P-type ATPases of eukaryotes and bacteria: Sequence analyses and construction of phylogenetic trees (original) (raw)
- Ambudhar SV, Lynn AR, Maloney PC, Rosen BP (1986) Reconstitution of ATP-dependent calcium transport from Streptococci. J Biol Chem 261:15596–15600
Google Scholar - Andersen JP, Vilsen B, Leberer E, MacLennan DH (1989) Functional consequences of mutations in the beta-strand sector of the CA2(+)-ATPase of sarcoplasmic reticulum. J Biol Chem 264:21018–21023
Google Scholar - Andersen JP, Vilsen B, MacLennan DH (1992) Functional consequences of alterations to Gly310, Gly770, and Gly801 located in the transmembrane domain of the Ca(2+)-ATPase of sarcoplasmic reticulum. J Biol Chem 267:2767–2774
Google Scholar - Carafoli E (1989) The plasma membrane Ca2+ pump: Structure, function and regulation. Biochem Soc Trans 17:808–810
Google Scholar - Carafoli E (1991) The calcium pumping ATPase of the plasma membrane. Annu Rev Physiol 53:531–547
Google Scholar - Clarke DM, Loo TW, MacLennan DH (1990a) Functional consequences of alterations to amino acids located in the nucleotide binding domain of the Ca2(+)-ATPase of sarcoplasmic reticulum. J Biol Chem 265:22223–22227
Google Scholar - Clarke DM, Loo TW, MacLennan DH (1990b) Functional consequences of alterations to polar amino acids located in the transmembrane domain of the Ca2(+)-ATPase of sarcoplasmic reticulum. J Biol Chem 265:6262–6267
Google Scholar - Clarke DM, Loo TW, MacLennan DH (1990c) Functional consequences of mutations of conserved amino acids in the betastrand domain of the Ca2(+)-ATPase of sarcoplasmic reticulum. J Biol Chem 265:14088–14092
Google Scholar - Clarke DM, Maruyama K, Loo TW, Leberer E, Inesi G, MacLennan DH (1989) Functional consequences of glutamate, aspartate, glutamine, and asparagine mutations in the stalk sector of the Ca2+-ATPase of sarcoplasmic reticulum. J Biol Chem 264:11246–11251
Google Scholar - Dayhoff MO, Barker WC, Hunt LT (1983) Establishing homologies in protein sequences. Methods Enzymol 91:524–545
Google Scholar - Devereux J, Haeberli P, Smithies O (1984) A comprehensive set of sequence analysis programs for the VAX. Nucleic Acids Res 12:387–395
Google Scholar - Doolittle RF, Feng DF (1990) A nearest neighbor procedure for relating progressively aligned amino acid sequences. Methods Enzymol 183:659–669
Google Scholar - Doolittle RF (1986) Of Urfs and Orfs. A primer on how to analyze derived amino acid sequences. University Science Books, Mill Valley, CA
Google Scholar - Epstein W (1990) Bacterial transport ATPases. In Krulwich TA (ed) The Bacteria, vol 12, chap. 4. Academic Press, San Diego, CA, pp 87–110
Google Scholar - Epstein W, Walderhaug MO, Polarek JW, Hesse JE, Dorus E, Daniel JM (1990) The bacterial Kdp K+-ATPase and its relation to other transport ATPases, such as the Na+/K+- and Ca2+-ATPases in higher organisms. Philos Trans R Soc Lond B 326:479–487
Google Scholar - Feng D-F, Doolittle RF (1990) Progressive alignment and phylogenetic tree construction of protein sequences. Methods Enzymol 183:375–387
Google Scholar - Gambel AN, Desrosiers MG, Menick DR. (1992) Characterization of a P-type Ca2+-ATPase from Flavobacterium odoratum. J Biol Chem 267:15923–15931
Google Scholar - Green NM, MacLennan DH (1989) ATP driven cation pumps: An evolutionary mosaic. Biochem Soc Trans 17:819–822
Google Scholar - Green NM (1989) ATP driven cation pumps: Alignment of sequences. Biochem Soc Trans 17:969–971
Google Scholar - Heefner DL, Harold FM (1982) ATP-driven sodium pump in Streptococcus faecalis. Proc Natl Acad Sci USA 79:2798–2802
Google Scholar - Herrera VLM, Ruiz-Opazo N (1990) Alteration of al Na+,K+-ATPase 86Rb influx by a single amino acid substitution. Science 249:1023–1026
Google Scholar - Horisberger JD, Lemas V, Kraehenbühl JP, Rossier BC (1991) Structure-function Relationship of Na,K-ATPase. Annu Rev Physiol 53:565–584
Google Scholar - Inesi G, Kirtley ME (1990) Coupling of catalytic and channel function in the Ca2+ transport ATPase. J Memb Biol 116:1–8
Google Scholar - Inesi G, Sumbilla C, Kirtley ME (1990) Relationship of molecular structure and function in Ca2+-transport ATPase. Physiol Rev 70:749–760
Google Scholar - Jin Y, Bennetzen JL (1989) Structure and coding properties of BS1, maize retrovirus-like transposon. Proc Natl Acad Sci USA 86:6235–6239
Google Scholar - Kobayashi H, Van Brunt J, Harold FM (1978) ATP-linked calcium transport in cells and membrane vesicles of Streptococcus faecalis. J Biol Chem 253:2085–2092
Google Scholar - Kyte J, Doolittle FR (1982) A simple method for displaying the hydropathy character of a protein. J Mol Biol 157:105–132
Google Scholar - Lipman DJ, Pearson WR (1985) Rapid and sensitive protein similarity searches. Science 227:1435–1441
Google Scholar - Martonosi AN, Istvan J, Molnar E, Seidler NW, Buchet R, Varga S (1990) Emerging views on the structure and dynamics of the Ca2+-ATPase in sacroplasmic reticulum. FEBS Lett 268:365–370
Google Scholar - Maruyama K, Clarke DM, et al (1989) Functional consequences of alterations to amino acids located in the catalytic center (isoleucine 348 to threonine 357) and nucleotide binding domain of the Ca2+-ATPase of sarcoplasmic reticulum. J Biol Chem 264:13038–13042
Google Scholar - Norby JG (1989) Structural and functional organization of the Na+,K+Pump. Biochem Soc Trans 17:806–808
Google Scholar - Ohtsubo M, Noguchi S, et al (1990) Site-directed mutagenesis of Asp-376, the catalytic phosphorylation site, and Lys-507, the putative ATP binding site of the a subunit of Torpedo californica Na+/K+-ATPase. Biochim Biophys Acta 1021:157–160
Google Scholar - Pearson WR, Lipman DJ (1988) Improved tools for biological sequence comparison. Proc Natl Acad Sci USA 85:2444–2448
Google Scholar - Poteete AR, Renndell D, Bouvier SE (1992) Functional significance of conserved amino acid residues. Proteins 13:38–40
Google Scholar - Price EM, Rice DA, Lingrel JB (1989) Site-directed mutagenesis of a conserved, extracellular aspartic acid residue affects the ouabain sensitivity of sheep Na,K-ATPase. J Biol Chem 264: 21902–21906
Google Scholar - Price EM, Rice DA, Lingrel JB (1990) Structure-function studies of Na-K ATPase. Site-directed mutagenesis of the border residues from the H1-H2 extracellular domain of the alpha subunit. J Biol Chem 265:6638–66641
Google Scholar - Reizer A, Pao GM, Saier MH Jr (1991) Evolutionary relationships among the permease proteins of the bacterial phosphoenolpyruvate: Sugar phosphotransferase system. Construction of phylogenetic trees and possible relatedness to proteins of eukaryotic mitochondria. J Mol Evol 33:179–193
Google Scholar - Saier MH Jr, Fagan MJ, Hoischen C, Reizer J (1993) Transport mechanisms in gram-positive bacteria. In Bacillus subtilis and other gram-positive bacteria: physiology, biochemistry and molecular genetics. Sonenshein AL (ed) ASM Press, Metals Park, OH, pp 133–156
Google Scholar - Saier MH Jr, Reizer J (1990) Domain shuffling during evolution of the proteins of the bacterial phosphotransferase system. Res Microbiol 141:1033–1038
Google Scholar - Saier MH Jr, Reizer J (1991) Families and superfamilies of transport proteins common to prokaryotes and eukaryotes. Curr Opin Struct Biol 1:362–368
Google Scholar - Serrano R, Portillo F (1990) Catalytic and regulatory sites of yeast plasma membrane H+-ATPase studied by directed mutagenesis. Bichem Biophys Acta 1018:195–199
Google Scholar - Silver S, Walderhaug M (1992) Gene regulation of plasmid- and chromosome-determined inorganic ion transport in bacteria. Microbiol Revs 56:195–228
Google Scholar - Smith DW (1988) A complete, yet flexible, system for DNA/protein sequence analysis using VAX/VMS computers. Comput Appl Biosci 4:212
Google Scholar - Taylor WR, Green NM (1989) The predicted secondary structures of the nucleotide-binding sites of six cation-transporting ATPases lead to a probable tertiary fold. Eur J Biochem 179: 241–248
Google Scholar - Trandinh CC, Pao GM, Saier MJ Jr (1992) Structural and evolutionary relationships among the immunophilins: Two ubiquitous families of ATP-independent chaperonins. FASEB J 6: 3410–3420
Google Scholar - Verrey F, Kairouz P, Schaerer E, Fuentes P, Geering K, Rossier BC, Kraehenbuhl JP (1989) Primary S of Xenopus laevis Na+K+-ATPase and its localization in A6 kidney cells. Am J Physiol 256:F1034-F1043
Google Scholar - Vilsen B, Andersen JP, MacLennan DH (1991a) Functional consequences of alterations to amino acids located in the hinge domain of the Ca2(+)-ATPase of sarcoplasmic reticulum. J Biol Chem 266:16157–16164
Google Scholar - Vilsen B, Andersen JP, MacLennan DH (1991b) Functional consequences of alterations to hydrophobic amino acids located at the M4S4 boundary of the Ca(2+)-ATPase of sarcoplasmic reticulum. J Biol Chem 266:18839–18845
Google Scholar - Vilsen B, Andersen JP, Clarke DM, MacLennan DH (1989) Functional consequences of proline mutations in the cytoplasmic transmembrane sectors of the Ca2+-ATPase of sarcoplasmic reticulum. J Biol Chem 264:21024–21030
Google Scholar - Vulpe C, Levinson B, Whitney S, Packman S, Gitschnier J (1993) Isolation of a candidate gene for Menkes disease and evidence that it encodes a Cu2+-transporting ATPase. Nature Genetics 3:7–13
Google Scholar - Wang K, Farley RA (1992) Lysine 480 is not an essential residue for ATP binding or hydrolysis by Na,K-ATPase. J Biol Chem 267:3577–3580
Google Scholar