24OQ
Somatic cytochrome c from Buergeria japonica frog
Summary for 24OQ
| Entry DOI | 10.2210/pdb24oq/pdb |
| Descriptor | Cytochrome c, HEME C (3 entities in total) |
| Functional Keywords | mitochondrial heme protein, electron transport |
| Biological source | Buergeria japonica |
| Total number of polymer chains | 1 |
| Total formula weight | 12089.73 |
| Authors | |
| Primary citation | Asaeda, Y.,Fujii, S.,Ogino, H.,Hough, M.A.,Igawa, T.,Sambongi, Y. Ancient nuclear genome duplication events in vertebrates facilitated the functional diversification of ohnologous cytochrome c: insights from Buergeria frogs. Mol.Biol.Evol., 43:-, 2026 Cited by PubMed Abstract: In vertebrates, a nuclear gene encoding mitochondrial cytochrome c (CYC) was duplicated and diverged into one with ubiquitous expression (somatic-type) and the other with testis-preferred expression (testis-type). In this study, synteny-based phylogenetic analyses suggest that cyc ohnologs originated through whole-genome duplication events in the common ancestor of vertebrates and have been conserved for approximately 450 to 540 million years. Molecular evolutionary analyses revealed pervasive purifying selection and an approximate Phe/Tyr dichotomy at position 46 between somatic- and testis-type CYC proteins. This was the case in 2 closely related amphibians, Buergeria buergeri and its hot-spring-dwelling species, Buergeria japonica. The recombinant testis-type CYC proteins from B. buergeri (Bb-CYCT) and B. japonica (Bj-CYCT) exhibited significantly higher resistance to hydrogen peroxide (H2O2) than somatic-type counterpart proteins (Bb-CYCS and Bj-CYCS). Structural analysis showed that the Tyr-46 residues in the testis-type CYC proteins face the heme, suggesting a protective role against H2O2 through oxidation of its hydroxyl group compared to the spatially corresponding Phe-46 residue in the somatic-type counterparts. When the Tyr-46 residue in Bj-CYCT was replaced with the Phe residue, the H2O2 resistance was significantly reduced, confirming the functional importance of Tyr-46. These results demonstrate that functional divergence between somatic- and testis-type Buergeria CYC proteins is at least partly attributable to the Phe-to-Tyr substitution, suggesting that ancient nuclear genome duplication contributed to tissue-specific divergence of mitochondrial function. PubMed: 42786798DOI: 10.1093/molbev/msag243 PDB entries with the same primary citation |
| Experimental method | X-RAY DIFFRACTION (2.49 Å) |
Structure validation
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