A sensitive method for the determination of protein-DNA binding specificities

scientific article

A sensitive method for the determination of protein-DNA binding specificities is …
instance of (P31):
scholarly articleQ13442814

External links are
P356DOI10.1093/NAR/18.21.6197
P932PMC publication ID332481
P698PubMed publication ID2243767
P5875ResearchGate publication ID20911839

P50authorRichard TreismanQ21165478
P2093author name stringPollock R
P2860cites workIsolation and properties of cDNA clones encoding SRF, a transcription factor that binds to the c-fos serum response elementQ24297374
Interactions between heterologous helix-loop-helix proteins generate complexes that bind specifically to a common DNA sequenceQ24300878
Use of peptide tagging to detect proteins expressed from cloned genes: deletion mapping functional domains of Drosophila hsp 70Q24555634
The GLI gene encodes a nuclear protein which binds specific sequences in the human genomeQ24598690
Compilation of transcription regulating proteinsQ24599406
DNA binding site of the growth factor-inducible protein Zif268Q24603450
Accurate transcription initiation by RNA polymerase II in a soluble extract from isolated mammalian nucleiQ27860728
Isolation of monoclonal antibodies specific for human c-myc proto-oncogene productQ27860841
Enzymatic amplification of beta-globin genomic sequences and restriction site analysis for diagnosis of sickle cell anemiaQ27861076
A protein involved in minichromosome maintenance in yeast binds a transcriptional enhancer conserved in eukaryotesQ27934863
CpG-rich islands and the function of DNA methylationQ28131800
Production of single-stranded plasmid DNAQ29547328
A C-terminal signal prevents secretion of luminal ER proteinsQ29618994
Method to identify genomic targets of DNA binding proteinsQ33553471
DNA bending is induced by a transcription factor that interacts with the human c-FOS and alpha-actin promotersQ33846258
The segment-specific gene Krox-20 encodes a transcription factor with binding sites in the promoter region of the Hox-1.4 geneQ33919366
MyoD is a sequence-specific DNA binding protein requiring a region of myc homology to bind to the muscle creatine kinase enhancerQ34453492
Whole genome PCR: application to the identification of sequences bound by gene regulatory proteinsQ35227520
fra-1: a serum-inducible, cellular immediate-early gene that encodes a fos-related antigen.Q36433594
Defining the sequence specificity of DNA-binding proteins by selecting binding sites from random-sequence oligonucleotides: analysis of yeast GCN4 proteinQ36769575
The sequence specificity of homeodomain-DNA interactionQ37365960
The SRE: a growth factor responsive transcriptional regulatorQ37844409
Sequence-specific DNA-binding activities of the gap proteins encoded by hunchback and Krüppel in DrosophilaQ38235594
Target Detection Assay (TDA): a versatile procedure to determine DNA binding sites as demonstrated on SP1 proteinQ38340482
Fos and Jun: the AP-1 connectionQ39606540
Binding of an SV40 T antigen-related protein to the DNA of SV40 regulatory mutantsQ40123430
Point mutational analysis of the human c-fos serum response factor binding siteQ40521350
Two distinct cellular phosphoproteins bind to the c-fos serum response elementQ40818085
The Drosophila developmental gene, engrailed, encodes a sequence-specific DNA binding activityQ40879101
Identification and purification of a polypeptide that binds to the c-fos serum response elementQ41926839
The inner core of the serum response element mediates both the rapid induction and subsequent repression of c-fos transcription following serum stimulationQ42478045
Selective DNA binding of the human cellular myb protein isolated by immunoaffinity chromatography using a monoclonal antibodyQ44057476
Binding of a simian virus 40 T antigen-related protein to DNAQ44167079
An Ultrabithorax protein binds sequences near its own and the Antennapedia P1 promotersQ44388493
Krüppel requirement for knirps enhancement reflects overlapping gap gene activities in the Drosophila embryoQ45757474
The caudal gene product is a direct activator of fushi tarazu transcription during Drosophila embryogenesisQ46370183
Viral myb oncogene encodes a sequence-specific DNA-binding activity.Q46760013
The products of the Drosophila gap genes hunchback and Krüppel bind to the hunchback promotersQ47071709
Transient accumulation of c-fos RNA following serum stimulation requires a conserved 5' element and c-fos 3' sequencesQ48375058
Cellular targets for SV40 large T-antigen.Q53541999
Random cloning and sequencing by the M13/dideoxynucleotide chain termination method.Q54769070
[4] Preparation and use of nuclease-treated rabbit reticulocyte lysates for the translation of eukaryotic messenger RNAQ56492105
Analysis of serum response element function in vitroQ58484999
Identification of a protein-binding site that mediates transcriptional response of the c-fos gene to serum factorsQ58485006
Induction of c-fos-like protein in spinal cord neurons following sensory stimulationQ59064203
P433issue21
P407language of work or nameEnglishQ1860
P304page(s)6197-6204
P577publication date1990-11-01
P1433published inNucleic Acids ResearchQ135122
P1476titleA sensitive method for the determination of protein-DNA binding specificities
P478volume18

Reverse relations

cites work (P2860)
Q33744146A MADS box protein consensus binding site is necessary and sufficient for activation of the opaque-phase-specific gene OP4 of Candida albicans.
Q35593078A consensus sequence for binding of Lrp to DNA
Q36758212A library of yeast genomic MCM1 binding sites contains genes involved in cell cycle control, cell wall and membrane structure, and metabolism
Q44314962A modified sensor chip for surface plasmon resonance enables a rapid determination of sequence specificity of DNA-binding proteins.
Q30832989ABFs, a family of ABA-responsive element binding factors
Q28769978An SRY-related gene expressed during spermatogenesis in the mouse encodes a sequence-specific DNA-binding protein
Q31937697An oligo selection procedure for identification of sequence-specific DNA-binding activities associated with the plant defence response
Q35766840Applied bioinformatics for the identification of regulatory elements
Q38299974Aptamers as potential nucleic acid pharmaceuticals.
Q24312053Association of erythroid transcription factors: complexes involving the LIM protein RBTN2 and the zinc-finger protein GATA1
Q34768061Avian cellular homolog of the qin oncogene
Q33845803Bacterial promoter architecture: subsite structure of UP elements and interactions with the carboxy-terminal domain of the RNA polymerase alpha subunit
Q51789374CBFA2T3-ZNF652 corepressor complex regulates transcription of the E-box gene HEB.
Q45752680CINCINNATA in Antirrhinum majus directly modulates genes involved in cytokinin and auxin signaling.
Q34664567Cdc42p GDP/GTP cycling is necessary for efficient cell fusion during yeast mating
Q38293296Characterization of Hoxd1 protein-DNA-binding specificity using affinity chromatography and random DNA oligomer selection
Q40653034Characterization of the DNA target site for the yeast ARGR regulatory complex, a sequence able to mediate repression or induction by arginine
Q31126784Combinatorial peptide library methods for immunobiology research
Q28473712Control of jasmonate biosynthesis and senescence by miR319 targets
Q36644903Cooperative binding of Ets-1 and core binding factor to DNA
Q24563587Cyclic amplification and selection of targets for multicomponent complexes: myogenin interacts with factors recognizing binding sites for basic helix-loop-helix, nuclear factor 1, myocyte-specific enhancer-binding factor 2, and COMP1 factor
Q40394722DNA bending in the ternary nucleoprotein complex at thec-fosprometer
Q39725924DNA binding and dimerisation determinants of Antirrhinum majus MADS-box transcription factors.
Q37326576DNA binding and heteromerization of the Drosophila transcription factor chorion factor 1/ultraspiracle
Q30970895DNA binding and transcription activation by chicken interferon regulatory factor-3 (chIRF-3).
Q24646362DNA binding by MADS-box transcription factors: a molecular mechanism for differential DNA bending
Q40469140DNA binding by the meningococcal RdgC protein, associated with pilin antigenic variation.
Q28608963DNA binding site selection of dimeric and tetrameric Stat5 proteins reveals a large repertoire of divergent tetrameric Stat5a binding sites
Q38289296DNA binding sites for the transcriptional activator/repressor YY1.
Q38293002DNA binding specificity determinants in MADS-box transcription factors
Q41613194DNA recognition and bending
Q43541513DNA-binding and dimerization preferences of Arabidopsis homeodomain-leucine zipper transcription factors in vitro
Q34608044DNA-binding properties of Arabidopsis MADS domain homeotic proteins APETALA1, APETALA3, PISTILLATA and AGAMOUS.
Q27940331DNA-binding specificity of Mcm1: operator mutations that alter DNA-bending and transcriptional activities by a MADS box protein
Q36550283DNA-binding specificity of the PAR basic leucine zipper protein VBP partially overlaps those of the C/EBP and CREB/ATF families and is influenced by domains that flank the core basic region
Q38315274DNA-binding specificity of the S8 homeodomain
Q34823519Definition of a consensus DNA binding site for SRY.
Q37386358Determination of floral organ identity by Arabidopsis MADS domain homeotic proteins AP1, AP3, PI, and AG is independent of their DNA-binding specificity
Q38323691Determination of recognition-sequences for DNA-binding proteins by a polymerase chain reaction assisted binding site selection method (BSS) using nitrocellulose immobilized DNA binding protein
Q35697181Dictyostelium discoideum developmentally regulated genes whose expression is dependent on MADS box transcription factor SrfA.
Q38667242Differences in DNA-binding specificity of floral homeotic protein complexes predict organ-specific target genes
Q34822878Different binding specificities and transactivation of variant CRE's by CREB complexes
Q24601528Dimerization specificity of Arabidopsis MADS domain homeotic proteins APETALA1, APETALA3, PISTILLATA, and AGAMOUS
Q33354865Dissecting direct and indirect readout of cAMP receptor protein DNA binding using an inosine and 2,6-diaminopurine in vitro selection system
Q38314100Distinct DNA binding preferences for the c-Myc/Max and Max/Max dimers.
Q44326960Domain of E. coli translational initiation factor IF2 homologous to lambda cI repressor and displaying DNA binding activity
Q40806466Dual DNA binding specificity of a petal epidermis-specific MYB transcription factor (MYB.Ph3) from Petunia hybrida
Q44934504Dynamics of DNAin vitroevolution withMnt-repressor: Simulations and analysis
Q34593714Elk-1 can recruit SRF to form a ternary complex upon the serum response element
Q24290205Eos and pegasus, two members of the Ikaros family of proteins with distinct DNA binding activities
Q36692472Evi-1, a murine zinc finger proto-oncogene, encodes a sequence-specific DNA-binding protein
Q73326953Evidence for direct activation of an anthocyanin promoter by the maize C1 protein and comparison of DNA binding by related Myb domain proteins
Q38313648Evidence that retinoic acid receptor beta induction by retinoids is important for tumor cell growth inhibition
Q28206926Evidence that the human death receptor 4 is regulated by activator protein 1
Q33886675Expression of MHC class II molecules in different cellular and functional compartments is controlled by differential usage of multiple promoters of the transactivator CIITA.
Q38328049Extension of the DNA binding consensus of the chicken c-Myb and v-Myb proteins
Q22253963FHX, a novel fork head factor with a dual DNA binding specificity
Q21093284Functional studies of BCL11A: characterization of the conserved BCL11A-XL splice variant and its interaction with BCL6 in nuclear paraspeckles of germinal center B cells
Q24310489GDNF-inducible zinc finger protein 1 is a sequence-specific transcriptional repressor that binds to the HOXA10 gene regulatory region
Q46274579Genome-wide analysis of spatial gene expression in Arabidopsis flowers.
Q24594553HITS-CLIP: panoramic views of protein-RNA regulation in living cells
Q38332496HIV-1 Rev regulation involves recognition of non-Watson-Crick base pairs in viral RNA.
Q40806130HMG-D is an architecture-specific protein that preferentially binds to DNA containing the dinucleotide TG.
Q35857743Human T-cell leukemia virus type 1 Tax enhances serum response factor DNA binding and alters site selection
Q24317094Human and mouse MOK2 proteins are associated with nuclear ribonucleoprotein components and bind specifically to RNA and DNA through their zinc finger domains
Q28142971Human microphthalmia associated with mutations in the retinal homeobox gene CHX10
Q24563322Identification and preliminary characterization of a protein motif related to the zinc finger
Q36825593Identification of C/EBP basic region residues involved in DNA sequence recognition and half-site spacing preference
Q48066308Identification of a Stat gene that functions in Drosophila development
Q33303151Identification of a calmodulin-binding NAC protein as a transcriptional repressor in Arabidopsis
Q31465756Identification of a carboxyl-terminal diaphanous-related formin homology protein autoregulatory domain
Q38339893Identification of a functional serum response element in the HTLV-I LTR.
Q35810656Identification of a new hybrid serum response factor and myocyte enhancer factor 2-binding element in MyoD enhancer required for MyoD expression during myogenesis
Q38322920Identification of amino acids essential for DNA binding and dimerization in p67SRF: implications for a novel DNA-binding motif.
Q36275729Identification of an UP element consensus sequence for bacterial promoters
Q24797328Identification of conserved regulatory elements by comparative genome analysis
Q38330363Identification of nucleotide preferences in DNA sequences recognised specifically by c-Ets-1 protein
Q34633867Identification of preferred hTBP DNA binding sites by the combinatorial method REPSA.
Q24292357Identification of target genes regulated by PAX3 and PAX3-FKHR in embryogenesis and alveolar rhabdomyosarcoma
Q38298307Identification of the DNA sequence interacting with Kaposi's sarcoma-associated herpesvirus viral interferon regulatory factor 1.
Q35233885Identifying functional single nucleotide polymorphisms in the human CArGome
Q47884663Identity between rat htf and human xbp-1 genes: determination of gene structure, target sequence, and transcription promotion function for HTF.
Q33532297Immunohistochemical detection of transgene expression in the brain using small epitope tags
Q36365913Importance of low affinity Elf-1 sites in the regulation of lymphoid-specific inducible gene expression
Q35342098In vitro genetics
Q24546115Interaction of the CNC-bZIP factor TCF11/LCR-F1/Nrf1 with MafG: binding-site selection and regulation of transcription
Q52570966Interactions of high mobility group box proteins with DNA and chromatin.
Q34055611Iroquois transcription factors recognize a unique motif to mediate transcriptional repression in vivo
Q35859767Isolation and characterization of the binding sequences for the product of the Arabidopsis floral homeotic gene AGAMOUS.
Q33224175Isolation of a calmodulin-binding transcription factor from rice (Oryza sativa L.).
Q33353301Isolation of heat shock factor HsfA1a-binding sites in vivo revealed variations of heat shock elements in Arabidopsis thaliana
Q29614419JASPAR: an open-access database for eukaryotic transcription factor binding profiles
Q38579800Journey to the surface of the cell: Fos regulation and the SRE
Q33269792Large-scale discovery of promoter motifs in Drosophila melanogaster
Q34778070MEF2 proteins, including MEF2A, are expressed in both muscle and non-muscle cells
Q28584968MIDA1, a protein associated with Id, regulates cell growth
Q48083800MIKC* MADS-protein complexes bind motifs enriched in the proximal region of late pollen-specific Arabidopsis promoters
Q39634704Mechanism of high-mobility group protein B enhancement of progesterone receptor sequence-specific DNA binding.
Q34664514Mef2A, a homologue of animal Mef2 transcription factors, regulates cell differentiation in Dictyostelium discoideum
Q58834927Missing Links: DNA‐Binding and Target Gene Specificity of Floral Homeotic Proteins
Q47962300Modifications in protein binding to upstream sequences of the sea urchin cytoplasmic actin gene CyIIa in comparison to its linked neighbors, CyI and CyIIb
Q34491450Molecular action of androgen in the normal and neoplastic prostate
Q28306611Molecular dissection reveals decreased activity and not dominant negative effect in human OTX2 mutants
Q38295569Mouse interleukin-2 receptor alpha gene expression. Interleukin-1 and interleukin-2 control transcription via distinct cis-acting elements
Q33965424Multiple Domains Define the Expression and Regulatory Properties of Foxp1 Forkhead Transcriptional Repressors
Q37070886Multiple transcription factor codes activate epidermal wound-response genes in Drosophila
Q33938625Muscle-specific expression of SRF-related genes in the early embryo of Xenopus laevis
Q38292380Mutation of the Oct-1 POU-specific recognition helix leads to altered DNA binding and influences enhancement of adenovirus DNA replication
Q38756546Mycobacterial transcriptional signals: requirements for recognition by RNA polymerase and optimal transcriptional activity
Q36555088N- and C-terminal sequences control degradation of MAD3/I kappa B alpha in response to inducers of NF-kappa B activity
Q38334250Nucleotide preferences in sequence-specific recognition of DNA by c-mybprotein
Q45797739Odd paired transcriptional activation of decapentaplegic in the Drosophila eye/antennal disc is cell autonomous but indirect.
Q45855291Optimizing radiation-responsive gene promoters for radiogenetic cancer therapy.
Q35184214Optomotor-blind in the development of the Drosophila HS and VS lobula plate tangential cells
Q38349547Pentaprobe: a comprehensive sequence for the one-step detection of DNA-binding activities
Q38293851Preferential recognition of specific DNA motifs by anti-double-stranded DNA autoantibodies.
Q36556982Quantitative discrimination of MEF2 sites
Q28508784RBP-L, a transcription factor related to RBP-Jkappa
Q38317411Recognition DNA Sequences of Interferon Regulatory Factor 1 (IRF-1) and IRF-2, Regulators of Cell Growth and the Interferon System
Q24315851Recruitment of the tinman homolog Nkx-2.5 by serum response factor activates cardiac alpha-actin gene transcription
Q38304435Redox-dependent shift of OxyR-DNA contacts along an extended DNA-binding site: a mechanism for differential promoter selection
Q35610675Regulated expression of a repressor protein: FadR activates iclR.
Q40376965Role for bovine viral diarrhea virus Erns glycoprotein in the control of activation of beta interferon by double-stranded RNA
Q41543546Role of active site tyrosines in dynamic aspects of DNA binding by AP endonuclease
Q42818840Roles of an Ets motif and a novel CACGAC direct repeat in transcription of the murine dihydrolipoamide dehydrogenase (Dld) gene
Q39541229SELEX_DB: an activated database on selected randomized DNA/RNA sequences addressed to genomic sequence annotation
Q38327625SRF and MCM1 have related but distinct DNA binding specificities
Q35899736Selection of DNA binding sites for zinc fingers using rationally randomized DNA reveals coded interactions
Q36670141Selection of new HSF1 and HSF2 DNA-binding sites reveals difference in trimer cooperativity
Q24293705Selection of optimal kappa B/Rel DNA-binding motifs: interaction of both subunits of NF-kappa B with DNA is required for transcriptional activation
Q37677139Sequence specificity of triplex DNA formation: Analysis by a combinatorial approach, restriction endonuclease protection selection and amplification
Q24652195Sequence-specific targeting of nuclear signal transduction pathways by homeodomain proteins
Q44646330Solid-Phase Total Synthesis of Scytalidamide A
Q24555659Spatial flexibility in ternary complexes between SRF and its accessory proteins
Q28140287Stat5a and Stat5b: fraternal twins of signal transduction and transcriptional activation
Q33359110Structural basis for the oligomerization of the MADS domain transcription factor SEPALLATA3 in Arabidopsis
Q27729816Structure of serum response factor core bound to DNA
Q24652983Structure of the progesterone receptor-deoxyribonucleic acid complex: novel interactions required for binding to half-site response elements
Q40922456Synthetic peptides in biochemical research
Q24522480TFII-I enhances activation of the c-fos promoter through interactions with upstream elements
Q38294805The Arabidopsis MADS-box gene AGL3 is widely expressed and encodes a sequence-specific DNA-binding protein
Q28590036The Brachyury gene encodes a novel DNA binding protein
Q57843288The C-terminal Domain of Eos Forms a High Order Complex in Solution
Q73836155The C-terminal subdomain makes an important contribution to the DNA binding activity of the Pax-3 paired domain
Q34133992The CD23a and CD23b proximal promoters display different sensitivities to exogenous stimuli in B lymphocytes
Q41543532The DNA binding specificity of the bipartite POU domain and its subdomains
Q38288925The ETS-domain transcription factors Elk-1 and SAP-1 exhibit differential DNA binding specificities.
Q24562984The HOX11 gene encodes a DNA-binding nuclear transcription factor belonging to a distinct family of homeobox genes
Q28513108The Ikaros gene encodes a family of functionally diverse zinc finger DNA-binding proteins
Q38333096The N-terminal methionine is a major determinant of the DNA binding specificity of MEF-2C.
Q36354804The SRF and MCM1 transcription factors
Q27939358The Saccharomyces cerevisiae MADS-box transcription factor Rlm1 is a target for the Mpk1 mitogen-activated protein kinase pathway
Q38321297The TRA-1A sex determination protein of C. elegans regulates sexually dimorphic cell deaths by repressing the egl-1 cell death activator gene
Q24324714The ZNF35 human zinc finger gene encodes a sequence-specific DNA-binding protein
Q36574714The binding site of the IclR repressor protein overlaps the promoter of aceBAK
Q48472319The centromeric/nucleolar chromatin protein ZFP-37 may function to specify neuronal nuclear domains
Q40874279The cysteine-rich LIM domains inhibit DNA binding by the associated homeodomain in Isl-1.
Q43251324The discovery, positioning and verification of a set of transcription-associated motifs in vertebrates
Q40404722The identification of elements determining the different DNA binding specificities of the MADS box proteins p67SRF and RSRFC4.
Q35905964The nuclear targeting and nuclear retention properties of a human DNA repair protein O6-methylguanine-DNA methyltransferase are both required for its nuclear localization: the possible implications
Q33889254The oncogenic T cell LIM-protein Lmo2 forms part of a DNA-binding complex specifically in immature T cells
Q33235450The ribosomal protein L32-2 (RPL32-2) of S. pombe exhibits a novel extraribosomal function by acting as a potential transcriptional regulator
Q34064513The two zinc finger-like domains of GATA-1 have different DNA binding specificities
Q52598190Transactivation domains are not functionally conserved between vertebrate and invertebrate serum response factors.
Q28212953Transcription repression of human hepatitis B virus genes by negative regulatory element-binding protein/SON
Q35985157Transcriptional regulation of the cyclin D1 gene at a glance
Q24337465Transcriptional repression by a novel member of the bZIP family of transcription factors
Q41294965Ubiquitin-mediated processing of NF-kappa B transcriptional activator precursor p105. Reconstitution of a cell-free system and identification of the ubiquitin-carrier protein, E2, and a novel ubiquitin-protein ligase, E3, involved in conjugation
Q38311902Use of a selection technique to identify the diversity of binding sites for the yeast RAP1 transcription factor
Q35655392Use of gel retardation to analyze protein-nucleic acid interactions
Q87970293VASCULAR PLANT ONE-ZINC FINGER1 (VOZ1) and VOZ2 Interact with CONSTANS and Promote Photoperiodic Flowering Transition
Q28588326Vertebrate DM domain proteins bind similar DNA sequences and can heterodimerize on DNA
Q27931555Xbp1, a stress-induced transcriptional repressor of the Saccharomyces cerevisiae Swi4/Mbp1 family
Q38297876Zfyl encodes a nuclear sequence-specific DNA binding protein
Q34994640Zinc fingers in sex determination: only one of the two C. elegans Tra-1 proteins binds DNA in vitro
Q24810241oPOSSUM: identification of over-represented transcription factor binding sites in co-expressed genes

Search more.