• The involvement of viral DNA-binding proteins in the regulation of virulence genes, transcription, DNA replication, and repair make them significant targets. (mdpi.com)
  • Each transcription factor binds to one specific set of DNA sequences and activates or inhibits the transcription of genes that have these sequences near their promoters. (wikipedia.org)
  • We report here that SRE1, a gene encoding a GATA-type protein, bound to promoter sequences of genes involved in siderophore biosynthesis. (nih.gov)
  • The loss of iron led to a approximately 2.5-fold decrease in DNA-binding affinity, indicating that iron was directly involved in SRE1 regulation of iron-uptake genes. (nih.gov)
  • DNA repair, double strand break repair, and homologous recombination genes are highly correlated with longer maximum lifespan. (foresight.org)
  • In eukaryotes the initiation of transcription of protein encoding genes by polymerase II (Pol II) is modulated by general and specific transcription factors. (embl.de)
  • The team tested this hypothesis and found that not only was BNC2 expression triggered by the protein YY1-which binds to the DNA around the SNP-but that for genes with the at-risk SNP variant, the amount of BNC2 produced when YY1 was present was much greater than for genes with the non-risk variant. (riken.jp)
  • The dynamic behavior of this core response module was modeled using a technique known as multivariate regression, which infers relationships between transcription factors-proteins that bind to specific DNA sequences-and target genes and represents these relationships as ordinary differential equations. (pnnl.gov)
  • Our publication in PLoS Pathogens (2014) demonstrated that infection of conventional DCs with MVA, leads to the induction of type I IFN production that is dependent on the cytosolic DNA sensor cGAS (cyclic GMP-AMP synthase) and its adaptor STING (stimulator of IFN genes). (mskcc.org)
  • At the cellular level, the actions of glucocorticoids are mediated by a 94-kd protein, the glucocorticoid receptor (GR). The human (h) GR belongs to the steroid/thyroid/retinoic acid superfamily of nuclear receptors and functions as a ligand-dependent transcription factor that regulates the expression of glucocorticoid-responsive genes positively or negatively. (medscape.com)
  • The DNA-binding domain (DBD) of the hGRα corresponds to amino acids 420-480 and contains 2 zinc finger motifs through which the hGRα binds to specific DNA sequences, the glucocorticoid-response elements (GREs) in the promoter region(s) of target genes. (medscape.com)
  • The absence of genomic resources renders the search for paralogous cuttlefish genes dependent upon the presence of highly conserved protein motifs within genes of interest, thus we used a degenerate primer strategy to isolate partial coding sequence from the conserved domains specific to these families. (europa.eu)
  • LncRNAs are a class of ncRNAs that are more than 200 nucleotides in length, and although lncRNAs do not possess protein-coding capability, they play vital roles in modulating protein-coding genes at the transcriptional or posttranscriptional level [ 10 , 11 ]. (biomedcentral.com)
  • 1999). TCP genes encode structurally related proteins that are implicated in the evolution of key morphological traits (Li, 2015). (grassius.org)
  • Both genes are highly conserved, and their proteins are thought to have 2 functions: (1) formation of a bridge or scaffold between the DNA-binding transcription factors and the RNA polymerase II complex and (2) serving as histone acetyltransferases that open the chromatin structure, a process essential for gene expression. (medscape.com)
  • Transcriptional regulation of the genes in metabolic pathways is a highly successful strategy, which is virtually universal in microorganisms. (lu.se)
  • INTRODUCTION broken, which in realistic situations can severly constrain the Transcriptional regulation of effector genes is a highly successful regulatory options. (lu.se)
  • PEDV genome contains genes for the following proteins: ucts were purified by using a QIAquick Gel Extraction Kit pol1 (P1), spike (S) (180-220 kDa), envelope (E), mem- (QIAGEN, Hilden, Germany) and were sequenced by 1st brane (M) (27-32 kDa), and nucleocapsid (N) (55-58 kDa) BASE Pte Ltd (Singapore). (cdc.gov)
  • Among the proteins that bind to DNA are transcription factors that activate or repress gene expression by binding to DNA motifs and histones that form part of the structure of DNA and bind to it less specifically. (wikipedia.org)
  • Zinc finger (Znf) domains are relatively small protein motifs which contain multiple finger-like protrusions that make tandem contacts with their target molecule. (embl.de)
  • They display considerable versatility in binding modes, even between members of the same class (e.g. some bind DNA, others protein), suggesting that Znf motifs are stable scaffolds that have evolved specialised functions. (embl.de)
  • Zinc-binding motifs are stable structures, and they rarely undergo conformational changes upon binding their target. (embl.de)
  • LIM kinase-1 and LIM kinase-2 belong to a small subfamily with a unique combination of 2 N-terminal LIM motifs and a C-terminal protein kinase domain. (thermofisher.com)
  • Mammalian forms of the transcription repressor, Kaiso, can reportedly bind methylated DNA and non-methylated CTGCNA motifs. (biologists.com)
  • To mediate its role in chromosome capture, RefZ must bind to specific DNA motifs (RBMs) that localize near the poles at the time of septation. (tamu.edu)
  • The TetR family protein RefZ binds DNA motifs (RBMs) localized near the poles at the time of division and is required for both timely FtsZ assembly and precise capture of DNA in the future spore compartment. (tamu.edu)
  • In contrast, other proteins have evolved to bind to specific DNA sequences. (wikipedia.org)
  • Protein design methods use trial and error or more sophisticated methods like directed evolution or inverse folding to generate novel scaffolds or to find novel protein sequences folding into a defined scaffold, respectively. (hindawi.com)
  • Given the intimate relationship between a protein's structure and function, a way to design proteins with targeted properties is to start from a desired structure and find sequences able to fold into it, imposing additional constraints in the process [ 1 ]. (hindawi.com)
  • It is a nuclear protein that is largely chromatin-bound and has a strong preference for binding to methylated DNA sequences in vivo . (portlandpress.com)
  • During mRNA elongation, Pol II can encounter DNA sequences that cause reverse movement of the enzyme. (embl.de)
  • We then extended these sequences in both directions using rapid-amplification of complementary deoxyribonucleic acid (c-DNA) ends (RACE) to obtain full length transcripts, all of which will be deposited in the public database GenBank. (europa.eu)
  • Both predicted proteins are highly conserved with other known homologous sequences, with the exception of two small domains present only in the Sof-RXR. (europa.eu)
  • ROESY, NOE spectroscopy in the operator DNA sequences aimed at removing the rotating frame. (lu.se)
  • DNA sequences used for studies of uncomplexed and complexed trp operator. (lu.se)
  • The transcriptional repressor HBP1 is a target of the p38 mitogen-activated protein kinase pathway in cell cycle regulation. (nih.gov)
  • DDB, a putative DNA repair protein, can function as a transcriptional partner of E2F1. (ncl.edu.tw)
  • Evidence from model systems shows that MeCP2 can recruit the Sin3a co-repressor complex to promoters leading to transcriptional repression, therefore suggesting that MeCP2 can interpret the DNA methylation signal to bring about gene silencing. (portlandpress.com)
  • Nucleic-acid-binding motif in transcriptional elongation factor TFIIS and RNA polymerases. (embl.de)
  • The purpose of this study was to investigate whether an aberrant DNA methylation of transcriptional and inflammatory factors, including TBX21, GATA3, RORγt, FOXP3, IFN-γ, IL-4, IL-17A and TGF-β , in CD4 + T confers risk to BD. (oncotarget.com)
  • CBP and EP300 are ubiquitously expressed homologous proteins that act as transcriptional co-activators. (medscape.com)
  • Structural proteins that bind DNA are well-understood examples of non-specific DNA-protein interactions. (wikipedia.org)
  • These non-specific interactions are formed through basic residues in the histones making ionic bonds to the acidic sugar-phosphate backbone of the DNA, and are therefore largely independent of the base sequence. (wikipedia.org)
  • The specificity of these transcription factors' interactions with DNA come from the proteins making multiple contacts to the edges of the DNA bases, allowing them to read the DNA sequence. (wikipedia.org)
  • Protein-DNA interactions occur when a protein binds a molecule of DNA, often to regulate the biological function of DNA, usually the expression of a gene. (wikipedia.org)
  • Hydrophobicity was one of the most important physicochemical properties, due to the fact that it is involved in protein interactions, for example, by forming hydrophobic cores. (hindawi.com)
  • For this, the Sfmbt protein complex was affinity purified from the nuclear extract, followed by highly specific peptide sequencing (IP/LC-MS). As a result, a number of previously uncharacterized Sfmbt interactions were discovered. (sdbonline.org)
  • FLIM-FRET analysis of protein-protein interactions showed that PLIN5 S155 phosphorylation regulates PLIN5 interaction with adipose triglyceride lipase at the lipid droplet, but not with α-β hydrolase domain-containing 5. (uci.edu)
  • Although zinc fingers usually function by binding to DNA or RNA, the LIM motif probably mediates protein-protein interactions. (thermofisher.com)
  • Adenovirus protein- protein interactions: hexon and protein VI. (microbiologyresearch.org)
  • TCP proteins are characterized by a highly conserved, approximately 60 residue TCP domain in the N-terminal region, which contains a basic helix-loop-helix (bHLH) structure involved in DNA binding and protein interactions (Cubas et al. (grassius.org)
  • The main focus of our research is the development and optimization for High-Performing-Computing (HPC) of computational methodology for the structural and energetic characterization of protein interactions at molecular level. (bsc.es)
  • We aim to develop and optimize computational algorithms for characterizing and understanding protein-protein interactions, which remains one of the most important challenges in Structural Biology. (bsc.es)
  • More efficient identification of correct docking poses, especially in difficult cases such as weak interactions, multi-protein complexes or membrane proteins. (bsc.es)
  • The DNA damage-recognition problem in human and other eukaryotic cell: the XPA damage binding protein. (ncl.edu.tw)
  • The human Pur factor binds strongly to a sequence element repeated withinzones of initiation of DNA replication in several eukaryotic cells. (embl-heidelberg.de)
  • A highly conserved eukaryotic homolog of the MUTS DNA MISMATCH-BINDING PROTEIN. (bvsalud.org)
  • The telomeres are the DNA-protein structures at the ends of eukaryotic chromosomes, which serve to protect and stabilize the genome. (lu.se)
  • During protein synthesis within the ribosome, transfer RNAs (tRNAs) move sequentially through different sites as their attached amino acids are transferred onto the growing protein chain. (nature.com)
  • TFIIS is a protein of about 300 amino acids. (embl.de)
  • Blom A. M. , Webb J., Villoutreix B. and *Dahlbäck B. (1999) A cluster of positively charged amino acids in the N-terminal modules of C4BP a-chain is crucial for the C4b binding and factor I cofactor function. (lu.se)
  • Perilipin 5 (PLIN5) is a lipid-droplet-associated protein that coordinates intracellular lipolysis in highly oxidative tissues and is thought to regulate lipid metabolism in response to phosphorylation by protein kinase A (PKA). (uci.edu)
  • Physique 1 Structural representations of the kinase inhibitors Hyericin Rottlerin and SP600125 The p53 tumor suppressor protein promotes longevity by reducing somatic mutations or the survival and proliferation of mutant cells [4]. (opioid-receptors.com)
  • A previous study exhibited that yeast TBP could be phosphorylated by the protein kinase CK2 thus reducing its affinity to the TATA element [8] thus offering a potential mechanism of action. (opioid-receptors.com)
  • Phosphorylation of fungus TBP by proteins kinase CK2 decreases its particular binding to DNA. (opioid-receptors.com)
  • Identification of one 50.2 and one 29-kDa UV-damage-DNA binding factor in 12-hr-old zebrafish extracts by EMSA linked to SDS-PAGE and determined by MALDI TOF analysis, indicated that the 29-kDa and 50.2-kDa polypeptides are high homologous to zebrafish fast skeletal muscle troponin T and vitellogenin. (ncl.edu.tw)
  • Bowhead Whale - Lives for 211 years, 40 ton body mass, and has much better non-homologous end joining (NHEJ) DNA repair efficiency. (foresight.org)
  • Alternative splicing of the hGR gene in exon 9 generates 2 highly homologous receptor isoforms, termed α and β. (medscape.com)
  • DNA-binding proteins are proteins that have DNA-binding domains and thus have a specific or general affinity for single- or double-stranded DNA. (wikipedia.org)
  • Human Pur alpha, expressed as a glutathioneS-transferase fusion protein, specifically binds to the hypophosphorylatedform of Rb with an affinity as high as that of SV40 large T-antigen. (embl-heidelberg.de)
  • We report here the cloning and sequencing of a cDNA encodinga protein with strong affinity for the PUR element. (embl-heidelberg.de)
  • Based on the understanding that the atomic structure of the WRI1-DNA complex revealed, the team modified WRI1 to enhance its affinity for DNA in a bid to improve oil yield. (eurekalert.org)
  • Using this crystal structure of WRI1 as the 'target', the team then looked to modify WRI1, to enhance the binding affinity of the protein for its target DNA. (eurekalert.org)
  • Crystal structures of Nos-Pum-RNA complexes reveal that Nos embraces Pum and RNA, contributes sequence-specific contacts, and increases Pum RNA-binding affinity. (elifesciences.org)
  • Within chromosomes, DNA is held in complexes with structural proteins. (wikipedia.org)
  • Identification and isolation of damage-recognition protein complexes from zebrafish(Danio rerio) early embryos. (ncl.edu.tw)
  • Unlike the embryonic extract, the extracts of 84-h-old larvae produced only low-shifting binding complexes when incubated with a CPD-specific probe. (ncl.edu.tw)
  • Inthe absence of DNA, glutathione S-transferase-Pur alpha binds to p56RB, anNH2-terminal-truncated Rb protein purified from Escherichia coli,containing the T-antigen binding domain, to form multimeric complexes. (embl-heidelberg.de)
  • Collaboration among the multitude of RNA-binding proteins (RBPs) is ubiquitous, yet our understanding of these key regulatory complexes has been limited to single RBPs. (elifesciences.org)
  • We have also made available our software through different web servers, such as pyDockWeb for protein-protein docking, pyDockSAXS for the structural prediction of protein complexes using Small-Angle X-ray Scattering (SAXS) data in collaboration with Pau Bernadó (CBS, Montpellier), or OPRA for the identification of RNA-binding residues in proteins. (bsc.es)
  • We propose that RBM-bound RefZ complexes function as a developmentally regulated nucleoid occlusion system for fine-tuning the position of the septum relative to the chromosome during sporulation.IMPORTANCE The bacterial nucleoid forms a large, highly organized structure. (tamu.edu)
  • Mutations in the conserved cysteine residues in the cysteine-rich region led to a decrease in bound iron. (nih.gov)
  • VH is derived from a single protein domain of 35 residues [ 9 ]. (hindawi.com)
  • Histones are a group of similar, small, highly conserved nuclear proteins that bind to DNA by their many basic residues. (calbiotech.com)
  • Among others, we have developed software for prediction of protein-protein complex structure by docking simulations, identification of binding sites on protein surfaces, or prediction of hot-spot residues from energy calculations. (bsc.es)
  • This alters the accessibility of the DNA template to the polymerase. (wikipedia.org)
  • Predicted to enable DNA-binding transcription repressor activity, RNA polymerase II-specific and RNA polymerase II cis-regulatory region sequence-specific DNA binding activity. (nih.gov)
  • On the other hand, gefitinib-driven mtROS promoted the accumulation of γH2AX, a hallmark of DNA damage, leading to the activation of poly (ADP-ribose) polymerase-1 (PARP-1) and subsequent active release of HMGB1. (nature.com)
  • The AF-1 plays an important role in the interaction of the receptor with molecules necessary for the initiation of transcription, such as coactivators, chromatin modulators, and basal transcription factors, including RNA polymerase II, TATA-binding protein (TBP), and a host of TBP-associated proteins (TAFIIs). (medscape.com)
  • regulation by RNA polymerase II (RNA Pol II) is a highly regulated process involving the action of multiple transcription factors that collectively regulate synthesis of messenger RNA (mRNA). (opioid-receptors.com)
  • These proteins organize the DNA into a compact structure called chromatin. (wikipedia.org)
  • Other non-specific DNA-binding proteins in chromatin include the high-mobility group (HMG) proteins, which bind to bent or distorted DNA. (wikipedia.org)
  • Polycomb group (PcG) proteins are chromatin-associated factors involved in the repression of gene transcription. (sdbonline.org)
  • In particular, Sfmbt top-interacting proteins include the DNA-binding protein Hangover and components of the SWI/SNF family of chromatin remodelers (Erokhin, 2021). (sdbonline.org)
  • Chromatin immunoprecipitation assay was performed to assess the bindings between protein and genomic DNA. (biomedcentral.com)
  • In humans, replication protein A is the best-understood member of this family and is used in processes where the double helix is separated, including DNA replication, recombination and DNA repair. (wikipedia.org)
  • KIN17, which is known as a DNA and RNA binding protein, is highly expressed in numerous types of human cancers and was discovered to participate in several vital cell behaviors, including DNA replication, damage repair, regulation of cell cycle and RNA processing. (spandidos-publications.com)
  • Previous studies have indicated that KIN17 is involved in global genome repair, DNA replication, transcription and regulation of the cell cycle as part of a multi-protein complex. (spandidos-publications.com)
  • Since the proteins involved in DNA replication are considerably more active in cancer cells than in normal ones, researchers have discovered that drugs which target these proteins will disproportionately affect the malignant cells. (oist.jp)
  • When Dr. Nakazawa treated fission yeast with ICRF-193, he noticed that the cells appeared to have difficulty separating after DNA replication had occurred. (oist.jp)
  • The replication machinery and DNA-bound proteins of fission yeast are highly conserved and thus remarkably similar to other organisms, including humans. (oist.jp)
  • Pur-alpha is a highly conserved, sequence-specific DNA- and RNA-binding protein involved in diverse cellular and viral functions including transcription, replication, and cell growth. (embl-heidelberg.de)
  • 1990. Cell replication and unscheduled DNA synthesis (UDS) activity of low molecular weight chlorinated paraffins in the rat liver in vivo. (cdc.gov)
  • DNA-binding proteins include transcription factors which modulate the process of transcription, various polymerases, nucleases which cleave DNA molecules, and histones which are involved in chromosome packaging and transcription in the cell nucleus. (wikipedia.org)
  • Specifically, the DNA-binding protein CdbA binds c-di-GMP, is essential for viability, and important for chromosome organization and segregation in Myxococcus xanthus. (uni-marburg.de)
  • Timely assembly of polar Z rings and precise capture of the chromosome in the forespore both require the DNA-binding protein RefZ. (tamu.edu)
  • During B. subtilis sporulation, the nucleoid undergoes reorganization, and the cell division protein FtsZ assembles polarly to direct septation over one chromosome. (tamu.edu)
  • In convergent evolution, nonhomologous proteins evolve in separate biological contexts to catalyze the same or similar reactions. (hindawi.com)
  • Superposition of proteins based on surface shape can enable comparison of highly divergent proteins, identify convergent evolution and enable detailed comparison of surface features and binding sites. (lu.se)
  • 1984. Covalent binding of benzidine to rat hemoglobin [Abstract]. (cdc.gov)
  • Mathematical descriptions of protein-DNA binding taking into account sequence-specificity, and competitive and cooperative binding of proteins of different types are usually performed with the help of the lattice models. (wikipedia.org)
  • Computational methods to identify the DNA binding sequence specificity have been proposed to make a good use of the abundant sequence data in the post-genomic era. (wikipedia.org)
  • Our results illuminate the molecular mechanism of a regulatory switch controlling crucial gene expression programs, and provide a framework for understanding how the partnering of RBPs evokes changes in binding specificity that underlie regulatory network dynamics. (elifesciences.org)
  • Phage-assisted continuous evolution has been adapted to the development of TALENs with better DNA-binding activity and specificity. (genengnews.com)
  • But now it has been used to continuously evolve DNA-binding domains called TALENs (transcription activator-like effector nucleases) with altered or improved DNA-binding specificity. (genengnews.com)
  • The new work appeared August 10 in Nature Methods, in an article entitled, "Continuous directed evolution of DNA-binding proteins to improve TALEN specificity. (genengnews.com)
  • Here we present DNA-binding phage-assisted continuous evolution (DB-PACE) as a general approach for the laboratory evolution of DNA-binding activity and specificity," wrote the authors. (genengnews.com)
  • DB-PACE brings the power of continuous evolution to bear on improving the activity and specificity of a variety of DNA-binding proteins. (genengnews.com)
  • Furthermore, DB-PACE coupled with in vitro specificity profiling represents a new systematic approach to removing specific off-target activities of TALENs, and it may be used to facilitate generation of highly specific genome engineering tools for therapeutic applications. (genengnews.com)
  • 2023). Class I TCP proteins recognize the consensus binding sequence GGNCCCAC, whereas class II proteins prefer the rather similar sequence GGGNCCAC and the different specificity of both classes has been attributed to changes in the identity of a specific residue located in the basic region (Viola et al. (grassius.org)
  • However, molecular weight is also important due to potential steric incompatibilities within protein cores. (hindawi.com)
  • 2017). However, interpretation of the molecular basis for this phenomenon was complicated by our inability to uncouple protein binding from DNA condensation. (elifesciences.org)
  • The molecular chaperone glucose-regulated protein 78 ( GRP78 ) or binding immunoglobulin protein (BiP), in addition to Ca 2+ binding and protein processing functions, possesses one more key role: master initiator of early UPR signaling. (molvis.org)
  • Published in the scientific journal Science Advances , the team detailed the molecular structure of WRI1 and how it binds to plant DNA - which signals to the plant how much oil to accumulate in its seeds. (eurekalert.org)
  • Asst Prof Ma, a plant molecular biologist who has been studying WRI1 since his postdoctoral training, said modifying WRI1 to improve its binding to DNA was a logical move for the team. (eurekalert.org)
  • Results: We present ZEAL, an interactive tool to superpose global and local protein structures based on their shape resemblance using 3D (Zernike-Canterakis) functions to represent the molecular surface. (lu.se)
  • Mark L., Lee W. H., Villoutreix B. O., Proctor D., Blackbourn, D., Spiller B. O. and Blom A. M. (2004) KSHV complement control protein mimics human molecular mechanisms for inhibition of the complement system. (lu.se)
  • Among eight suppressors, seven had mutations in mxan_4328 that encodes a stand-alone PilZ domain protein, henceforth CdbS. (uni-marburg.de)
  • The bowhead whale is much better at avoiding DNA mutations. (foresight.org)
  • Human bocavirus is a small, single-molecule, linear DNA, nonenveloped virus with a nucleocapsid measuring 18-26 nm and a genome length of 4000-6000 nucleotides. (medscape.com)
  • One possibility is that the CTD simply competes for the binding sites in the DNA molecule ( Figure 1B , DNA-binding competition model). (elifesciences.org)
  • retn is implicated as a major repressor of male courtship behavior in the absence of the fruitless ( fru ) male protein. (sdbonline.org)
  • AD is characterized diagnostically by two histologic findings: (1) extracellular amorphus eosinophilic deposits of amyloid consisting of Aβ peptides (a cleavage product of amyloid precursor protein [APP]), which are referred to as amyloid plaques, and (2) intraneuronal aggregates of abnormally modified microtubule-associated protein tau (neurofibrillary tangles) (see the image below). (medscape.com)
  • In vitro, purified CdbS binds c-di-GMP, but the function of CdbS is independent of c-di-GMP binding in vivo. (uni-marburg.de)
  • We also showed that the presence of an excess of the CTD prevented DNA condensation by ParB and induced disruption of ParB networks in vitro and in vivo. (elifesciences.org)
  • These proteins are important in bending arrays of nucleosomes and arranging them into the larger structures that form chromosomes. (wikipedia.org)
  • Single-particle cryo-electron microscopy has enabled the structures of large proteins to be elucidated. (nature.com)
  • The structures of AMPA receptors in complex with auxiliary proteins are resolved by cryo-electron microscopy, and reveal conformational and permeation pathway changes that are associated with activation and desensitization of ionotropic glutamate receptors. (nature.com)
  • UV-binding factors found in 12-h-old zebrafish embryos may be involved in processing developmental stage-specific DNA structures similar to UV-damage DNA. (ncl.edu.tw)
  • Their binding properties depend on the amino acid sequence of the finger domains and of the linker between fingers, as well as on the higher-order structures and the number of fingers. (embl.de)
  • LIM domains are highly conserved cysteine-rich structures containing 2 zinc fingers. (thermofisher.com)
  • The functional domains and subdomains are indicated beneath the linearized protein structures. (medscape.com)
  • Nucleotides for which water-mediated pro- tein-DNA contacts with the bases were observed in the co-crystal structures are encircled with a continuous line. (lu.se)
  • As a largest plant-specific transcription factor family, NAC domain proteins play an important role in plant development and regulation of abiotic stress tolerance. (frontiersin.org)
  • The role of adenovirus structural proteins in the regulation of adenovirus infection. (microbiologyresearch.org)
  • Sjöberg A., Trouw L., McGrath F., Hack E. C. and Blom A. M. (2006) Regulation of complement activation by C-reactive protein: targeting of the inhibitory activity of C4b-binding protein. (lu.se)
  • More recently, his group invented tools for cleavage-free large gene insertion via mining microbial recombination protein, and developed single-cell tracking approach for studying cancer biology and cancer immunology. (stanford.edu)
  • It plays an essential role in meiotic RECOMBINATION and DNA REPAIR of mismatched NUCLEOTIDES. (bvsalud.org)
  • A highly abundant DNA binding protein whose expression is strongly correlated with the growth phase of bacteria. (childrensmercy.org)
  • The methyl-CpG-binding protein MeCP2 was discovered over 15 years ago as part of a search for proteins that selectively bind methylated DNA. (portlandpress.com)
  • In eukaryotes, this structure involves DNA binding to a complex of small basic proteins called histones. (wikipedia.org)
  • The histones form a disk-shaped complex called a nucleosome, which contains two complete turns of double-stranded DNA wrapped around its surface. (wikipedia.org)
  • These chemical changes alter the strength of the interaction between the DNA and the histones, making the DNA more or less accessible to transcription factors and changing the rate of transcription. (wikipedia.org)
  • Alternatively, transcription factors can bind enzymes that modify the histones at the promoter. (wikipedia.org)
  • Sjöberg A., Önnerfjord, P., Mörgelin, M., Heinegård, D. and Blom A. M. (2005) Extracellular matrix and inflammation: fibromodulin activates the classical pathway of complement by directly binding C1q. (lu.se)
  • In this work, we generated and optimized a new synthetic fusion protein using an evolutionary approach. (hindawi.com)
  • The CmNAC1-GFP fusion protein was transiently expressed in tobacco leaves for subcellular localization analysis, and we found that CmNAC1 is localized in the nucleus. (frontiersin.org)
  • Sequence-specific DNA-binding proteins generally interact with the major groove of B-DNA, because it exposes more functional groups that identify a base pair. (wikipedia.org)
  • Pur-alpha can influence viral interaction through functional associations, for example with the Tat protein and TAR RNA of HIV-1, and with large T-antigen and DNA regulatory regions of JC virus. (embl-heidelberg.de)
  • We have successfully combined two unrelated naturally occurring binding sites, the immunoglobin Fc-binding site of the Z domain and the DNA-binding motif of MyoD bHLH, into a novel stable protein. (hindawi.com)
  • this family of proteins is hereafter called EBF) are a group of DNA-binding transcription factors with the basic helix-loop-helix (bHLH) domain. (aacrjournals.org)
  • The retinoblastoma protein, Rb, is detected in extracts of monkey CV-1cells complexed with Pur alpha, a sequence-specific single-strandedDNA-binding protein implicated in control of gene transcription and DNAreplication. (embl-heidelberg.de)
  • While the field is still in its relative infancy, Dr. Hubbard said human clinical trials involving sequence-specific DNA-editing agents are already underway. (genengnews.com)
  • Future studies of MeCP2 promise to shed light upon brain function, neurological disease and the biology of DNA methylation. (portlandpress.com)
  • Aberrant DNA methylation of GATA binding protein 3 (GATA3), interleukin-4 (IL-4), and transforming growth factor-β (TGF-β) promoters in. (oncotarget.com)
  • Our results suggest that an aberrant DNA methylation of GATA3 and TGF-β is associated with their mRNA expression and participates in the pathogenesis of BD. (oncotarget.com)
  • Type I partition systems, also known as ParABS include an ATPase motor protein, ParA, responsible for the movement of the replicated chromosomes to the distal pole of the cell, a DNA binding protein ParB, and a centromere-like DNA sequence, parS ( Funnell, 2016 ). (elifesciences.org)
  • Nonstructural protein 1 (NS1) is a DNA-binding protein involved in gene transcription. (medscape.com)
  • We speculate that the CdbA/CsdK1/CsdK2/CdbS system could be linked to c-di-GMP signaling and that altered cellular levels of c-di-GMP level modulate DNA binding by CdbA and, ultimately, the cellular level of CdbS. (uni-marburg.de)
  • We therefore focus on elucidating the roles of the telomere binding proteins in this process. (lu.se)
  • We are using the yeast model organism Saccharomyces castellii, which has telomere traits and telomerase activity that are highly similar to human cells. (lu.se)
  • Here, we have combined lateral magnetic tweezers with TIRF microscopy to simultaneously control the restrictive force against condensation and to visualise ParB protein binding by fluorescence. (elifesciences.org)
  • NP1 is also nonstructural and is a highly conserved protein of unknown function. (medscape.com)
  • This study reports the function of CmNAC1, a stress-responsive pumpkin NAC domain protein. (frontiersin.org)
  • Here we compare the DNA-binding properties of Kaiso from frog, fish and chicken and demonstrate that only the methyl-CpG-binding function of Kaiso is evolutionarily conserved. (biologists.com)
  • To investigate, we isolated 10 RefZ loss-of-function (rLOF) variants unable to inhibit cell division yet still capable of binding RBMs. (tamu.edu)
  • Yet, much of biology happens on the surface of proteins, which is why proteins with shared ancestry and similar function often have comparable surface shapes. (lu.se)
  • In combination with shape-based matching, ZEAL can be used as a general tool to study relationships between shape and protein function. (lu.se)
  • Thus, in addition to storing the genetic code, the nucleoid harbors positional information that can be leveraged by DNA-binding proteins to spatially constrain cellular activities. (tamu.edu)
  • Because of this similarity, drugs that affect these proteins in fission yeast are likely to affect the related highly active proteins in human cancers. (oist.jp)
  • The purine-rich element binding (Pur) protein family protein consists PURalpha/beta/gamma in humans. (embl-heidelberg.de)
  • In addition, SNHG4 or RRM2 knockdown significantly induced cell cycle arrest and cell senescence, and inhibited DNA damage repair and cell proliferation, and the effects can be partially reversed by let-7a knockdown or RRM2 reoverexpression. (biomedcentral.com)
  • Mrr from Escherichia coli K12 is a type IV restriction endonuclease whose role is to recognize and cleave foreign methylated DNA. (uci.edu)
  • Thus, these proteins are often the targets of the signal transduction processes that control responses to environmental changes or cellular differentiation and development. (wikipedia.org)
  • NLRP3/cryopyrin is a member of the NOD-like receptor (NLR) protein family that plays a pivotal role in the inflammatory response against pathogens and cellular damage. (nature.com)
  • A Hang-related protein, ZNF699, is associated with alcoholism in humans (Riley, 2006), supporting the idea that a cellular stress mechanism underlying ethanol tolerance is evolutionarily conserved between humans and D. melanogaster. (sdbonline.org)
  • However, the cellular signaling process upon which hang acts remains unclear, and how the broadly expressed hang protein mediates specific behavioral changes in response to global increases of cellular stressors such as ethanol remains an open question (Ruppert, 2017). (sdbonline.org)
  • Kask L., Hillarp A., Ramesh B., Dahlbäck B., and Blom A. M. (2002) Structural requirements for the intra-cellular subunit polymerization of the complement inhibitor C4b-binding protein. (lu.se)
  • Analysing at the atomic level, the crystal structure of the WRI1 protein and the double helix DNA strands to which it binds, the team noticed this DNA binding domain was extensively conserved. (eurekalert.org)
  • In lab experiments to observe how the modified WRI1 affects oil accumulation, both the modified protein and the unmodified form were injected into Nicotiana benthamiana leaves, and an analysis of triacylglycerol (a major form of dietary lipid in fats and oils) levels was carried out. (eurekalert.org)
  • Lipid-specific oligomerization of the Marburg virus matrix protein VP40 is regulated by two distinct interfaces for virion assembly. (uci.edu)
  • Computational design of novel proteins with well-defined functions is an ongoing topic in computational biology. (hindawi.com)
  • EBF3 bound directly to p21 cip1/waf1 promoter and regulated transcription from both p21 cip1/waf1 and p27 kip1 promoters in reporter assays. (aacrjournals.org)
  • Cubas P, Lauter N, Doebley J, Coen E. The TCP domain: a motif found in proteins regulating plant growth and development. (grassius.org)
  • In a genome-wide survey for potential Notch pathway targets, the second intron of the numb gene was found to contain a statistically significant cluster of binding sites for Suppressor of Hairless, the transducing transcription factor for the pathway. (silverchair.com)
  • The BNC2 gene is highly conserved across diverse species, and plays roles in a variety of tissues. (riken.jp)
  • We focus our attention on three families of transcription factors that are known to have roles in vertebrate chondrogenesis: Sox and the Ant- and Prd- class families of the homeodomain proteins. (europa.eu)
  • This strongly supports a model in which the CTD acts as a key bridging interface between distal DNA binding loci within ParB networks. (elifesciences.org)
  • Recently FK506 binding protein 25 (FBP25) was also shown to non-specifically bind to DNA which helps in DNA repair. (wikipedia.org)
  • Sre1p specifically bound DNA containing the 5'-(G/A)ATC(T/A)GATAA-3' sequence, and that binding was both iron- and zinc-dependent. (nih.gov)
  • Specifically, the DNA-binding protein CdbA binds c-di-GMP, is essential for viabilit. (uni-marburg.de)
  • At non-permissive forces for condensation, ParB binds non-specifically and highly dynamically to DNA. (elifesciences.org)
  • Kosugi S, Ohashi Y. PCF1 and PCF2 specifically bind to cis elements in the rice proliferating cell nuclear antigen gene. (grassius.org)
  • In addition, NAC domain proteins have become a popular research topic for different plant species. (frontiersin.org)
  • One motif, GASSL, is highly conserved throughout the evolution of IRF3 and 7 and located in the signal response domain. (cdc.gov)
  • Another motif, DPHK, is in the DNA-binding domain. (cdc.gov)
  • Previously, we found that an excess of the free C-terminal domain (CTD) of ParB impeded DNA condensation or promoted decondensation of pre-assembled networks (Fisher et al. (elifesciences.org)
  • we studied the role of the C-terminal domain (CTD) of ParB in its multimerisation and DNA condensation. (elifesciences.org)
  • Taxonomic distribution of proteins containing PUR domain. (embl-heidelberg.de)
  • The complete taxonomic breakdown of all proteins with PUR domain is also avaliable . (embl-heidelberg.de)
  • Click on the protein counts, or double click on taxonomic names to display all proteins containing PUR domain in the selected taxonomic class. (embl-heidelberg.de)
  • Taxonomic distribution of proteins containing ZnF_C2C2 domain. (embl.de)
  • The human GR is a modular protein composed of distinct regions illustrated in panel B in the image below, as follows: (1) The amino-terminal A/B region, also called immunogenic or N-terminal domain (NTD) and (2) the C, D, and E regions, which correspond to the DNA-binding domain, the hinge region, and the ligand-binding domain, respectively. (medscape.com)
  • 5, 6] The DBD is the most highly conserved domain throughout the steroid receptor family. (medscape.com)
  • Here, high mobility group box-1 (HMGB-1) protein was explored as a potential mediator of stress-induced microglial priming and whether HMGB-1 does so via the nucleotide-binding domain, leucine-rich repeat, pyrin domain containing protein 3 (NLRP3) inflammasome. (jneurosci.org)
  • Characterization of DNA recognition by the human UV-damaged DNA-binding protein. (ncl.edu.tw)
  • Researchers can utilize this "arched and snapped" appearance to look for other drugs that affect fission yeast proteins in the same manner. (oist.jp)
  • In the laboratory of David R. Liu at Harvard University, a method has been developed that allows bacteriophages to rapidly evolve DNA-binding proteins autonomously so that they become more targetable over time. (genengnews.com)
  • The locus of Rubinstein-Taybi syndrome is located on band 16p13.3, which includes a gene encoding a binding protein for cyclic adenosine monophosphate-response element binding protein (CBP) ( CREBBP or CBP gene) that is responsible for the phenotype of Rubinstein-Taybi syndrome. (medscape.com)