Evolutionary conservation of protein regions in the protonmotive cytochromeb and their possible roles in redox catalysis (original) (raw)
Bashford D, Chothia C, Lesk AM (1987) Determinants of a protein fold. Unique features of the globin amino acid sequences. J mol Biol 196:199–216 ArticlePubMed Google Scholar
Benne R, De Vries BF, Van den Burg J, Klaver B (1983) The nucleotide sequence of a segment of_Trypanosoma brucei_ mitochondrial maxi-circle DNA that contains the gene for apocytochrome_b_ and some unusual unassigned reading frames. Nucleic Acids Res 11:6925–6941 PubMed Google Scholar
Berry EA, Trumpower BL (1985) Pathways of electrons and protons through the cytochrome_bc_1 complex of the mitochondrial respiratory chain. In: Lenaz G (ed) Coenzyme Q. Biochemistry, bioenergetics and clinical applications of ubiquinone. John Wiley & Sons, New York, pp 365–389 Google Scholar
Boer PH, McIntosh JE, Gray MW, Bonen L (1985) The wheat mitochondrial gene for apocytochrome_b_: absence of a prokaryotic ribosome binding site. Nucleic Acids Res 13:2281–2292 PubMed Google Scholar
Brandl CJ, Deber CM (1986) Hypothesis about the function of membrane-buried proline residues in transport proteins. Proc Natl Acad Sci USA 83:917–921 PubMed Google Scholar
Clary DO, Wolstenholme DR (1985) The mitochondrial DNA molecule of_Drosophila yakuba_: Nucleotide sequence, gene organization, and genetic code. J Mol Evol 22:252–271 PubMed Google Scholar
Cramer WA, Black MT, Widger WR, Girvin ME (1987) Structure and function of photosynthetic cytochrome_b/c_ 1 and_b_ 6-f complexes. In: Barber J (ed) The light reactions. Elsevier, Amsterdam, pp 447–493 Google Scholar
Crofts A, Robinson H, Andrews K, Van Doren S, Berry E (1987) Catalytic sites for reduction and oxidation of quinones. In: Papa S, Chance B, Ernster L (eds) Cytochrome systems. Molecular biology and bioenergetics. Plenum, New York, pp 617–624 Google Scholar
Dawson AJ, Jones VP, Leaver CJ (1984) The apocytochrome_b_ gene in maize mitochondria does not contain introns and is preceded by a potential ribosome binding site. EMBOJ 3:2107–2113 Google Scholar
de la Cruz V, Neckelmann N, Simpson L (1984) Sequences of six genes and several open reading frames in the kinetoplast maxicircle DNA of_Leishmania tarentolae_. J Biol Chem 259:15135–15147 Google Scholar
di Rago JP, Colson A-M (1988) Molecular basis for resistance to antimycin and diuron, Q-cycle inhibitors acting at the Qi site in the mitochondrial ubiquinol-cytochrome_c_ reductase in_Saccharomyces cerevisiae_. J Biol Chem 263:12564–12570 PubMed Google Scholar
di Rago J-P, Perea X, Colson A-M (1986) DNA sequence analysis of diuron-resistant mutations in the mitochondrial cytochrome_b_ gene of_Saccharomyces cerevisiae_. FEBS Lett 208:208–210 ArticlePubMed Google Scholar
Feagin JE, Jasmer DP, Stuart K (1987) Developmentally regulated addition of nucleotides within apocytochrome_b_ transcripts in_Trypanosoma brucei_. Cell 49:337–345 ArticlePubMed Google Scholar
Feagin JE, Shaw JM, Simpson L, Stuart K (1988) Creation of AUG initiation codons by addition of uridines within cytochrome_b_ transcripts of kinetoplasts. Proc Natl Acad Sci USA 85:539–543 PubMed Google Scholar
Feng DF, Johnson MS, Doolittle RF (1985) Aligning amino acid sequences: comparison of commonly used methods. J Mol Evol 21:112–125 Google Scholar
Fox TD (1987) Natural variation in the genetic code. Annu Rev Genet 21:67–91 PubMed Google Scholar
French S, Robson B (1983) What is a conservative substitution? J Mol Evol 19:171–175 Google Scholar
Gabellini N (1988) Organization and structure of the genes for the cytochrome_b/c_ 1 complex in purple photosynthetic bacteria. A phylogenetic study describing the homology of the_b/c_ 1 subunits between prokaryotes, mitochondria, and chloroplasts. J Bioenerg 20:59–83 Article Google Scholar
Grantham R (1974) Amino acid difference formula to help explain protein evolution. Science 185:862–864 PubMed Google Scholar
Hauska G, Hurt E, Gabellini N, Lockau W (1983) Comparative aspects of quinol-cytochrome_c_/plastocyanin oxidoreductases. Biochim Biophys Acta 726:97–133 PubMed Google Scholar
Hauska G, Nitschke W, Herrmann RG (1988) Amino acid identities in the three redox center-carrying polypeptides of cytochrome_bc_ 1/b 6 f complexes. J Bioenerg 20:211–228 Article Google Scholar
Howell N, Gilbert K (1987) Sequence analysis of mammalian cytochrome_b_ mutants. In: Papa S, Chance B, Ernster L (eds) Cytochrome systems: molecular biology and bioenergetics. Plenum, New York, pp 79–86 Google Scholar
Howell N, Gilbert K (1988) Mutational analysis of the mouse mitochondrial cytochrome_b_ gene. J Mol Biol 203:607–617 ArticlePubMed Google Scholar
Howell N, Bantel A, Huang P (1983a) Mammalian mitochondrial mutants selected for resistance to the cytochrome_b_ inhibitors HQNO or myxothiazol. Somatic Cell Genet 9:721–743 ArticlePubMed Google Scholar
Howell N, Huang P, Kelliher K, Ryan ML (1983b) Mitochondrial genetics of mammalian cells: a mouse antimycin-resistant mutant with a probable alteration of cytochrome_b_. Somatic Cell Genet 9:143–163 ArticlePubMed Google Scholar
Howell N, Appel J, Cook JP, Howell B, Hauswirth WW (1987) The molecular basis of inhibitor resistance in a mammalian mitochondrial cytochrome_b_ mutant. J Biol Chem 262:2411–2414 PubMed Google Scholar
Kurowski B, Ludwig B (1987) The genes of the_Paracoccus denitrificans bc_ 1 complex. Nucleotide sequence and homologies between bacterial and mitochondrial subunits. J Biol Chem 262:13805–13811 PubMed Google Scholar
Mitchell P (1976) Possible molecular mechanisms of the protonmotive function of cytochrome systems. J Theor Biol 62:327–367 ArticlePubMed Google Scholar
Mitchell P (1987) Respiratory chain systems in theory and practice. In: Kim CH, Tedeschi H, Diwan JJ, Salerno JC (eds) Advances in membrane biochemistry and bioenegetics. Plenum, New York, pp 25–52 Google Scholar
Nakai K, Kidera A, Kanehisa M (1988) Cluster analysis of amino acid indices for prediction of protein structure and function. Protein Eng 2:93–100 PubMed Google Scholar
Rich PR (1984) Electron and proton transfers through quinones and cytochrome_bc_ complexes. Biochim Biophys Acta 768:53–79 PubMed Google Scholar
Risler JL, Delorme MO, Delacroix H, Henault A (1988) Amino substitutions in structurally related proteins. A pattern recognition approach. J mol Biol 204:1019–1029 ArticlePubMed Google Scholar
Robertson DE, Dutton PL (1988) The nature and magnitude of the charge-separation reactions of ubiquinol cytochrome_c_ 2 oxidoreductase. Biochim Biophys Acta 935:273–291 PubMed Google Scholar
Salerno JC, Yoshida S, King TE (1986) Effects of protein-protein and protein-lipid interactions on heme site conformation in the mitochondrial_b_ cytochromes. J Biol Chem 261:5480–5496 PubMed Google Scholar
Saraste M (1984) Location of haem-binding sites in the mitochondrial cytochrome_b_. FEBS Lett 166:367–372 ArticlePubMed Google Scholar
Schwartz RM, Dayhoff MO (1978) Matrices for detecting distant relationships. In: Dayhoff M (ed) Atlas of protein sequence and structure, vol 5, suppl 3. National Biomedical Research Foundation, Silver Springs MD, pp 353–358 Google Scholar
Tsai A-L, Palmer G (1982) Purification and characterization of highly purified cytochrome_b_ from complex III of baker's yeast. Biochim Biophys Acta 681:484–495 PubMed Google Scholar
Tsai A-L, Palmer G (1986) The role of phospholipids in the binding of antimycin to yeast complex III. Biochim Biophys Acta 852:100–105 PubMed Google Scholar
von Jagow G, Link TA, Ohnishi T (1986) Organization and function of cytochrome_b_ and ubiquinone in the cristae membrane of beef heart mitochondria. J Bioenerg 18:157–179 Article Google Scholar
Weber E, Chevallier M-R, Jund R (1988) Evolutionary relationship and secondary structure predictions in four transport proteins of_Saccharomyces cerevisiae_. J Mol Evol 27:341–350 PubMed Google Scholar
Weber S, Wolf K (1988) Two changes in the same nucleotide confer resistance to diuron and antimycin in the mitochondrial cytochrome_b_ of_Schizosaccharomyces pombe_. FEBS Lett 237:31–34 ArticlePubMed Google Scholar
Widger WR, Cramer WA, Herrmann RG, Trebst A (1984) Sequence homology and structural similarity between cytochrome_b_ of mitochondrial complex III and the chloroplast_bf_ 6-f complex: position of the cytochrome_b_ hemes in the membrane. Proc Natl Acad Sci USA 81:674–678 PubMed Google Scholar
Zuckerkandl E (1976) Evolutionary processes and evolutionary noise at the molecular level. I. Functional density in proteins. J Mol Evol 7:167–183 ArticlePubMed Google Scholar