Genomes and Genes
Experts and Doctors on bacterial proteins in Piscataway, New Jersey, United States
Locale: Piscataway, New Jersey, United States
Topic: bacterial proteins
- Kuznedelov K, Semenova E, Knappe T, Mukhamedyarov D, Srivastava A, Chatterjee S, et al. The antibacterial threaded-lasso peptide capistruin inhibits bacterial RNA polymerase. J Mol Biol. 2011;412:842-8 pubmed publisher..The results indicate that the structural similarity of capistruin and MccJ25 reflects functional similarity and suggest that the functional target of capistruin, and possibly other threaded-lasso peptides, is bacterial RNAP. ..
- Yu Z, Brodsky B, Inouye M. Dissecting a bacterial collagen domain from Streptococcus pyogenes: sequence and length-dependent variations in triple helix stability and folding. J Biol Chem. 2011;286:18960-8 pubmed publisher..These results indicate that the thermostability of the bacterial collagen is dominated by the most stable domain in the same manner as found with eukaryotic collagens. ..
- Robinson V, Wu T, Stock A. Structural analysis of the domain interface in DrrB, a response regulator of the OmpR/PhoB subfamily. J Bacteriol. 2003;185:4186-94 pubmed
- Phadtare S, Inouye M. Genome-wide transcriptional analysis of the cold shock response in wild-type and cold-sensitive, quadruple-csp-deletion strains of Escherichia coli. J Bacteriol. 2004;186:7007-14 pubmed..Relevance of these findings with respect to the known RNA chaperone function of CspA homologues is discussed. ..
- Yamaguchi K, Inouye M. Lipoprotein 28, an inner membrane protein of Escherichia coli encoded by nlpA, is not essential for growth. J Bacteriol. 1988;170:3747-9 pubmed..No discernible differences between the wild type and the deletion strain were observed in terms of cell morphology and sensitivity to various chemicals, except for kanamycin. ..
- Xia B, Ke H, Jiang W, Inouye M. The Cold Box stem-loop proximal to the 5'-end of the Escherichia coli cspA gene stabilizes its mRNA at low temperature. J Biol Chem. 2002;277:6005-11 pubmed
- Chen H, Tang H, Ebright R. Functional interaction between RNA polymerase alpha subunit C-terminal domain and sigma70 in UP-element- and activator-dependent transcription. Mol Cell. 2003;11:1621-33 pubmed
- Mukhopadhyay J, Das K, Ismail S, Koppstein D, Jang M, Hudson B, et al. The RNA polymerase "switch region" is a target for inhibitors. Cell. 2008;135:295-307 pubmed publisher..The RNAP switch region is an attractive target for identification of new broad-spectrum antibacterial therapeutic agents...
- Yoshida T, Cai S, Inouye M. Interaction of EnvZ, a sensory histidine kinase, with phosphorylated OmpR, the cognate response regulator. Mol Microbiol. 2002;46:1283-94 pubmed..These findings support the hypothesis that osmotic signals regulate the level of the cellular concentration of OmpR-P by modulating the ratio of kinase to phosphatase activity of the bifunctional enzymatic activities of EnvZ. ..
- Messina T, Talaga D. Protein free energy landscapes remodeled by ligand binding. Biophys J. 2007;93:579-85 pubmed..These results and their implications are discussed in terms of the two types of specific and nonspecific interactions GGBP has with cytoplasmic membrane proteins. ..
- Bogdanova E, Zakharova M, Streeter S, Taylor J, Heyduk T, Kneale G, et al. Transcription regulation of restriction-modification system Esp1396I. Nucleic Acids Res. 2009;37:3354-66 pubmed publisher..Instead, symmetry-related elements outside of these repeats appear to be critical for the interaction and are discussed in terms of the recent crystal structure of C.Esp139I bound to the CR promoter. ..
- Qin L, Dutta R, Kurokawa H, Ikura M, Inouye M. A monomeric histidine kinase derived from EnvZ, an Escherichia coli osmosensor. Mol Microbiol. 2000;36:24-32 pubmed
- Lerner C, Inouye M. Pleiotropic changes resulting from depletion of Era, an essential GTP-binding protein in Escherichia coli. Mol Microbiol. 1991;5:951-7 pubmed..Thus, in addition to inhibition of cell growth and viability, loss of Era function results in pleiotropic changes including abnormal adaptation to thermal stress. ..
- Yoshida T, Qin L, Inouye M. Formation of the stoichiometric complex of EnvZ, a histidine kinase, with its response regulator, OmpR. Mol Microbiol. 2002;46:1273-82 pubmed..On the basis of these results, a model is discussed to explain how cellular OmpR-P concentrations are regulated in response to medium osmolarity. ..
- Leonard P, Bezar I, Sidote D, Stock A. Identification of a hydrophobic cleft in the LytTR domain of AgrA as a locus for small molecule interactions that inhibit DNA binding. Biochemistry. 2012;51:10035-43 pubmed publisher..Three of these compounds inhibit AgrA DNA binding. These results provide the first evidence that LytTR domains can be targeted by small organic compounds. ..
- Yoshida T, Phadtare S, Inouye M. Functional and structural characterization of EnvZ, an osmosensing histidine kinase of E. coli. Methods Enzymol. 2007;423:184-202 pubmed..In this chapter, we describe functional and structural studies of EnvZc, which can be applied to characterize other histidine kinases. ..
- Phadtare S, Inouye M. Sequence-selective interactions with RNA by CspB, CspC and CspE, members of the CspA family of Escherichia coli. Mol Microbiol. 1999;33:1004-14 pubmed..This motif is the putative CspE-mediated transcription pause recognition site in a 5'-untranslated region of the cspA mRNA. ..
- Sood P, Lerner C, Shimamoto T, Lu Q, Inouye M. Characterization of the autophosphorylation of Era, an essential Escherichia coli GTPase. Mol Microbiol. 1994;12:201-8 pubmed..Therefore, Era autophosphorylation is likely to play an important physiological role in the cell.(ABSTRACT TRUNCATED AT 250 WORDS) ..
- Yoshida T, Phadtare S, Inouye M. The design and development of Tar-EnvZ chimeric receptors. Methods Enzymol. 2007;423:166-83 pubmed..This chapter describes methods for designing chimeric proteins between a histidine kinase of interest and the Tar receptor and applications of the chimeric protein. ..
- Srinivasan B, Forouhar F, Shukla A, Sampangi C, Kulkarni S, Abashidze M, et al. Allosteric regulation and substrate activation in cytosolic nucleotidase II from Legionella pneumophila. FEBS J. 2014;281:1613-1628 pubmed publisher..LpcN-II and LpcN-II bind by molecular sieving (View interaction) LpcN-II and LpcN-II bind by x-ray crystallography (View interaction) [Structured digital abstract was added on 5 March 2014 after original online publication]. ..
- Fang L, Xia B, Inouye M. Transcription of cspA, the gene for the major cold-shock protein of Escherichia coli, is negatively regulated at 37 degrees C by the 5'-untranslated region of its mRNA. FEMS Microbiol Lett. 1999;176:39-43 pubmed
- Nariya H, Inouye S. Modulating factors for the Pkn4 kinase cascade in regulating 6-phosphofructokinase in Myxococcus xanthus. Mol Microbiol. 2005;56:1314-28 pubmed..These results indicate that there are complex PSTK networks in M. xanthus that share common modulating factors...
- McNeely K, Xu Y, Bennette N, Bryant D, Dismukes G. Redirecting reductant flux into hydrogen production via metabolic engineering of fermentative carbon metabolism in a cyanobacterium. Appl Environ Microbiol. 2010;76:5032-8 pubmed publisher..Together with the unimpaired photoautotrophic growth of the ldhA mutant, these attributes reveal that metabolic engineering is an effective strategy to enhance H(2) production in AMOPs without compromising viability. ..
- Etchegaray J, Jones P, Inouye M. Differential thermoregulation of two highly homologous cold-shock genes, cspA and cspB, of Escherichia coli. Genes Cells. 1996;1:171-8 pubmed..These features are considered to contribute to the nature of the thermostats for cspA and cspB. ..
- Lawson C, Benoff B, Berger T, Berman H, Carey J. E. coli trp repressor forms a domain-swapped array in aqueous alcohol. Structure. 2004;12:1099-108 pubmed..Small angle X-ray scattering measurements show that the self-association properties of trpR in solution are fundamentally altered by isopropanol. ..
- Lin W, Mandal S, Degen D, Liu Y, Ebright Y, Li S, et al. Structural Basis of Mycobacterium tuberculosis Transcription and Transcription Inhibition. Mol Cell. 2017;66:169-179.e8 pubmed publisher..AAPs bind to a different site on Mtb RNAP than Rif, exhibit no cross-resistance with Rif, function additively when co-administered with Rif, and suppress resistance emergence when co-administered with Rif. ..
- Rossi P, Barbieri C, Aramini J, Bini E, Lee H, Janjua H, et al. Structures of apo- and ssDNA-bound YdbC from Lactococcus lactis uncover the function of protein domain family DUF2128 and expand the single-stranded DNA-binding domain proteome. Nucleic Acids Res. 2013;41:2756-68 pubmed publisher..The DUF2128 family is related to the eukaryotic nuclear protein positive cofactor 4 (PC4) family and to the PUR family both by fold similarity and molecular function...
- Jones P, Mitta M, Kim Y, Jiang W, Inouye M. Cold shock induces a major ribosomal-associated protein that unwinds double-stranded RNA in Escherichia coli. Proc Natl Acad Sci U S A. 1996;93:76-80 pubmed..Therefore, the requirement for CsdA in derepression of heat-shock protein synthesis is a cold shock-induced function possibly mediated by destabilization of secondary structures previously identified in the rpoH mRNA. ..
- Kuznedelov K, Minakhin L, Niedziela Majka A, Dove S, Rogulja D, Nickels B, et al. A role for interaction of the RNA polymerase flap domain with the sigma subunit in promoter recognition. Science. 2002;295:855-7 pubmed..Because the flexible flap is evolutionarily conserved, this domain may facilitate promoter recognition by specificity factors in eukaryotes as well. ..
- Robinson V, Hwang J, Fox E, Inouye M, Stock A. Domain arrangement of Der, a switch protein containing two GTPase domains. Structure. 2002;10:1649-58 pubmed..In contrast, the GD2-KH domain interface is distal to the GDP binding site of GD2...
- Bao X, Nickels B, Fan H. Chlamydia trachomatis protein GrgA activates transcription by contacting the nonconserved region of ?66. Proc Natl Acad Sci U S A. 2012;109:16870-5 pubmed publisher..trachomatis. Furthermore, because GrgA is present only in chlamydiae, our findings highlight how nonconserved regions of the bacterial RNA polymerase can be targets of regulatory factors that are unique to particular organisms...
- Gollop N, March P. Localization of the membrane binding sites of Era in Escherichia coli. Res Microbiol. 1991;142:301-7 pubmed..In addition, Era occurs in patches that may correspond to areas that are potential sites of septation. ..
- Phadtare S, Hwang J, Severinov K, Inouye M. CspB and CspL, thermostable cold-shock proteins from Thermotoga maritima. Genes Cells. 2003;8:801-10 pubmed..maritima. We propose that the observed properties of TmCsps are physiologically relevant and that TmCsps are important for adaptation of T. maritima to physiologically low temperatures. ..
- Jones P, Inouye M. RbfA, a 30S ribosomal binding factor, is a cold-shock protein whose absence triggers the cold-shock response. Mol Microbiol. 1996;21:1207-18 pubmed..The data also indicate that cold-shock proteins can be translated by ribosomes under conditions that are not translatable for most mRNAs. ..
- Djordjevic S, Goudreau P, Xu Q, Stock A, West A. Structural basis for methylesterase CheB regulation by a phosphorylation-activated domain. Proc Natl Acad Sci U S A. 1998;95:1381-6 pubmed..Comparison between CheB and other response regulators indicates that analogous surfaces are used for different functions and conversely, similar functions are mediated by different molecular surfaces. ..
- Fang L, Jiang W, Bae W, Inouye M. Promoter-independent cold-shock induction of cspA and its derepression at 37 degrees C by mRNA stabilization. Mol Microbiol. 1997;23:355-64 pubmed..The presented results also demonstrate that the cspA gene is constitutively transcribed at all temperatures; however, its expression at 37 degrees C is prevented by destabilizing its mRNA. ..
- Kuznedelov K, Lamour V, Patikoglou G, Chlenov M, Darst S, Severinov K. Recombinant Thermus aquaticus RNA polymerase for structural studies. J Mol Biol. 2006;359:110-21 pubmed publisher..1Angstroms resolution) of one of the recombinant mutants revealed a previously unobserved conformation of the beta-flap, further defining the range of conformations accessible to this flexible structural element...
- Gao R, Tao Y, Stock A. System-level mapping of Escherichia coli response regulator dimerization with FRET hybrids. Mol Microbiol. 2008;69:1358-72 pubmed publisher..Weak hetero-pair interactions were also identified between several different RRs, suggesting potential cross-regulation between distinct pathways. ..
- Fang L, Hou Y, Inouye M. Role of the cold-box region in the 5' untranslated region of the cspA mRNA in its transient expression at low temperature in Escherichia coli. J Bacteriol. 1998;180:90-5 pubmed
- Locasale J, Napoli A, Chen S, Berman H, Lawson C. Signatures of protein-DNA recognition in free DNA binding sites. J Mol Biol. 2009;386:1054-65 pubmed..Together, our findings show that crystal structures of free DNA binding sites provide new information about the nature of protein-DNA interactions and thus lend insights towards a structural code for DNA recognition. ..
- Yoshida T, Qin L, Egger L, Inouye M. Transcription regulation of ompF and ompC by a single transcription factor, OmpR. J Biol Chem. 2006;281:17114-23 pubmed
- Mack T, Gao R, Stock A. Probing the roles of the two different dimers mediated by the receiver domain of the response regulator PhoB. J Mol Biol. 2009;389:349-64 pubmed publisher..Together, these results support a model of activation of PhoB in which phosphorylation promotes dimerization via the alpha 4-beta 5-alpha 5 face, which enhances DNA binding and thus the ability of PhoB to regulate transcription. ..
- Perez E, Zheng H, Stock A. Identification of methylation sites in Thermotoga maritima chemotaxis receptors. J Bacteriol. 2006;188:4093-100 pubmed publisher..coli and S. enterica. These findings suggest that consensus sequences for posttranslational modifications in one organism may not be directly extrapolated to analogous modifications in other bacteria...
- Tan Q, Awano N, Inouye M. YeeV is an Escherichia coli toxin that inhibits cell division by targeting the cytoskeleton proteins, FtsZ and MreB. Mol Microbiol. 2011;79:109-18 pubmed publisher..The YeeV toxin is distinct from other well-studied toxins: it directs the binding of two cytoskeletal proteins and inhibits FtsZ and MreB simultaneously. ..
- March P. Membrane-associated GTPases in bacteria. Mol Microbiol. 1992;6:1253-7 pubmed..In spite of similarities to well-studied eukaryotic proteins the signalling pathways of these cellular regulators, with the exception of NodQ, have not yet been elucidated. ..
- Masuda H, Tan Q, Awano N, Wu K, Inouye M. YeeU enhances the bundling of cytoskeletal polymers of MreB and FtsZ, antagonizing the CbtA (YeeV) toxicity in Escherichia coli. Mol Microbiol. 2012;84:979-89 pubmed publisher..Here we propose to rename YeeU as CbeA for cytoskeleton bundling-enhancing factor A. ..
- Yamanaka K, Inouye M. Selective mRNA degradation by polynucleotide phosphorylase in cold shock adaptation in Escherichia coli. J Bacteriol. 2001;183:2808-16 pubmed
- Zhu Y, Kobayashi T, Lampen J. A hypothetical protein (P20), homologous to Tn3 repressor is encoded downstream from the bla regulatory region in Bacillus licheniformis 749. Nucleic Acids Res. 1988;16:5691 pubmed
- Etchegaray J, Inouye M. A sequence downstream of the initiation codon is essential for cold shock induction of cspB of Escherichia coli. J Bacteriol. 1999;181:5852-4 pubmed..We propose that the DB sequence functions as a translational enhancer for the biosynthesis of CspB to bypass the inhibitory effect in translation caused by cold shock. ..
- Jones P, Inouye M. The cold-shock response--a hot topic. Mol Microbiol. 1994;11:811-8 pubmed..In addition to E. coli, cold-shock proteins have also been found in other prokaryotic and eukaryotic organisms. ..
- Feng W, Tejero R, Zimmerman D, Inouye M, Montelione G. Solution NMR structure and backbone dynamics of the major cold-shock protein (CspA) from Escherichia coli: evidence for conformational dynamics in the single-stranded RNA-binding site. Biochemistry. 1998;37:10881-96 pubmed publisher..88 +/- 0.04 ns and provide evidence for fast time scale (taue < 500 ps) dynamics in surface loops and motions on the microsecond to millisecond time scale within the proposed nucleic acid-binding epitope...
- Zakharova N, Hoffman P, Berg D, Severinov K. The largest subunits of RNA polymerase from gastric helicobacters are tethered. J Biol Chem. 1998;273:19371-4 pubmed..We propose that the unique organization of rpoB and rpoC in H. pylori may contribute to its ability to colonize the human gastric mucosa...
- Djordjevic S, Stock A. Chemotaxis receptor recognition by protein methyltransferase CheR. Nat Struct Biol. 1998;5:446-50 pubmed..The structure indicates the basis for the specificity of interaction between the chemoreceptors and CheR and identifies a specific receptor binding motif incorporated in the CheR methyltransferase domain. ..
- Xia B, Ke H, Inouye M. Acquirement of cold sensitivity by quadruple deletion of the cspA family and its suppression by PNPase S1 domain in Escherichia coli. Mol Microbiol. 2001;40:179-88 pubmed
- Goldstein J, Pollitt N, Inouye M. Major cold shock protein of Escherichia coli. Proc Natl Acad Sci U S A. 1990;87:283-7 pubmed..We have cloned the gene encoding this protein and have completed the nucleotide sequence analysis, which revealed that the gene encodes a hydrophilic protein of 70 amino acid residues...
- Zhu Y, Curran I, Joris B, Ghuysen J, Lampen J. Identification of BlaR, the signal transducer for beta-lactamase production in Bacillus licheniformis, as a penicillin-binding protein with strong homology to the OXA-2 beta-lactamase (class D) of Salmonella typhimurium. J Bacteriol. 1990;172:1137-41 pubmed..The BlaR-beta-lactam complex is stable and may provide the continuing stimulus needed for the prolonged production of the enzyme. ..
- Skizim N, Ananyev G, Krishnan A, Dismukes G. Metabolic pathways for photobiological hydrogen production by nitrogenase- and hydrogenase-containing unicellular cyanobacteria Cyanothece. J Biol Chem. 2012;287:2777-86 pubmed publisher..Comparison of photobiological hydrogen rates, yields, and energy conversion efficiencies reveals opportunities for improvement...
- Lee S, Xie A, Jiang W, Etchegaray J, Jones P, Inouye M. Family of the major cold-shock protein, CspA (CS7.4), of Escherichia coli, whose members show a high sequence similarity with the eukaryotic Y-box binding proteins. Mol Microbiol. 1994;11:833-9 pubmed..A similar cold-shock induction to cspA was observed for cspB but not cspC and cspD. These results indicate that E. coli has a family of the cspA gene, some of which are induced by cold shock. ..
- Stock A, Martinez Hackert E, Rasmussen B, West A, Stock J, Ringe D, et al. Structure of the Mg(2+)-bound form of CheY and mechanism of phosphoryl transfer in bacterial chemotaxis. Biochemistry. 1993;32:13375-80 pubmed..The Mg2+ coordination geometry provides insights to the mechanism of phosphoryl transfer. ..
- Jiang W, Fang L, Inouye M. The role of the 5'-end untranslated region of the mRNA for CspA, the major cold-shock protein of Escherichia coli, in cold-shock adaptation. J Bacteriol. 1996;178:4919-25 pubmed..CspA appears to promote either directly or indirectly the repressor function. ..
- Gao R, Godfrey K, Sufian M, Stock A. Counterbalancing Regulation in Response Memory of a Positively Autoregulated Two-Component System. J Bacteriol. 2017;199: pubmed publisher..Modeling allows prediction of response behavior in different scenarios and demonstrates both the robustness of the system output and its sensitivity to historical parameters such as timing and levels of exposure to stimuli. ..
- Bae W, Jones P, Inouye M. CspA, the major cold shock protein of Escherichia coli, negatively regulates its own gene expression. J Bacteriol. 1997;179:7081-8 pubmed..The mRNA stabilization in the deltacspA strain was observed for other mRNAs, supporting the notion that CspA functions as an mRNA chaperone to destabilize secondary structures in mRNAs. ..
- Yamanaka K, Fang L, Inouye M. The CspA family in Escherichia coli: multiple gene duplication for stress adaptation. Mol Microbiol. 1998;27:247-55 pubmed..The E. coli CspA family will be discussed in terms of their structures and functions, and their gene structures and regulation. ..
- Wang N, Yamanaka K, Inouye M. CspI, the ninth member of the CspA family of Escherichia coli, is induced upon cold shock. J Bacteriol. 1999;181:1603-9 pubmed
- Swigon D, Coleman B, Olson W. Modeling the Lac repressor-operator assembly: the influence of DNA looping on Lac repressor conformation. Proc Natl Acad Sci U S A. 2006;103:9879-84 pubmed
- Phadtare S, Alsina J, Inouye M. Cold-shock response and cold-shock proteins. Curr Opin Microbiol. 1999;2:175-80 pubmed
- Harrold J, Woronowicz K, Lamptey J, Awong J, BAIRD J, Moshar A, et al. Functional interfacing of Rhodospirillum rubrum chromatophores to a conducting support for capture and conversion of solar energy. J Phys Chem B. 2013;117:11249-59 pubmed publisher..This study demonstrates the possibility of photoelectrochemical control of robust chromatophore preparations from Rsp. rubrum that paves the way for future incorporation into functional solar cells. ..
- Wang N, Yamanaka K, Inouye M. Acquisition of double-stranded DNA-binding ability in a hybrid protein between Escherichia coli CspA and the cold shock domain of human YB-1. Mol Microbiol. 2000;38:526-34 pubmed..These results indicate that the loop region between the beta3 and beta4 strands of Y-box proteins, which is a little longer and more basic than that of CspA, plays an important role in their binding to dsDNA. ..
- Zhang Y, Zhang J, Hoeflich K, Ikura M, Qing G, Inouye M. MazF cleaves cellular mRNAs specifically at ACA to block protein synthesis in Escherichia coli. Mol Cell. 2003;12:913-23 pubmed..The role of such endoribonucleases may have broad implication in cell physiology under various growth conditions...
- Gennity J, Kim H, Inouye M. Structural determinants in addition to the amino-terminal sorting sequence influence membrane localization of Escherichia coli lipoproteins. J Bacteriol. 1992;174:2095-101 pubmed..Therefore, structural determinants in addition to the amino-terminal sorting sequence influence the membrane localization of lipoproteins. ..
- Aramini J, Rossi P, Fischer M, Xiao R, Acton T, Montelione G. Solution NMR structure of VF0530 from Vibrio fischeri reveals a nucleic acid-binding function. Proteins. 2011;79:2988-91 pubmed publisher..Moreover, gel shift binding data indicate a potential dsDNA binding role for VF0530. ..
- Sullivan R, Santarpia P, Lavender S, Gittins E, Liu Z, Anderson M, et al. Clinical efficacy of a specifically targeted antimicrobial peptide mouth rinse: targeted elimination of Streptococcus mutans and prevention of demineralization. Caries Res. 2011;45:415-28 pubmed publisher..mutans, lactic acid production, and enamel demineralization. The impact on total plaque bacteria was minimal. These results suggest that C16G2 is effective against S. mutans in vivo and should be evaluated further in the clinic. ..
- Nariya H, Inouye M. MazF, an mRNA interferase, mediates programmed cell death during multicellular Myxococcus development. Cell. 2008;132:55-66 pubmed publisher..Transcription of mrpC and mazF is negatively regulated via MrpC phosphorylation by a Ser/Thr kinase cascade. These findings reveal the regulated deployment of a toxin gene for developmental programmed cell death in bacteria...
- Xia B, Etchegaray J, Inouye M. Nonsense mutations in cspA cause ribosome trapping leading to complete growth inhibition and cell death at low temperature in Escherichia coli. J Biol Chem. 2001;276:35581-8 pubmed..Our system may offer a novel means to study sequence or structural elements involved in the translation of the cspA mRNA and may also be utilized to regulate bacterial growth at low temperature. ..
- Yamanaka K, Hwang J, Inouye M. Characterization of GTPase activity of TrmE, a member of a novel GTPase superfamily, from Thermotoga maritima. J Bacteriol. 2000;182:7078-82 pubmed..3 min(-1), respectively. Our results indicate that TrmE is a GTP-binding protein with a very high intrinsic GTP hydrolysis rate. We also propose that TrmE homologues constitute a novel subfamily of the GTPase superfamily...
- Stock A, Robinson V, Goudreau P. Two-component signal transduction. Annu Rev Biochem. 2000;69:183-215 pubmed..Thus detailed analyses of a relatively small number of representative proteins provide a foundation for understanding this large family of signaling proteins. ..
- Mart nez Hackert E, Stock A. The DNA-binding domain of OmpR: crystal structures of a winged helix transcription factor. Structure. 1997;5:109-24 pubmed..The structure of OmpRc could be useful in helping to define the positioning of the alpha subunit of RNA polymerase in relation to transcriptional activators that are bound to DNA...
- Shimamoto T, Inouye M. Mutational analysis of Era, an essential GTP-binding protein of Escherichia coli. FEMS Microbiol Lett. 1996;136:57-62 pubmed..However, the Km values for GTPase activity increased 5- and 12-fold for dE and T42A/T43A mutants, respectively. These results indicate that both the GTP-binding and GTPase activities are important for the Era function. ..
- Lee P, Stock A. Characterization of the genes and proteins of a two-component system from the hyperthermophilic bacterium Thermotoga maritima. J Bacteriol. 1996;178:5579-85 pubmed..The phosphorylation reactions were strongly temperature dependent. The results indicate that the recombinant T. maritima two-component proteins overexpressed in E. coli are stable as well as enzymatically active at elevated temperatures...
- Perez E, Stock A. Characterization of the Thermotoga maritima chemotaxis methylation system that lacks pentapeptide-dependent methyltransferase CheR:MCP tethering. Mol Microbiol. 2007;63:363-78 pubmed
- Qin L, Cai S, Zhu Y, Inouye M. Cysteine-scanning analysis of the dimerization domain of EnvZ, an osmosensing histidine kinase. J Bacteriol. 2003;185:3429-35 pubmed..The results indicate that some mutations are specific either for the phosphatase activity or for the kinase activity. ..
- Buckler D, Zhou Y, Stock A. Evidence of intradomain and interdomain flexibility in an OmpR/PhoB homolog from Thermotoga maritima. Structure. 2002;10:153-64 pubmed..The lack of an extensive interface in the unphosphorylated protein distinguishes DrrD from other structurally characterized multidomain RRs and suggests a different mode of interdomain regulation...
- Newkirk K, Feng W, Jiang W, Tejero R, Emerson S, Inouye M, et al. Solution NMR structure of the major cold shock protein (CspA) from Escherichia coli: identification of a binding epitope for DNA. Proc Natl Acad Sci U S A. 1994;91:5114-8 pubmed..These isotope-edited pulsed-field gradient NMR data provide a low-resolution mapping of a DNA-binding epitope on CspA...