groups and variations in sequence, the dipole moment of vertebrate cytochromes c is remarkably conserved. For example, vertebrate cytochromes c all have a dipole moment of approximately 320 debye while cytochromes c of plants and insects have a dipole moment of approximately 340 debye.[19]
Function
Electron transport chain
Cytochrome c is an essential component of the respiratory
Cytochrome c can also catalyze several redox reactions such as
A bacterial cytochrome c functions as a nitrite reductase.[20]
Role in apoptosis
Cytochrome c was also discovered in 1996 by Xiaodong Wang to have an intermediate role in apoptosis, a controlled form of cell death used to kill cells in the process of development or in response to infection or DNA damage.[21]
Cytochrome c binds to cardiolipin in the inner mitochondrial membrane, thus anchoring its presence and keeping it from releasing out of the mitochondria and initiating apoptosis. While the initial attraction between cardiolipin and cytochrome c is electrostatic due to the extreme positive charge on cytochrome c, the final interaction is hydrophobic, where a hydrophobic tail from cardiolipin inserts itself into the hydrophobic portion of cytochrome c.
During the early phase of apoptosis, mitochondrial ROS production is stimulated, and cardiolipin is oxidized by a peroxidase function of the cardiolipin–cytochrome c complex. The hemoprotein is then detached from the mitochondrial inner membrane and can be extruded into the soluble cytoplasm through pores in the outer membrane.[22]
The sustained elevation in
, which are responsible for destroying the cell from within.Inhibition of apoptosis
One of the ways cell apoptosis is activated is by release of cytochrome c from the mitochondria into cytosol. A study has shown that cells are able to protect themselves from apoptosis by blocking the release of cytochrome c using Bcl-xL.[24] Another way that cells can control apoptosis is by phosphorylation of Tyr48, which would turn cytochrome c into an anti-apoptotic switch.[25]
As an antioxidative enzyme
In addition to its well-known roles in the electron transport chain and cell apoptosis, according to a recent study cytochrome c can also act as an antioxidative enzyme in the mitochondria; it does so by removing
Extramitochondrial localisation
Cytochrome c is widely believed to be localised solely in the mitochondrial intermembrane space under normal physiological conditions.
Applications
Superoxide detection
Cytochrome c has been used to detect peroxide production in biological systems. As superoxide is produced, the number of oxidised cytochrome c3+ increases, and reduced cytochrome c2+ decreases.[36] However, superoxide is often produced with nitric oxide. In the presence of nitric oxide, the reduction of cytochrome c3+ is inhibited.[37] This leads to the oxidisation of cytochrome c2+ to cytochrome c3+ by peroxynitrous acid, an intermediate made through the reaction of nitric oxide and superoxide.[37] Presence of peroxynitrite or H2O2 and nitrogen dioxide NO2 in the mitochondria can be lethal since they nitrate tyrosine residues of cytochrome c, which leads to disruption of cytochrome c's function as an electron carrier in the electron transport chain.[38]
As an enzyme for Catalytic Activity
Cytochrome C has also been widely studied as an enzyme with peroxidase-like activity. Cytochrome C was conjugated to charged polymer to test its peroxidase-like activity.[39][40] Inspired from natural examples of enzyme encapsulation in protein-based cage structures (Example: Carboxysomes, Ferritin and Encapsulin), Cytochrome C was encapsulated in a 9 nm small self-assembling DNA binding protein from nutrient starved cells (Dps) protein cage using chimeric self-assembly approach. Authors observed unique catalytic activity behavior upon encapsulating enzyme inside a protein-cage, which was different from enzyme in solution. This was attributed to local microenvironment provided by Dps nanocage's interior cavity which is different than bulk.[41]
See also
References
- ^ a b c GRCh38: Ensembl release 89: ENSG00000172115 - Ensembl, May 2017
- ^ a b c GRCm38: Ensembl release 89: ENSMUSG00000063694 - Ensembl, May 2017
- ^ "Human PubMed Reference:". National Center for Biotechnology Information, U.S. National Library of Medicine.
- ^ "Mouse PubMed Reference:". National Center for Biotechnology Information, U.S. National Library of Medicine.
- ^ "Entrez Gene: cytochrome c".
- PMID 11790791.
- ^ "Cytochrome c – Homo sapiens (Human)". P99999. UniProt Consortium.
mass is 11,749 Daltons
- PMID 14077496.
- ^ Amino acid sequences in cytochrome c proteins from different species Archived 2013-12-28 at the Wayback Machine, adapted from Strahler, Arthur; Science and Earth History, 1997. page 348.
- ISBN 978-1-4051-5089-7.
- ^ ISBN 978-0-7167-0174-3.
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- ^ S2CID 2106599.
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- ^ Y. F. Zhang, Q. Wang and H. Hess, ACS Catal., 2017, 7, 2047–2051.
- ^ K. R. Benson, J. Gorecki, A. Nikiforov, W. Tsui, R. M. Kasi and C. V. Kumar, Org. Biomol. Chem., 2019, 17, 4043–4048.
- PMID 33885621.
Further reading
- Kumarswamy R, Chandna S (February 2009). "Putative partners in Bax mediated cytochrome-c release: ANT, CypD, VDAC or none of them?". Mitochondrion. 9 (1): 1–8. PMID 18992370.
- Skulachev VP (February 1998). "Cytochrome c in the apoptotic and antioxidant cascades". FEBS Letters. 423 (3): 275–80. S2CID 10267410.
- Mannella CA (1998). "Conformational changes in the mitochondrial channel protein, VDAC, and their functional implications". Journal of Structural Biology. 121 (2): 207–18. PMID 9615439.
- Ferri KF, Jacotot E, Blanco J, Esté JA, Kroemer G (2000). "Mitochondrial control of cell death induced by HIV-1-encoded proteins". Annals of the New York Academy of Sciences. 926 (1): 149–64. S2CID 21997163.
- Britton RS, Leicester KL, Bacon BR (October 2002). "Iron toxicity and chelation therapy". International Journal of Hematology. 76 (3): 219–28. S2CID 22572183.
- Haider N, Narula N, Narula J (December 2002). "Apoptosis in heart failure represents programmed cell survival, not death, of cardiomyocytes and likelihood of reverse remodeling". Journal of Cardiac Failure. 8 (6 Suppl): S512–7. PMID 12555167.
- Castedo M, Perfettini JL, Andreau K, Roumier T, Piacentini M, Kroemer G (December 2003). "Mitochondrial apoptosis induced by the HIV-1 envelope". Annals of the New York Academy of Sciences. 1010 (1): 19–28. S2CID 37073602.
- Ng S, Smith MB, Smith HT, Millett F (November 1977). "Effect of modification of individual cytochrome c lysines on the reaction with cytochrome b5". Biochemistry. 16 (23): 4975–8. PMID 199233.
- Lynch SR, Sherman D, Copeland RA (January 1992). "Cytochrome c binding affects the conformation of cytochrome a in cytochrome c oxidase". The Journal of Biological Chemistry. 267 (1): 298–302. PMID 1309738.
- Garber EA, Margoliash E (February 1990). "Interaction of cytochrome c with cytochrome c oxidase: an understanding of the high- to low-affinity transition". Biochimica et Biophysica Acta (BBA) - Bioenergetics. 1015 (2): 279–87. PMID 2153405.
- Bedetti CD (May 1985). "Immunocytochemical demonstration of cytochrome c oxidase with an immunoperoxidase method: a specific stain for mitochondria in formalin-fixed and paraffin-embedded human tissues". The Journal of Histochemistry and Cytochemistry. 33 (5): 446–52. PMID 2580882.
- Tanaka Y, Ashikari T, Shibano Y, Amachi T, Yoshizumi H, Matsubara H (June 1988). "Construction of a human cytochrome c gene and its functional expression in Saccharomyces cerevisiae". Journal of Biochemistry. 103 (6): 954–61. PMID 2844747.
- Evans MJ, Scarpulla RC (December 1988). "The human somatic cytochrome c gene: two classes of processed pseudogenes demarcate a period of rapid molecular evolution". Proceedings of the National Academy of Sciences of the United States of America. 85 (24): 9625–9. PMID 2849112.
- Passon PG, Hultquist DE (July 1972). "Soluble cytochrome b 5 reductase from human erythrocytes". Biochimica et Biophysica Acta (BBA) - Bioenergetics. 275 (1): 62–73. PMID 4403130.
- Dowe RJ, Vitello LB, Erman JE (August 1984). "Sedimentation equilibrium studies on the interaction between cytochrome c and cytochrome c peroxidase". Archives of Biochemistry and Biophysics. 232 (2): 566–73. PMID 6087732.
- Michel B, Bosshard HR (August 1984). "Spectroscopic analysis of the interaction between cytochrome c and cytochrome c oxidase". The Journal of Biological Chemistry. 259 (16): 10085–91. PMID 6088481.
- Broger C, Nałecz MJ, Azzi A (October 1980). "Interaction of cytochrome c with cytochrome bc1 complex of the mitochondrial respiratory chain". Biochimica et Biophysica Acta (BBA) - Bioenergetics. 592 (3): 519–27. PMID 6251869.
- Smith HT, Ahmed AJ, Millett F (May 1981). "Electrostatic interaction of cytochrome c with cytochrome c1 and cytochrome oxidase". The Journal of Biological Chemistry. 256 (10): 4984–90. PMID 6262312.
- Geren LM, Millett F (October 1981). "Fluorescence energy transfer studies of the interaction between adrenodoxin and cytochrome c". The Journal of Biological Chemistry. 256 (20): 10485–9. PMID 6270113.
- Favre B, Zolnierowicz S, Turowski P, Hemmings BA (June 1994). "The catalytic subunit of protein phosphatase 2A is carboxyl-methylated in vivo". The Journal of Biological Chemistry. 269 (23): 16311–7. PMID 8206937.
- Gao B, Eisenberg E, Greene L (July 1996). "Effect of constitutive 70-kDa heat shock protein polymerization on its interaction with protein substrate". The Journal of Biological Chemistry. 271 (28): 16792–7. PMID 8663341.
External links
- The Cytochrome c Protein
- Apoptosis & Caspase 3 – PMAP The Proteolysis Map-animation
- Cytochrome+c at the U.S. National Library of Medicine Medical Subject Headings (MeSH)
- Overview of all the structural information available in the PDB for UniProt: P99999 (Cytochrome c) at the PDBe-KB.