Genomes and Genes
Experts and Doctors on binding sites in Germany
Topic: binding sites
Publications357 found, 100 shown here
- Breves R, Bronnenmeier K, Wild N, Lottspeich F, Staudenbauer W, Hofemeister J. Genes encoding two different beta-glucosidases of Thermoanaerobacter brockii are clustered in a common operon. Appl Environ Microbiol. 1997;63:3902-10 pubmed..The cglT gene was also expressed in Bacillus subtilis, and the enzyme was mainly intracellular during exponential growth but was efficiently released into the supernatant after cultures entered the stationary phase...
- Hock B, Böhme B, Karn T, Feller S, Rübsamen Waigmann H, Strebhardt K. Tyrosine-614, the major autophosphorylation site of the receptor tyrosine kinase HEK2, functions as multi-docking site for SH2-domain mediated interactions. Oncogene. 1998;17:255-60 pubmed..The conservation of this predicted binding site among various EPH-related RTKs provides evidence that Fyn, Crk and rasGAP are key players in signal transduction of at least a subset of these receptors. ..
- Knoblauch N, Rudiger S, Schönfeld H, Driessen A, Schneider Mergener J, Bukau B. Substrate specificity of the SecB chaperone. J Biol Chem. 1999;274:34219-25 pubmed..SecB may rather be a general chaperone whose involvement in translocation is mediated by interactions of SecB and signal sequences of SecB-bound preproteins with the translocation apparatus. ..
- Caramel A, Schnetz K. Antagonistic control of the Escherichia coli bgl promoter by FIS and CAP in vitro. Mol Microbiol. 2000;36:85-92 pubmed..These results suggest that FIS contributes to silencing of the wild-type bgl promoter in vivo, presumably in the early exponential phase when FIS is predominantly expressed. ..
- Deibert M, Grazulis S, Sasnauskas G, Siksnys V, Huber R. Structure of the tetrameric restriction endonuclease NgoMIV in complex with cleaved DNA. Nat Struct Biol. 2000;7:792-9 pubmed publisher..Two Mg2+ ions are located close to the cleaved phosphate at the active site of NgoMIV. Biochemical experiments show that interactions between the recognition sites within the tetramer greatly increase DNA cleavage efficiency...
- Burkhardt C, Zacharias M. Modelling ion binding to AA platform motifs in RNA: a continuum solvent study including conformational adaptation. Nucleic Acids Res. 2001;29:3910-8 pubmed..The approach could be helpful to identify putative ion binding sites in nucleic acid structures determined at low resolution or with experimental methods that do not allow identification of ion binding sites. ..
- Petersen H, Hilpert J, Militz D, Zandler V, Jacobsen C, Roebroek A, et al. Functional interaction of megalin with the megalinbinding protein (MegBP), a novel tetratrico peptide repeat-containing adaptor molecule. J Cell Sci. 2003;116:453-61 pubmed..These finding suggest a model whereby megalin directly participates in transcriptional regulation through controlled sequestration or release of transcription factors via MegBP. ..
- Selenko P, Gregorovic G, Sprangers R, Stier G, Rhani Z, Kramer A, et al. Structural basis for the molecular recognition between human splicing factors U2AF65 and SF1/mBBP. Mol Cell. 2003;11:965-76 pubmed..This molecular recognition establishes a paradigm for protein binding by a subfamily of noncanonical RRMs. ..
- Kindermann M, Maack C, Schaller S, Finkler N, Schmidt K, Laer S, et al. Carvedilol but not metoprolol reduces beta-adrenergic responsiveness after complete elimination from plasma in vivo. Circulation. 2004;109:3182-90 pubmed..Carvedilol but not metoprolol inhibits the catecholamine response of the human heart beyond its plasma elimination. The persistent beta-blockade by carvedilol may be explained by binding of carvedilol to an allosteric site of beta-ARs. ..
- Junge H, Rhee J, Jahn O, Varoqueaux F, Spiess J, Waxham M, et al. Calmodulin and Munc13 form a Ca2+ sensor/effector complex that controls short-term synaptic plasticity. Cell. 2004;118:389-401 pubmed
- Knez M, Sumser M, Bittner A, Wege C, Jeske H, Hoffmann D, et al. Binding the tobacco mosaic virus to inorganic surfaces. Langmuir. 2004;20:441-7 pubmed
- Schiffmann R, Neugebauer A, Klein C. Metal-mediated inhibition of Escherichia coli methionine aminopeptidase: structure-activity relationships and development of a novel scoring function for metal-ligand interactions. J Med Chem. 2006;49:511-22 pubmed..Finally, conclusions for the structure-based design of in vivo-active inhibitors of ecMetAP are drawn. ..
- Schmidt H, Kurtzer R, Eisenreich W, Schwab W. The carotenase AtCCD1 from Arabidopsis thaliana is a dioxygenase. J Biol Chem. 2006;281:9845-51 pubmed..The results unambiguously demonstrate a dioxygenase mechanism for the carotenase AtCCD1 from A. thaliana. ..
- Ansorge N, Jüttner S, Cramer T, Schmidt W, Hocker M, Schmitz F. An upstream CRE-E-box element is essential for gastrin-dependent activation of the cyclooxygenase-2 gene in human colon cancer cells. Regul Pept. 2007;144:25-33 pubmed..These results show the necessity to perform succeeding studies, which could describe possible mechanisms in which gastrin and COX-2 contribute to the induction of colorectal carcinomas. ..
- Dhaunchak A, Nave K. A common mechanism of PLP/DM20 misfolding causes cysteine-mediated endoplasmic reticulum retention in oligodendrocytes and Pelizaeus-Merzbacher disease. Proc Natl Acad Sci U S A. 2007;104:17813-8 pubmed..Thus, covalent protein cross-links emerge as a cause, rather than as a consequence, of endoplasmic reticulum retention. ..
- Siegel C, Schreiber J, Haupt K, Skerka C, Brade V, Simon M, et al. Deciphering the ligand-binding sites in the Borrelia burgdorferi complement regulator-acquiring surface protein 2 required for interactions with the human immune regulators factor H and factor H-like protein 1. J Biol Chem. 2008;283:34855-63 pubmed publisher..Collectively, we mapped a structurally sensitive CFH/CFHL1 binding site within borrelial BbCRASP-2 and identified single amino acid residues potentially involved in the interaction with both complement regulators...
- Klüver N, Herpin A, Braasch I, Driessle J, Schartl M. Regulatory back-up circuit of medaka Wt1 co-orthologs ensures PGC maintenance. Dev Biol. 2009;325:179-88 pubmed publisher..This provides first evidence for a conditional co-regulation of these genes within a transcriptional network. ..
- Richter A, Schleberger C, Backofen R, Steglich C. Seed-based INTARNA prediction combined with GFP-reporter system identifies mRNA targets of the small RNA Yfr1. Bioinformatics. 2010;26:1-5 pubmed publisher..We used mutation analysis to confirm that Yfr1 directly regulates its targets by an antisense interaction sequestering the ribosome binding site, and to assess the importance of interaction site accessibility. ..
- Yu X, Nandekar P, Mustafa G, Cojocaru V, Lepesheva G, Wade R. Ligand tunnels in T. brucei and human CYP51: Insights for parasite-specific drug design. Biochim Biophys Acta. 2016;1860:67-78 pubmed publisher..brucei and human CYP51s. The results provide a basis for the design of selective anti-parasitic agents targeting the ligand tunnels. ..
- Roth A, Messer W. The DNA binding domain of the initiator protein DnaA. EMBO J. 1995;14:2106-11 pubmed..coli. This fusion protein can be coupled directly to streptavidin-coated magnetic beads. Homologies between DnaA protein and transcription factors of the NtrC family are discussed. ..
- Graumann P, Marahiel M. The major cold shock protein of Bacillus subtilis CspB binds with high affinity to the ATTGG- and CCAAT sequences in single stranded oligonucleotides. FEBS Lett. 1994;338:157-60 pubmed..Dependent on the length of the oligonucleotide and the degree of sequence deviation from the Y-box core sequence 3- to over 10-fold overexcess of CspB was needed for complete retardation. ..
- Knauf M, Lohr F, Blümel M, Mayhew S, Rüterjans H. NMR investigation of the solution conformation of oxidized flavodoxin from Desulfovibrio vulgaris. Determination of the tertiary structure and detection of protein-bound water molecules. Eur J Biochem. 1996;238:423-34 pubmed..The locations of these water molecules have been compared with those found in the X-ray structure. ..
- Osterloh D, Ivanenkov V, Gerke V. Hydrophobic residues in the C-terminal region of S100A1 are essential for target protein binding but not for dimerization. Cell Calcium. 1998;24:137-51 pubmed..Thus a cluster of hydrophobic residues in the C-terminal region of S100A1 is essential for target protein binding but dispensable for dimerization, a situation possibly met in other S100 proteins as well. ..
- Schlosser A, Aldekamp T, Schrempf H. Binding characteristics of CebR, the regulator of the ceb operon required for cellobiose/cellotriose uptake in Streptomyces reticuli. FEMS Microbiol Lett. 2000;190:127-32 pubmed..reticuli protected the same DNA motif. Release of the CebR regulator from its operator occurs upon addition of cellopentaose which can be assumed to act as inducer within the mycelia...
- Weide T, Bayer M, Koster M, Siebrasse J, Peters R, Barnekow A. The Golgi matrix protein GM130: a specific interacting partner of the small GTPase rab1b. EMBO Rep. 2001;2:336-41 pubmed..We mapped the rab1b binding site of GM130 and provide evidence that it is different to the previously described p115 and Grasp65 binding sites of the GM130 protein. ..
- Rebelo J, Auerbach G, Bader G, Bracher A, Nar H, Hösl C, et al. Biosynthesis of pteridines. Reaction mechanism of GTP cyclohydrolase I. J Mol Biol. 2003;326:503-16 pubmed..The subsequent hydrolysis of the formamide motif has an absolute requirement for zinc ion catalysis. The hydrolysis of the formamide bond shows close mechanistic similarity with peptide hydrolysis by zinc proteases. ..
- Meri T, Blom A, Hartmann A, Lenk D, Meri S, Zipfel P. The hyphal and yeast forms of Candida albicans bind the complement regulator C4b-binding protein. Infect Immun. 2004;72:6633-41 pubmed..It inhibits complement activation at the yeast surface and, in addition, mediates adhesion of C. albicans to host endothelial cells. ..
- Geissenhöner A, Weise C, Ehrenhofer Murray A. Dependence of ORC silencing function on NatA-mediated Nalpha acetylation in Saccharomyces cerevisiae. Mol Cell Biol. 2004;24:10300-12 pubmed..In summary, we propose a model by which N(alpha) acetylation is required for the binding of silencing factors to the N terminus of Orc1p and Sir3p to recruit heterochromatic factors and establish repression. ..
- Lukacin R, Schreiner S, Silber K, Matern U. Starter substrate specificities of wild-type and mutant polyketide synthases from Rutaceae. Phytochemistry. 2005;66:277-84 pubmed..CHSs in R. graveolens. It is likely that ACS has evolved from CHS, but the sole enlargement of the active site pocket as in CHS1 mutant R2 is insufficient to explain this process...
- Xiao F, Mirwald A, Papaioannou M, Baniahmad A, Klug J. Secretoglobin 2A1 is under selective androgen control mediated by a peculiar binding site for Sp family transcription factors. Mol Endocrinol. 2005;19:2964-78 pubmed..Therefore we propose that SCGB 2A1 represents a new class of androgen target genes that are purely under indirect AR control mediated by DNA-bound Sp factors. ..
- Werz O, Tretiakova I, Michel A, Ulke Lemee A, Hörnig M, Franke L, et al. Caspase-mediated degradation of human 5-lipoxygenase in B lymphocytic cells. Proc Natl Acad Sci U S A. 2005;102:13164-9 pubmed..We suggest that splitting of BL41-E95-A cells induces de novo synthesis of a protein involved in the activation of casp-6, which cleaves 5-LO. ..
- Sauer T, Shelest E, Wingender E. Evaluating phylogenetic footprinting for human-rodent comparisons. Bioinformatics. 2006;22:430-7 pubmed..TFBSs for certain transcription factors do not require strict sequence conservation but instead may show a high pattern conservation, limiting somewhat the validity of purely sequence-based phylogenetic footprinting. ..
- Kaiser F, Lüdecke H, Weger S. SUMOylation modulates transcriptional repression by TRPS1. Biol Chem. 2007;388:381-90 pubmed..These results identify SUMOylation at the TRPS1-RD as a major mechanism that regulates the function of TRPS1. ..
- Seifert F, Ciszak E, Korotchkina L, Golbik R, Spinka M, Dominiak P, et al. Phosphorylation of serine 264 impedes active site accessibility in the E1 component of the human pyruvate dehydrogenase multienzyme complex. Biochemistry. 2007;46:6277-87 pubmed
- Muckenfuss H, Kaiser J, Krebil E, Battenberg M, Schwer C, Cichutek K, et al. Sp1 and Sp3 regulate basal transcription of the human APOBEC3G gene. Nucleic Acids Res. 2007;35:3784-96 pubmed..Electrophoretic mobility shift assays and chromatin immunoprecipitation assays demonstrated that the identified GC-box represented a binding site for the ubiquitous transcription factors specificity protein (Sp) 1 and Sp3. ..
- Hamann N, Mander G, Shokes J, Scott R, Bennati M, Hedderich R. A cysteine-rich CCG domain contains a novel [4Fe-4S] cluster binding motif as deduced from studies with subunit B of heterodisulfide reductase from Methanothermobacter marburgensis. Biochemistry. 2007;46:12875-85 pubmed..In addition, Zn K-edge X-ray absorption spectroscopy identified an isolated Zn site with an S3(O/N)1 geometry in HdrB and the HDR holoenzyme. The N-terminal CCG domain is suggested to provide ligands to the Zn site...
- Rothacker B, Ilg T. Functional characterization of a Drosophila melanogaster succinic semialdehyde dehydrogenase and a non-specific aldehyde dehydrogenase. Insect Biochem Mol Biol. 2008;38:354-66 pubmed publisher..7 microM was determined. Site-directed mutagenesis studies on D. melanogaster MalE-SSADH suggest that cysteine 311 and glutamic acid 277 of this enzyme are likely candidates for the active site residues directly involved in catalysis. ..
- Harms J, Wilson D, Schluenzen F, Connell S, Stachelhaus T, Zaborowska Z, et al. Translational regulation via L11: molecular switches on the ribosome turned on and off by thiostrepton and micrococcin. Mol Cell. 2008;30:26-38 pubmed publisher..The results suggest that L11 acts as a molecular switch to control L7 binding and plays a pivotal role in positioning one L7-CTD monomer on the G' subdomain of EF-G to regulate EF-G turnover during protein synthesis. ..
- Pajeva I, Globisch C, Wiese M. Comparison of the inward- and outward-open homology models and ligand binding of human P-glycoprotein. FEBS J. 2009;276:7016-26 pubmed publisher..The results confirm the possibility for multispecific drug interactions of the protein, and are important for elucidating the P-glycoprotein function and ligand interactions. ..
- Dederer H, Werr M, Ilg T. Differential sensitivity of Ctenocephalides felis and Drosophila melanogaster nicotinic acetylcholine receptor ?1 and ?2 subunits in recombinant hybrid receptors to nicotinoids and neonicotinoid insecticides. Insect Biochem Mol Biol. 2011;41:51-61 pubmed publisher..Our results show that at least in a Gg?2 hybrid receptor setting, insect ?1 subunits confer higher sensitivity to neonicotinoids than ?2 subunits, which may contribute in vivo to the insect-selective action of this pesticide class. ..
- Kühner S, Fischer S. Structural mechanism of the ATP-induced dissociation of rigor myosin from actin. Proc Natl Acad Sci U S A. 2011;108:7793-8 pubmed publisher..Energetically accessible transition pathways computed at atomic detail reveal a simple coupling mechanism for the reciprocal binding of ATP and actin. ..
- Mailliet J, Psakis G, Feilke K, Sineshchekov V, Essen L, Hughes J. Spectroscopy and a high-resolution crystal structure of Tyr263 mutants of cyanobacterial phytochrome Cph1. J Mol Biol. 2011;413:115-27 pubmed publisher..Our data support the notion that native phytochromes in their Pr state are structurally heterogeneous. ..
- Van Roey K, Dinkel H, Weatheritt R, Gibson T, Davey N. The switches.ELM resource: a compendium of conditional regulatory interaction interfaces. Sci Signal. 2013;6:rs7 pubmed publisher..We foresee switches.ELM complementing available resources to extend our knowledge of the molecular mechanisms underlying cell signaling. ..
- Falkenberg K, Jakobs A, Matern J, Dörner W, Uttarkar S, Trentmann A, et al. Withaferin A, a natural compound with anti-tumor activity, is a potent inhibitor of transcription factor C/EBP?. Biochim Biophys Acta Mol Cell Res. 2017;1864:1349-1358 pubmed publisher..The finding that WFA is a potent inhibitor of C/EBP? suggests that inhibition of C/EBP? might contribute to the biological activities of WFA. ..
- Zhuang L, Tice C, Xu Z, Zhao W, Cacatian S, Ye Y, et al. Discovery of BI 135585, an in vivo efficacious oxazinanone-based 11? hydroxysteroid dehydrogenase type 1 inhibitor. Bioorg Med Chem. 2017;25:3649-3657 pubmed publisher..Compound 11j exhibited >1000× selectivity over other hydroxysteroid dehydrogenases, displays desirable pharmacodynamic properties and entered human clinical trials in 2011. ..
- Elbashir S, Lendeckel W, Tuschl T. RNA interference is mediated by 21- and 22-nucleotide RNAs. Genes Dev. 2001;15:188-200 pubmed..Furthermore, we provide evidence that the direction of dsRNA processing determines whether sense or antisense target RNA can be cleaved by the siRNA-protein complex. ..
- Steiner T, Kaiser J, Marinkovi S, Huber R, Wahl M. Crystal structures of transcription factor NusG in light of its nucleic acid- and protein-binding activities. EMBO J. 2002;21:4641-53 pubmed..The results strongly argue that both protein and nucleic acid contacts are important for NusG's functions and that the factor can act as an adaptor mediating indirect protein-nucleic acid associations...
- Wagener R, Kobbe B, Paulsson M. Matrilin-4, a new member of the matrilin family of extracellular matrix proteins. FEBS Lett. 1998;436:123-7 pubmed..Additionally an alternatively spliced mRNA lacking the sequence coding for the first vWFA domain was found in 7 weeks old mice leading to a protein precursor of 434 amino acids and a predicted Mr of the mature protein of 45468. ..
- Wehland M, Bernhard F. The RcsAB box. Characterization of a new operator essential for the regulation of exopolysaccharide biosynthesis in enteric bacteria. J Biol Chem. 2000;275:7013-20 pubmed..Site-specific mutations of conserved nucleotides in the RcsAB boxes of the E. coli wza and rcsA promoters resulted in an exopolysaccharide-negative phenotype and in the reduction of reporter gene expression. ..
- Steinbacher S, Kaiser J, Wungsintaweekul J, Hecht S, Eisenreich W, Gerhardt S, et al. Structure of 2C-methyl-d-erythritol-2,4-cyclodiphosphate synthase involved in mevalonate-independent biosynthesis of isoprenoids. J Mol Biol. 2002;316:79-88 pubmed publisher..The protein forms homotrimers that tightly bind one zinc ion per subunit at the active site, which helps to position the substrate for direct attack of the 2-phosphate group on the beta-phosphate...
- Braun N, Meining W, Hars U, Fischer M, Ladenstein R, Huber R, et al. Formation of metal nanoclusters on specific surface sites of protein molecules. J Mol Biol. 2002;321:341-53 pubmed
- Hellwig P, Gomes C, Teixeira M. FTIR spectroscopic characterization of the cytochrome aa3 from Acidianus ambivalens: evidence for the involvement of acidic residues in redox coupled proton translocation. Biochemistry. 2003;42:6179-84 pubmed..Most signals seen here are not observable in comparable spectra of typical members of the heme copper oxidase superfamily and thus reflect unique features of the enzyme from the hyperthermoacidophilic archaeon A. ambivalens...
- Schestkowa O, Geisel D, Jacob R, Hasilik A. The catalytically inactive precursor of cathepsin D induces apoptosis in human fibroblasts and HeLa cells. J Cell Biochem. 2007;101:1558-66 pubmed
- Bussmann M, Baumgart M, Bott M. RosR (Cg1324), a hydrogen peroxide-sensitive MarR-type transcriptional regulator of Corynebacterium glutamicum. J Biol Chem. 2010;285:29305-18 pubmed publisher..A deletion mutant (?cg1322) lacking the putative polyisoprenoid-binding protein showed an increased sensitivity to H(2)O(2), supporting the role of RosR in the oxidative stress response of C. glutamicum. ..
- Hagen G, Muller S, Beato M, Suske G. Cloning by recognition site screening of two novel GT box binding proteins: a family of Sp1 related genes. Nucleic Acids Res. 1992;20:5519-25 pubmed..SPR-2 mRNA is expressed ubiquitously, whereas SPR-1 transcripts are abundant in the brain but barely detectable in other organs. The possible function of these factors for the activity of the uteroglobin promoter is discussed. ..
- Schlaich N, Haner M, Lustig A, Aebi U, Hurt E. In vitro reconstitution of a heterotrimeric nucleoporin complex consisting of recombinant Nsp1p, Nup49p, and Nup57p. Mol Biol Cell. 1997;8:33-46 pubmed..We conclude that Nsp1p, Nup49p, and Nup57p can reconstitute a complex in vitro which is competent for further assembly with other components of nuclear pores. ..
- Raddatz G, Bisswanger H. Receptor site and stereospecifity of dihydrolipoamide dehydrogenase for R- and S-lipoamide: a molecular modeling study. J Biotechnol. 1997;58:89-100 pubmed..The consequences for the interaction of dihydrolipoamide dehydrogenase with the lipoyl domain of the alpha-oxoacid dehydrogenase complexes are discussed. ..
- Seidel G, Adermann K, Schindler T, Ejchart A, Jaenicke R, Forssmann W, et al. Solution structure of porcine delta sleep-inducing peptide immunoreactive peptide A homolog of the shortsighted gene product. J Biol Chem. 1997;272:30918-27 pubmed..This helix exhibits more 310-helix character and is less stable than the leucine zipper helix. For the COOH-terminal region of pDIP no elements of regular secondary structure were observed. ..
- Theil T, Aydin S, Koch S, Grotewold L, Ruther U. Wnt and Bmp signalling cooperatively regulate graded Emx2 expression in the dorsal telencephalon. Development. 2002;129:3045-54 pubmed..These results establish Emx2 as a direct transcriptional target of Wnt and Bmp signalling and provide insights into a genetic hierarchy involving Gli3, Emx2 and Bmp and Wnt genes in the control of dorsal telencephalic development. ..
- Reuther J, Gekeler C, Tiffert Y, Wohlleben W, Muth G. Unique conjugation mechanism in mycelial streptomycetes: a DNA-binding ATPase translocates unprocessed plasmid DNA at the hyphal tip. Mol Microbiol. 2006;61:436-46 pubmed
- Meyer M, Chudziak F, Schwanstecher C, Schwanstecher M, Panten U. Structural requirements of sulphonylureas and analogues for interaction with sulphonylurea receptor subtypes. Br J Pharmacol. 1999;128:27-34 pubmed..g. glibenclamide) owe selectivity for SUR1 to lipophilic substitution on their urea group. Sulphonylureas without lipophilic substitution on the urea group could represent lead compounds for the development of SUR2-selective drugs...
- Strater N, Sun L, Kantrowitz E, Lipscomb W. A bicarbonate ion as a general base in the mechanism of peptide hydrolysis by dizinc leucine aminopeptidase. Proc Natl Acad Sci U S A. 1999;96:11151-5 pubmed..A mutational analysis shows that Arg-356 influences activity by binding the bicarbonate ion but is not essential for activity. Mutation of the catalytic Lys-282 reduces k(cat)/K(m) about 10,000-fold. ..
- Schleifer K, Tot E. Molecular modeling study of diltiazem mimics at L-type calcium channels. Pharm Res. 1999;16:1506-13 pubmed..Based on these molecular descriptors, the quinazolinone derivative MCI-176 is predicted to be a potential ligand of the diltiazem binding site. ..
- Zeppenfeld T, Larisch C, Lengeler J, Jahreis K. Glucose transporter mutants of Escherichia coli K-12 with changes in substrate recognition of IICB(Glc) and induction behavior of the ptsG gene. J Bacteriol. 2000;182:4443-52 pubmed..By the same mechanism, glucose uptake and phosphorylation also control the expression of the pts operon and probably of all operons controlled by the repressor DgsA. ..
- Hentschke M, Schulze C, Süsens U, Borgmeyer U. Characterization of calmodulin binding to the orphan nuclear receptor Errgamma. Biol Chem. 2003;384:473-82 pubmed..Thus, we propose that CaM acts as a mediator in the Ca2+-dependent modulation of ERRgamma. ..
- Lindecke A, Korte M, Zagrebelsky M, Horejschi V, Elvers M, Widera D, et al. Long-term depression activates transcription of immediate early transcription factor genes: involvement of serum response factor/Elk-1. Eur J Neurosci. 2006;24:555-63 pubmed..We suggest that LTD leads to SRF/Elk-1-regulated gene expression of immediate early transcription factors, which could in turn promote a second broader wave of gene expression. ..
- Schmitz J, Tierbach A, Lenz H, Meschenmoser K, Knoop V. Membrane protein interactions between different Arabidopsis thaliana MRS2-type magnesium transporters are highly permissive. Biochim Biophys Acta. 2013;1828:2032-40 pubmed publisher..Plant magnesium homeostasis may be influenced by hetero-oligomer channel formation where different plant MRS2 proteins meet in the same membrane naturally or in transgenic approaches. ..
- Hesse L, Beher D, Masters C, Multhaup G. The beta A4 amyloid precursor protein binding to copper. FEBS Lett. 1994;349:109-16 pubmed..Copper(II) binding is shown to inhibit homophilic APP binding. The identification of a copper(II) binding site in APP suggests that APP and APLP2 may be involved in electron transfer and radical reactions. ..
- Schilling S, Niestroj A, Rahfeld J, Hoffmann T, Wermann M, Zunkel K, et al. Identification of human glutaminyl cyclase as a metalloenzyme. Potent inhibition by imidazole derivatives and heterocyclic chelators. J Biol Chem. 2003;278:49773-9 pubmed..The results reveal human QC as a metal-dependent transferase, suggesting that the active site-bound metal is a potential site for interaction with novel, highly potent competitive inhibitors. ..
- Hillisch A, Peters O, Kosemund D, Müller G, Walter A, Schneider B, et al. Dissecting physiological roles of estrogen receptor alpha and beta with potent selective ligands from structure-based design. Mol Endocrinol. 2004;18:1599-609 pubmed..Simultaneous administration of the ERalpha and ERbeta ligand did not lead to an attenuation of ERalpha-mediated effects on the uterus, pituitary, and liver parameters. ..
- Leukert N, Vogl T, Strupat K, Reichelt R, Sorg C, Roth J. Calcium-dependent tetramer formation of S100A8 and S100A9 is essential for biological activity. J Mol Biol. 2006;359:961-72 pubmed..This is the first report showing a functional relevance of calcium-induced higher-order oligomerization in the S100 family. ..
- Hess A, Wijayanti N, Neuschäfer Rube A, Katz N, Kietzmann T, Immenschuh S. Phorbol ester-dependent activation of peroxiredoxin I gene expression via a protein kinase C, Ras, p38 mitogen-activated protein kinase signaling pathway. J Biol Chem. 2003;278:45419-34 pubmed..The data indicate that a protein kinase C, Ras, MEKK1, p38 MAPK signaling pathway plays a major role for the transcriptional up-regulation of Prx I gene expression. ..
- Ludwig K, Fan H, Dobers J, Berger M, Reutter W, Bottcher C. 3D structure of the CD26-ADA complex obtained by cryo-EM and single particle analysis. Biochem Biophys Res Commun. 2004;313:223-9 pubmed
- Haupt M, Bramkamp M, Heller M, Coles M, Deckers Hebestreit G, Herkenhoff Hesselmann B, et al. The holo-form of the nucleotide binding domain of the KdpFABC complex from Escherichia coli reveals a new binding mode. J Biol Chem. 2006;281:9641-9 pubmed
- Heckmann S, Lermontova I, Berckmans B, De Veylder L, Bäumlein H, Schubert I. The E2F transcription factor family regulates CENH3 expression in Arabidopsis thaliana. Plant J. 2011;68:646-56 pubmed publisher..E2F binding motifs are also present in human and Drosophila CENH3pro regions, thus cell cycle-dependent transcriptional regulation of CENH3 may be highly conserved. ..
- Lange C, Hunte C. Crystal structure of the yeast cytochrome bc1 complex with its bound substrate cytochrome c. Proc Natl Acad Sci U S A. 2002;99:2800-5 pubmed..Obviously, cytochrome c reduction by the cytochrome bc1 complex can be regulated in response to respiratory conditions. ..
- Steuber H, Zentgraf M, La Motta C, Sartini S, Heine A, Klebe G. Evidence for a novel binding site conformer of aldose reductase in ligand-bound state. J Mol Biol. 2007;369:186-97 pubmed..In addition, our study emphasizes the importance of crystal structure analysis for the translation of affinity data into structure-activity relationships. ..
- Grabenhorst E, Conradt H. The cytoplasmic, transmembrane, and stem regions of glycosyltransferases specify their in vivo functional sublocalization and stability in the Golgi. J Biol Chem. 1999;274:36107-16 pubmed
- Stoffers K, Sorg B, Seuter S, Rau O, Radmark O, Steinhilber D. Calcitriol upregulates open chromatin and elongation markers at functional vitamin D response elements in the distal part of the 5-lipoxygenase gene. J Mol Biol. 2010;395:884-96 pubmed publisher..The data suggest that calcitriol induces chromatin opening and transcript elongation via VDREs located at the 3'-end of the 5-LO gene. ..
- Wysoczański P, Zweckstetter M. Retention and splicing complex (RES) - the importance of cooperativity. RNA Biol. 2016;13:128-33 pubmed publisher..Our work highlights the role of cooperativity in the spliceosome and poses new questions about the structure and assembly of the spliceosome. ..
- Henn Sax M, Thoma R, Schmidt S, Hennig M, Kirschner K, Sterner R. Two (betaalpha)(8)-barrel enzymes of histidine and tryptophan biosynthesis have similar reaction mechanisms and common strategies for protecting their labile substrates. Biochemistry. 2002;41:12032-42 pubmed..These results suggest that HisA and TrpF have similar chemical reaction mechanisms and use the same strategy to prevent the loss of their thermolabile substrates...
- Friedel C, Zimmer R. Identifying the topology of protein complexes from affinity purification assays. Bioinformatics. 2009;25:2140-6 pubmed publisher..A Java implementation of the prediction methods and supplementary material are available at http://www.bio.ifi.lmu.de/Complexes/Substructures/. ..
- Eggert H, Schulz M, Fackelmayer F, Renkawitz R, Eggert M. Effects of the heterogeneous nuclear ribonucleoprotein U (hnRNP U/SAF-A) on glucocorticoid-dependent transcription in vivo. J Steroid Biochem Mol Biol. 2001;78:59-65 pubmed..The relative concentrations of GR, hnRNP U and DNA-binding sites for GR are important for the effect of hnRNP U on transcription, suggesting a model where hnRNP-U acts as a storage site for intranuclear GR. ..
- Voigt P, Knapp E. Tuning heme redox potentials in the cytochrome C subunit of photosynthetic reaction centers. J Biol Chem. 2003;278:51993-2001 pubmed..Redox potentials measured on a previously generated mutant could be reproduced by calculations based on a model structure of the mutant generated from the wild type RC. ..
- Stegmaier P, Kel A, Wingender E. Systematic DNA-binding domain classification of transcription factors. Genome Inform. 2004;15:276-86 pubmed..The HMM library obtained can be used to classify any newly discovered transcription factor according to its DNA-binding domain and, thus, to generate hypotheses about its DNA-binding specificity. ..
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- K ck M, Stenzel I, Zimmer A. Tissue-specific expression of tomato Ribonuclease LX during phosphate starvation-induced root growth. J Exp Bot. 2006;57:3717-26 pubmed publisher..These data indicate that the role of intracellular RNaseLX in the phosphate starvation response is connected with specific RNA turnover processes at the root tip...
- Kraus D, Karlstetter M, Walczak Y, Hilfinger D, Langmann T, Weber B. Retinal expression of the X-linked juvenile retinoschisis (RS1) gene is controlled by an upstream CpG island and two opposing CRX-bound regions. Biochim Biophys Acta. 2011;1809:245-54 pubmed publisher..We conclude that a CpG island enhancer and two CBRs may act in a combinatorial fashion to fine-tune RS1 transcript levels in the retina. ..