Halobacterium sp. NRC-1

Summary

Alias: Halobacterium sp. (strain NRC-1 / ATCC 700922 / JCM 11081), Halobacterium sp. (strain NRC-1), Halobacterium salinarum NRC-1, Halobacterium salinarum str. NRC-1, Halobacterium salinarum strain NRC-1, Halobacterium sp. ATCC 700922, Halobacterium sp. JCM 11081

Top Publications

  1. Woodson J, Reynolds A, Escalante Semerena J. ABC transporter for corrinoids in Halobacterium sp. strain NRC-1. J Bacteriol. 2005;187:5901-9 pubmed
    ..Halobacterium synthesized cobalamin in a chemically defined medium lacking corrinoid precursors. To the best of our knowledge, this is the first genetic analysis of an archaeal corrinoid transport system...
  2. Leffers H, Gropp F, Lottspeich F, Zillig W, Garrett R. Sequence, organization, transcription and evolution of RNA polymerase subunit genes from the archaebacterial extreme halophiles Halobacterium halobium and Halococcus morrhuae. J Mol Biol. 1989;206:1-17 pubmed
    ..Phylogenetic analyses based on sequence alignments confirmed that the extreme halophiles belong to the archaebacterial kingdom...
  3. Peck R, DasSarma S, Krebs M. Homologous gene knockout in the archaeon Halobacterium salinarum with ura3 as a counterselectable marker. Mol Microbiol. 2000;35:667-76 pubmed
    ..These studies establish an efficient new genetic strategy towards the systematic knockout of genes in an archaeon. ..
  4. Peck R, Echavarri Erasun C, Johnson E, Ng W, Kennedy S, Hood L, et al. brp and blh are required for synthesis of the retinal cofactor of bacteriorhodopsin in Halobacterium salinarum. J Biol Chem. 2001;276:5739-44 pubmed
    ..The level of beta-carotene increased approximately 5.3-fold. The simplest interpretation of these results is that brp and blh encode similar proteins that catalyze or regulate the conversion of beta-carotene to retinal. ..
  5. Ishibashi M, Tokunaga H, Hiratsuka K, Yonezawa Y, Tsurumaru H, Arakawa T, et al. NaCl-activated nucleoside diphosphate kinase from extremely halophilic archaeon, Halobacterium salinarum, maintains native conformation without salt. FEBS Lett. 2001;493:134-8 pubmed
    ..Recombinant nucleoside diphosphate kinase expressed in Escherichia coli requires salt for activation in vitro, but once it acquires the proper folding, it no longer requires the presence of salts for its activity and stability. ..
  6. Peck R, Johnson E, Krebs M. Identification of a lycopene beta-cyclase required for bacteriorhodopsin biogenesis in the archaeon Halobacterium salinarum. J Bacteriol. 2002;184:2889-97 pubmed
    ..Comparative sequence analysis yields a topological model of the protein and provides a plausible evolutionary connection between heterodimeric lycopene cyclases in bacteria and bifunctional lycopene cyclase-phytoene synthases in fungi...
  7. Berquist B, Dassarma S. An archaeal chromosomal autonomously replicating sequence element from an extreme halophile, Halobacterium sp. strain NRC-1. J Bacteriol. 2003;185:5959-66 pubmed
    ..We discuss the finding of a functional haloarchaeal origin in relation to the large number of orc1-cdc6 homologs identified in the genomes of all haloarchaea to date...
  8. Woodson J, Escalante Semerena J. CbiZ, an amidohydrolase enzyme required for salvaging the coenzyme B12 precursor cobinamide in archaea. Proc Natl Acad Sci U S A. 2004;101:3591-6 pubmed publisher
    ..Reasons for the evolution of two distinct pathways for Cbi salvaging in prokaryotes are discussed...
  9. Ohtani N, Yanagawa H, Tomita M, Itaya M. Identification of the first archaeal Type 1 RNase H gene from Halobacterium sp. NRC-1: archaeal RNase HI can cleave an RNA-DNA junction. Biochem J. 2004;381:795-802 pubmed
    ..It is likely that the archaeal Type 1 RNase H plays a role in the removal of the last ribonucleotide of the RNA primer from the Okazaki fragment during DNA replication...

More Information

Publications151 found, 100 shown here

  1. Wang G, Kennedy S, Fasiludeen S, Rensing C, Dassarma S. Arsenic resistance in Halobacterium sp. strain NRC-1 examined by using an improved gene knockout system. J Bacteriol. 2004;186:3187-94 pubmed
    ..We discuss novel aspects of arsenic resistance in this halophilic archaeon and technical improvements in our capability for gene knockouts in the genome...
  2. Müller J, Dassarma S. Genomic analysis of anaerobic respiration in the archaeon Halobacterium sp. strain NRC-1: dimethyl sulfoxide and trimethylamine N-oxide as terminal electron acceptors. J Bacteriol. 2005;187:1659-67 pubmed
    ..Our results clearly establish the genes required for anaerobic respiration using DMSO and TMAO in an archaeon for the first time...
  3. Besir H, Zeth K, Bracher A, Heider U, Ishibashi M, Tokunaga M, et al. Structure of a halophilic nucleoside diphosphate kinase from Halobacterium salinarum. FEBS Lett. 2005;579:6595-600 pubmed
    ..The influence of the His6-tag on the halophilic nature of the enzyme is discussed on the basis of the observed structural properties...
  4. Kish A, DiRuggiero J. Rad50 is not essential for the Mre11-dependent repair of DNA double-strand breaks in Halobacterium sp. strain NRC-1. J Bacteriol. 2008;190:5210-6 pubmed publisher
    ..This is the first identification of a Rad50-independent function for the Mre11 protein, and it represents a shift in the Archaea away from the eukaryotic model of homologous recombination repair of DNA double-strand breaks. ..
  5. Schmid A, Reiss D, Pan M, Koide T, Baliga N. A single transcription factor regulates evolutionarily diverse but functionally linked metabolic pathways in response to nutrient availability. Mol Syst Biol. 2009;5:282 pubmed publisher
    ..Simultaneous analysis of metabolic and gene regulatory network architectures suggests an ongoing process of co-evolution in which TrmB integrates the expression of metabolic enzyme-coding genes of diverse origins...
  6. Busch C, DiRuggiero J. MutS and MutL are dispensable for maintenance of the genomic mutation rate in the halophilic archaeon Halobacterium salinarum NRC-1. PLoS ONE. 2010;5:e9045 pubmed publisher
    ..Mismatch repair is essential for retaining the fidelity of genetic information and defects in this pathway result in the deleterious accumulation of mutations and in hereditary diseases in humans...
  7. Tannous E, Kanaya S. Divalent metal ion-induced folding mechanism of RNase H1 from extreme halophilic archaeon Halobacterium sp. NRC-1. PLoS ONE. 2014;9:e109016 pubmed publisher
    ..A tertiary model of this protein suggests that this protein does not have a quad-aspartate site. We propose that folding of Halo-RNase H1 is induced by binding of divalent metal ion to the quad-aspartate site in a low-salt condition. ..
  8. Wul J, Cai S, Liu H, Hou J, Han J, Zhou J, et al. [Development of PhaP-tagged protein expression and purification systems for extremely halophilic archaea ]. Wei Sheng Wu Xue Bao. 2014;54:998-1009 pubmed
    ..We have also identified the splicing active sites of a haloarchaeal intein, which showed potential for removing the PhaP-tag from the purified proteins. ..
  9. Dassarma S, DasSarma P. Gas Vesicle Nanoparticles for Antigen Display. Vaccines (Basel). 2015;3:686-702 pubmed publisher
    ..Recent improvements in genetic tools for bioengineering of GVNPs are discussed, along with future opportunities and challenges for development of vaccines and other applications. ..
  10. Dutta S, DasSarma P, Dassarma S, Jarori G. Immunogenicity and protective potential of a Plasmodium spp. enolase peptide displayed on archaeal gas vesicle nanoparticles. Malar J. 2015;14:406 pubmed publisher
    ..Future efforts are needed to display multiple antigens with protective properties to improve the performance of the GVNP-based approach. ..
  11. Abdulaeva G, Arseniev A. 1H-15N-NMR studies of bacteriorhodopsin Halobacterium halobium. Conformational dynamics of the four-helical bundle. Eur J Biochem. 1992;210:223-9 pubmed
    ..These results clearly indicate that dynamic processes occur in the four helice bundle. The significance of this, in respect to bacteriorhodopsin functioning, is discussed...
  12. Henderson R, Baldwin J, Ceska T, Zemlin F, Beckmann E, Downing K. Model for the structure of bacteriorhodopsin based on high-resolution electron cryo-microscopy. J Mol Biol. 1990;213:899-929 pubmed publisher
    ..Asp96 is on the pathway from the cytoplasm to the Schiff base and Asp85 is on the pathway from the Schiff base to the extracellular surface...
  13. Katre N, Wolber P, Stoeckenius W, Stroud R. Attachment site(s) of retinal in bacteriorhodopsin. Proc Natl Acad Sci U S A. 1981;78:4068-72 pubmed
    ..This last point severely limits the possible arrangements of the amino acid sequence in the bacteriorhodopsin tertiary structure and clearly distinguishes two models that are consistent with all criteria...
  14. Song S, Inouye S, Kawai M, Fukami Kobayashi K, Go M, Nakazawa A. Cloning and characterization of the gene encoding Halobacterium halobium adenylate kinase. Gene. 1996;175:65-70 pubmed
    ..Although the H. halobium AK belongs to the long-type AK lineage, it is located in an intermediary position between the two lineages of the phylogenetic tree, indicating early divergence of the gene along the long-type lineage. ..
  15. Marg B, Schweimer K, Sticht H, Oesterhelt D. A two-alpha-helix extra domain mediates the halophilic character of a plant-type ferredoxin from halophilic archaea. Biochemistry. 2005;44:29-39 pubmed publisher
    ..salinarum, and the ability to efficiently reconstitute the iron-sulfur cluster only at high salt concentrations...
  16. Smith N, Matheson A, Yaguchi M, Willick G, Nazar R. The 5-S RNA . protein complex from an extreme halophile, Halobacterium cutirubrum. Purification and characterization. Eur J Biochem. 1978;89:501-9 pubmed
    ..Partial amino acid sequence data suggest HL13 is homologous to EL18 and HL19 to EL5. ..
  17. Sass H, B ldt G, Gessenich R, Hehn D, Neff D, Schlesinger R, et al. Structural alterations for proton translocation in the M state of wild-type bacteriorhodopsin. Nature. 2000;406:649-53 pubmed publisher
    ..An enlarged cavity system above Asp 96 is observed, which facilitates the de- and reprotonation of this group by fluctuating water molecules in the last part of the cycle...
  18. Takao M, Kobayashi T, Oikawa A, Yasui A. Tandem arrangement of photolyase and superoxide dismutase genes in Halobacterium halobium. J Bacteriol. 1989;171:6323-9 pubmed
    ..Northern (RNA) hybridization analysis of H. halobium RNA revealed the existence of three transcripts, one of which covered all three ORFs, indicating that photolyase and superoxide dismutase are partly cotranscribed in this bacterium. ..
  19. Barsukov I, Nolde D, Lomize A, Arseniev A. Three-dimensional structure of proteolytic fragment 163-231 of bacterioopsin determined from nuclear magnetic resonance data in solution. Eur J Biochem. 1992;206:665-72 pubmed
    ..Nevertheless, the F and G segments can be packed as in the ECM model and with side-chain conformations consistent with all NMR data in solution...
  20. Ceska T, Henderson R. Analysis of high-resolution electron diffraction patterns from purple membrane labelled with heavy-atoms. J Mol Biol. 1990;213:539-60 pubmed publisher
    ..It may be possible, however, to use the heavy-atom derivative data in difference Fourier calculations in which the presence of a peak would confirm the phases calculated from a model or obtained by electron microscope imaging...
  21. Seehra J, Khorana H. Bacteriorhodopsin precursor. Characterization and its integration into the purple membrane. J Biol Chem. 1984;259:4187-93 pubmed
    ..This suggests that either the processing of the precursor is cotranslational or that the NH2 terminus of the precursor becomes inaccessible to the processing enzyme in the spheroplasts following integration into the membrane. ..
  22. Barsukov I, Abdulaeva G, Arseniev A, Bystrov V. Sequence-specific 1H-NMR assignment and conformation of proteolytic fragment 163-231 of bacterioopsin. Eur J Biochem. 1990;192:321-7 pubmed
  23. Evilia C, Ming X, Dassarma S, Hou Y. Aminoacylation of an unusual tRNA(Cys) from an extreme halophile. RNA. 2003;9:794-801 pubmed
    ..This suggests an adaptation to the highly negatively charged tRNA sugar-phosphate backbone groups that are the key elements of the tertiary core...
  24. Itoh T. Complete nucleotide sequence of the ribosomal 'A' protein operon from the archaebacterium, Halobacterium halobium. Eur J Biochem. 1988;176:297-303 pubmed
    ..The 5'- and 3'-ends of the operon were mapped with nuclease S1. A putative promoter (A+T-rich) and termination signal (T-rich) were found to be present within the 5'- and 3'-flanking sequence. ..
  25. Fujita T, Itoh T. Organization and nucleotide sequence of a gene cluster comprising the translation elongation factor 1 alpha, ribosomal protein S10 and tRNA(Ala) from Halobacterium halobium. Biochem Mol Biol Int. 1995;37:107-15 pubmed
    ..Halobacterial and eukaryotic elongation factor 1 alpha homologues are very similar in sequence and in length and appear to be more closely related to each other than to the eubacterial protein. ..
  26. Ruepp A, M ller H, Lottspeich F, Soppa J. Catabolic ornithine transcarbamylase of Halobacterium halobium (salinarium): purification, characterization, sequence determination, and evolution. J Bacteriol. 1995;177:1129-36 pubmed
    ..The halobacterial cOTCase is more distantly related to the cOTCase than to the anabolic OTCase of P. aeruginosa. It is found in a group with the anabolic OTCases of Bacillus subtilis, P. aeruginosa, and Mycobacterium bovis...
  27. Hou S, Larsen R, Boudko D, Riley C, Karatan E, Zimmer M, et al. Myoglobin-like aerotaxis transducers in Archaea and Bacteria. Nature. 2000;403:540-4 pubmed publisher
    ..These proteins exhibit spectral properties similar to those of myoglobin and trigger aerotactic responses...
  28. Ihara K, Mukohata Y. The ATP synthase of Halobacterium salinarium (halobium) is an archaebacterial type as revealed from the amino acid sequences of its two major subunits. Arch Biochem Biophys. 1991;286:111-6 pubmed
    ..This classification is also demonstrated by a "rooted" phylogenetic tree where halobacteria locate close to other archaebacteria and eukaryotes and distant from eubacteria. ..
  29. Spiridonova V, Akhmanova A, Kagramanova V, Köpke A, Mankin A. Ribosomal protein gene cluster of Halobacterium halobium: nucleotide sequence of the genes coding for S3 and L29 equivalent ribosomal proteins. Can J Microbiol. 1989;35:153-9 pubmed
    ..A tight physical organization suggests that these genes are transcribed as a polycistronic operon. Peculiarities of the protein structure and gene organization are discussed. ..
  30. Schweimer K, Marg B, Oesterhelt D, Rosch P, Sticht H. Sequence-specific 1H, 13C and 15N resonance assignments and secondary structure of [2Fe-2S] ferredoxin from Halobacterium salinarum. J Biomol NMR. 2000;16:347-8 pubmed
  31. Martin Del Campo M, Camacho R, Mateos Díaz J, Müller Santos M, Córdova J, Rodríguez J. Solid-state fermentation as a potential technique for esterase/lipase production by halophilic archaea. Extremophiles. 2015;19:1121-32 pubmed publisher
    ..To the best of our knowledge, this work is the first report on haloarchaea cultivation by SSF aiming biomass and esterase/lipase activity production. ..
  32. Lomize A, Pervushin K, Arseniev A. Spatial structure of (34-65)bacterioopsin polypeptide in SDS micelles determined from nuclear magnetic resonance data. J Biomol NMR. 1992;2:361-72 pubmed
    ..The secondary structure of segment B in micelles is consistent with the high-resolution electron cryomicroscopy model of bacteriorhodopsin (Henderson et al. (1990) J. Mol. Biol., 213, 899-929). ..
  33. Gupta R, Singh B. Phylogenetic analysis of 70 kD heat shock protein sequences suggests a chimeric origin for the eukaryotic cell nucleus. Curr Biol. 1994;4:1104-14 pubmed
    ..Several predictions from the chimeric model are discussed...
  34. Iida T, Iwabuchi T, Ideno A, Suzuki S, Maruyama T. FK506-binding protein-type peptidyl-prolyl cis-trans isomerase from a halophilic archaeum, Halobacterium cutirubrum. Gene. 2000;256:319-26 pubmed
    ..The purified recombinant FKBP showed a weak PPIase activity with a low sensitivity to FK506. This FKBP suppressed aggregation of the unfolded protein. ..
  35. Schobert B, Cupp Vickery J, Hornak V, Smith S, Lanyi J. Crystallographic structure of the K intermediate of bacteriorhodopsin: conservation of free energy after photoisomerization of the retinal. J Mol Biol. 2002;321:715-26 pubmed
  36. Reindel S, Schmidt C, Anem ller S, Matzanke B. Expression and regulation pattern of ferritin-like DpsA in the archaeon Halobacterium Salinarum. Biometals. 2005;18:387-97 pubmed publisher
    ..This protein exhibits features of a non-heme type bacterial ferritin although it shares only little sequence similarity with Ftn from E. coli...
  37. May B, Dennis P. Evolution and regulation of the gene encoding superoxide dismutase from the archaebacterium Halobacterium cutirubrum. J Biol Chem. 1989;264:12253-8 pubmed
    ..In addition to the single copy of the authentic SOD gene, the genome of H. cutirubrum contains a sequence that is very closely related to but does not code for the previously purified SOD of this organism...
  38. May B, Dennis P. Superoxide dismutase from the extremely halophilic archaebacterium Halobacterium cutirubrum. J Bacteriol. 1987;169:1417-22 pubmed
    ..Optimum activity occurs in 2 M KCl; KCl gives about twice as much activity as NaCl over the range of 2 to 4 M. The enzyme appears to be related to those isolated from other archaebacteria but also exhibits several novel features. ..
  39. Ferrando May E, Krah M, Marwan W, Oesterhelt D. The methyl-accepting transducer protein HtrI is functionally associated with the photoreceptor sensory rhodopsin I in the archaeon Halobacterium salinarium. EMBO J. 1993;12:2999-3005 pubmed
  40. Grigorieff N, Ceska T, Downing K, Baldwin J, Henderson R. Electron-crystallographic refinement of the structure of bacteriorhodopsin. J Mol Biol. 1996;259:393-421 pubmed publisher
    ..The ordered and disordered regions of the structure are described by the temperature factor distribution...
  41. Dunn R, McCoy J, Simsek M, Majumdar A, Chang S, RajBhandary U, et al. The bacteriorhodopsin gene. Proc Natl Acad Sci U S A. 1981;78:6744-8 pubmed
    ..Immediately downstream from this structure there is a sequence complementary to the 3' terminus of H. halobium 16S rRNA...
  42. Denda K, Fujiwara T, Seki M, Yoshida M, Fukumori Y, Yamanaka T. Molecular cloning of the cytochrome aa3 gene from the archaeon (Archaebacterium) Halobacterium halobium. Biochem Biophys Res Commun. 1991;181:316-22 pubmed
    ..The consensus sequence in putative metal binding residues is well-conserved also in H. halobium cytochrome aa3. ..
  43. Pfeifer F, Griffig J, Oesterhelt D. The fdx gene encoding the [2Fe--2S] ferredoxin of Halobacterium salinarium (H. halobium). Mol Gen Genet. 1993;239:66-71 pubmed
    ..These similarities prompted a more detailed investigation of the relative positions of the genes in the halobacterial genome...
  44. Ruepp A, Wanner G, Soppa J. A 71-kDa protein from Halobacterium salinarium belongs to a ubiquitous P-loop ATPase superfamily with head-rod-tail structure. Arch Microbiol. 1998;169:1-9 pubmed
    ..salinarium. ..
  45. Faham S, Yang D, Bare E, Yohannan S, Whitelegge J, Bowie J. Side-chain contributions to membrane protein structure and stability. J Mol Biol. 2004;335:297-305 pubmed
    ..4) We find little energetic difference, on average, in the burial of apolar surface or polar surface area, implying that van der Waals packing is the dominant force that drives membrane protein folding...
  46. Kamihira M, Watts A. Functionally relevant coupled dynamic profile of bacteriorhodopsin and lipids in purple membranes. Biochemistry. 2006;45:4304-13 pubmed publisher
    ..These results suggest that motions in the 10s micros correlation regime may be functionally important for the photocycle of bR, and protein-lipid interactions are motionally coupled in this dynamic regime...
  47. Krebs M, RajBhandary U, Khorana H. Nucleotide sequence of ISH11, a new Halobacterium halobium insertion element isolated from the plasmid pGRB1. Nucleic Acids Res. 1990;18:6699 pubmed
  48. Mankin A. The nucleotide sequence of the genes coding for the S19 and L22 equivalent ribosomal proteins from Halobacterium halobium. FEBS Lett. 1989;246:13-6 pubmed
    ..The encoded polypeptides are homologous to the Escherichia coli ribosomal proteins S19 and L22. The two genes constitute part of an operon whose organization is analogous to that of the 'S10' operon of E. coli. ..
  49. Zviaga T, Zozulia S, Gur ev S. [Nucleotide sequence of the archaebacterial mobile genetic element ISH S1]. Bioorg Khim. 1987;13:1351-7 pubmed
  50. Pervushin K, Popov A, Arseniev A. Three-dimensional structure of (1-71)bacterioopsin solubilized in methanol/chloroform and SDS micelles determined by 15N-1H heteronuclear NMR spectroscopy. Eur J Biochem. 1994;219:571-83 pubmed
    ..Zemlin, F., Beckman, E. & Downing, K. H. (1990) J. Mol. Biol. 213, 899-929], we suggested a model for the conformation of C2 in this putative close-packed state. However, no NOE contact between alpha helices was found in either milieu...
  51. Sandler S, Hugenholtz P, Schleper C, DeLong E, Pace N, Clark A. Diversity of radA genes from cultured and uncultured archaea: comparative analysis of putative RadA proteins and their use as a phylogenetic marker. J Bacteriol. 1999;181:907-15 pubmed
    ..Possible explanations are discussed. Finally, signature codons are presented to distinguish among RecA protein family members...
  52. Long S, Salin M. Molecular cloning, sequencing analysis and expression of the catalase-peroxidase gene from Halobacterium salinarum. DNA Seq. 2001;12:39-51 pubmed
    ..The Archaeal catalase-peroxidase gene was expressed in Escherichia coli, and the expressed fusion protein exhibited both catalase and peroxidase activities. ..
  53. Hasegawa Y, Sawaoka N, Kado N, Ochi M, Itoh T. Cloning and sequencing of the homologues of both the bacterial and eukaryotic initiation factor genes (hIF-2 and heIF-2 gamma) from archaeal Halobacterium halobium. Biochem Mol Biol Int. 1998;46:495-507 pubmed
    ..The sequence of hIF-2 shows a strong similarity to the initiation factor IF-2 from Bacteria whereas heIF-2 gamma shows a strong similarity to the initiation factor eIF-2 gamma from Eucarya...
  54. Bleiholder A, Frommherz R, Teufel K, Pfeifer F. Expression of multiple tfb genes in different Halobacterium salinarum strains and interaction of TFB with transcriptional activator GvpE. Arch Microbiol. 2012;194:269-79 pubmed publisher
    ..All TFB proteins tested were able to interact with the transcription activator GvpE involved in gas vesicle formation that thus is able to recruit TFB to the gvp promoter...
  55. Sharma K, Gillum N, Boyd J, SCHMID A. The RosR transcription factor is required for gene expression dynamics in response to extreme oxidative stress in a hypersaline-adapted archaeon. BMC Genomics. 2012;13:351 pubmed publisher
    ..salinarum. We have therefore renamed VNG0258H as RosR, for reactive oxygen species regulator...
  56. Stantial N, Dumpe J, Pietrosimone K, Baltazar F, Crowley D. Transcription-coupled repair of UV damage in the halophilic archaea. DNA Repair (Amst). 2016;41:63-68 pubmed publisher
    ..volcanii. The halophilic archaea likely employ a novel mechanism for TCR in which an as yet unknown coupling factor recognizes the arrested archaeal RNA polymerase complex and recruits certain NER proteins to complete the process. ..
  57. Gerl L, Sumper M. Halobacterial flagellins are encoded by a multigene family. Characterization of five flagellin genes. J Biol Chem. 1988;263:13246-51 pubmed
    ..Based on immunological analysis, the products of the flg A1 and A2 are Fla II and Fla I, respectively...
  58. Betlach M, Friedman J, Boyer H, Pfeifer F. Characterization of a halobacterial gene affecting bacterio-opsin gene expression. Nucleic Acids Res. 1984;12:7949-59 pubmed
    ..The DNA sequences immediately upstream of the bop and the brp genes have significant homologies and there is a short complementary sequence. The role of the brp gene in bacterio-opsin gene expression is unclear...
  59. Rudolph J, Tolliday N, Schmitt C, Schuster S, Oesterhelt D. Phosphorylation in halobacterial signal transduction. EMBO J. 1995;14:4249-57 pubmed
    ..The mechanism of chemo- and phototactic signal transduction in the Archaeon H.salinarium, therefore, is similar to the two-component signaling system known from chemotaxis in the eubacterium E.coli...
  60. Zhang W, Brooun A, Mueller M, Alam M. The primary structures of the Archaeon Halobacterium salinarium blue light receptor sensory rhodopsin II and its transducer, a methyl-accepting protein. Proc Natl Acad Sci U S A. 1996;93:8230-5 pubmed
    ..This paper describes the first example that both HtrI and HtrII exist in the same halobacterial cell, confirming that different sensory rhodopsins SRI and SRII in the same organism have their own distinct transducers...
  61. Lin S, Yan B. Three-dimensional model of sensory rhodopsin I reveals important restraints between the protein and the chromophore. Protein Eng. 1997;10:197-206 pubmed
    ..A possibility is also suggested that conformational changes of the protein provide the signal recognized by the transducer...
  62. Kimura Y, Vassylyev D, Miyazawa A, Kidera A, Matsushima M, Mitsuoka K, et al. Surface of bacteriorhodopsin revealed by high-resolution electron crystallography. Nature. 1997;389:206-11 pubmed publisher
    ..The negative charges produced by these aspartate residues is encircled by areas of positive charge that may facilitate accumulation and lateral movement of protons on this surface...
  63. Brooun A, Bell J, Freitas T, Larsen R, Alam M. An archaeal aerotaxis transducer combines subunit I core structures of eukaryotic cytochrome c oxidase and eubacterial methyl-accepting chemotaxis proteins. J Bacteriol. 1998;180:1642-6 pubmed
    ..We also demonstrate that HtrVIII is a methyl-accepting protein and demethylates during the aerotaxis response...
  64. Luecke H, Richter H, Lanyi J. Proton transfer pathways in bacteriorhodopsin at 2.3 angstrom resolution. Science. 1998;280:1934-7 pubmed
    ..The nearby Arg82 is the center of a network of numerous hydrogen-bonded residues and an ordered water molecule. This network defines the pathway of the proton from the buried Schiff base to the extracellular surface...
  65. Whitelegge J, Gundersen C, Faull K. Electrospray-ionization mass spectrometry of intact intrinsic membrane proteins. Protein Sci. 1998;7:1423-30 pubmed publisher
    ..The apparent retention of structure by bacteriorhodopsin during the analysis raises the potential of obtaining tertiary structure information using more developed ESI-MS experiments...
  66. Takeda K, Sato H, Hino T, Kono M, Fukuda K, Sakurai I, et al. A novel three-dimensional crystal of bacteriorhodopsin obtained by successive fusion of the vesicular assemblies. J Mol Biol. 1998;283:463-74 pubmed publisher
    ..The present result offers a unique crystallization method that may be applicable to such membrane proteins that are liable to denature in the presence of an excess amount of detergent...
  67. Lanyi J, Schobert B. Mechanism of proton transport in bacteriorhodopsin from crystallographic structures of the K, L, M1, M2, and M2' intermediates of the photocycle. J Mol Biol. 2003;328:439-50 pubmed
    ..The changes provide rationales for how relaxation of the distorted retinal causes movements of water and protein atoms that result in vectorial proton transfers to and from the Schiff base...
  68. Schobert B, Brown L, Lanyi J. Crystallographic structures of the M and N intermediates of bacteriorhodopsin: assembly of a hydrogen-bonded chain of water molecules between Asp-96 and the retinal Schiff base. J Mol Biol. 2003;330:553-70 pubmed
    ..This suggests that the hydration of the cytoplasmic region we observe in N' might have occurred spontaneously, beginning at an existing water molecule as nucleus, in the cavities from residue rearrangements in the photocycle...
  69. Edman K, Royant A, Larsson G, Jacobson F, Taylor T, van der Spoel D, et al. Deformation of helix C in the low temperature L-intermediate of bacteriorhodopsin. J Biol Chem. 2004;279:2147-58 pubmed publisher
    ..Implications regarding the structural mechanism for proton pumping by bacteriorhodopsin are discussed...
  70. Kouyama T, Nishikawa T, Tokuhisa T, Okumura H. Crystal structure of the L intermediate of bacteriorhodopsin: evidence for vertical translocation of a water molecule during the proton pumping cycle. J Mol Biol. 2004;335:531-46 pubmed
    ..On the basis of these observations, we argue that the vertical movement of a water molecule in the K-to-L transition is a key event determining the directionality of proton translocation in the protein...
  71. Ruan B, Bovee M, Sacher M, Stathopoulos C, Poralla K, Francklyn C, et al. A unique hydrophobic cluster near the active site contributes to differences in borrelidin inhibition among threonyl-tRNA synthetases. J Biol Chem. 2005;280:571-7 pubmed publisher
    ..g. Helicobacter pylori). This study illustrates how one class of natural product inhibitors affects aminoacyl-tRNA synthetase function, providing potentially useful information for structure-based inhibitor design...
  72. Faham S, Boulting G, Massey E, Yohannan S, Yang D, Bowie J. Crystallization of bacteriorhodopsin from bicelle formulations at room temperature. Protein Sci. 2005;14:836-40 pubmed publisher
    ..The ability to grow crystals at room temperature significantly expands the applicability of bicelle crystallization...
  73. Ingoldsby L, Geoghegan K, Hayden B, Engel P. The discovery of four distinct glutamate dehydrogenase genes in a strain of Halobacterium salinarum. Gene. 2005;349:237-44 pubmed publisher
    ..This establishes that NRC-36014 contains four gdh genes...
  74. Sasaki J, Phillips B, Chen X, Van Eps N, Tsai A, Hubbell W, et al. Different dark conformations function in color-sensitive photosignaling by the sensory rhodopsin I-HtrI complex. Biophys J. 2007;92:4045-53 pubmed publisher
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