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Sample search results for: a1 binding site

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1 http://ecoserver.imbb.forth.gr/BIO321.htm The peptide bond
 

Summary:  - Polypeptide subunts may associate/ dissociate upon ligand binding #12;rigid flexible <1A >1A External Internal... and binding sites #12;Proteins work by binding other molecules #12;Binding occurs because of steric and charge... ...

  

Source: Economou, Tassos - Institute of Molecular Biology and Biotechnology, Foundation of Research and Technology, Hellas

 

Collection: Biology and Medicine

 
2 A PROBABILISTIC MODEL FOR COMPETITIVE BINDING OF TRANSCRIPTION Kirsti Laurila1
 

Summary:  binding of multiple TFs simultaneous, let A = {a1, . . . , ac} denote the starting positions of c non... prediction methods for multiple TFs base mainly on searching for clustered binding sites or cis... specific antibodies do not exist. As a consequence, predicting transcription factor ...

  

Source: Yli-Harja, Olli - Institute of Signal Processing, Tampere University of Technology

 

Collection: Computer Technologies and Information Sciences

 
3 Can the Monomer of the Leucine Zipper Proteins Recognize the Dimer Binding Site without Dimerization?
 

Summary:  Can the Monomer of the Leucine Zipper Proteins Recognize the Dimer Binding Site without... believed that leucine zipper regulatory proteins for DNA transcription recognize their DNA binding sites... as dimers preformed in solution (and that the monomers do not bind specifically to these ...

  

Source: Goddard III, William A. - Materials and Process Simulation Center & Department of Chemistry, California Institute of Technology

 

Collection: Materials Science

 
4 Stochastic evolution of transcription factor binding sites Johannes Berg and Michael Lassig
 

Summary:  . There is typically one particular nucleotide a i preferred for binding; the sequence (a 1, . . . , a ) is called... -called two-state model [14]. The binding energy of any se- quence (a1, . . . , a ) is then, up... Stochastic evolution of transcription factor ...

  

Source: Lässig, Michael - Institut für Theoretische Physik, Universität zu Köln

 

Collection: Physics

 
5 7.32/7.81J/8.591J Systems Biology A. van Oudenaarden MIT September 20097 II Equilibrium binding and cooperativity
 

Summary:  on the steady state behavior of reversible reactions and introduce the concept of multiple binding sites... . Initially we will consider multiple binding sites that are independently binding substrates. However... a protein has n binding sites ...

  

Source: van Oudenaarden, Alexander - Department of Physics, Massachusetts Institute of Technology (MIT)

 

Collection: Biology and Medicine ; Physics

 
6 HNF4A Transcription Factor Binding Sequences are Widespread in Alu Repeats. Eugene Bolotin1
 

Summary:  a platform for transcription factor binding. Results: In this study, we show that binding sites for a highly... nuclear factor 4alpha (HNF4a, NR2A1), are highly prevalent in Alu elements. We employ high throughput... perform a comparative genomics analysis to shed light on the evolution ...

  

Source: Sahinalp, S. Cenk - School of Computing Science, Simon Fraser University

 

Collection: Biology and Medicine ; Computer Technologies and Information Sciences

 
7 Proc. Natl. Acad. Sci. USA Vol. 95, pp. 85268531, July 1998
 

Summary:  two element-encoded pro- teins, TnpA and TnpD. Although there are multiple TnpA binding sites near... affected by the number of binding sites per DNA fragment. However, intermolecular complexes form... cooperatively be- tween DNA fragments with three or more TnpA binding ...

  

Source: Schläppi, Michael - Biological Sciences Department,, Marquette University

 

Collection: Biology and Medicine

 
8 Activators, Repressors and Dual RegulatorsActivators, Repressors and Dual Regulators Domain architecture, DNA binding domain or partner domain type
 

Summary:  the transcription start site is the determining factor 6A:1R:6D 1R:1D 8R:2D 2R 1R 1R 1R 1R 4A:5D 2A:1D 1A 1A 1A 1A 1... ...

  

Source: Babu, M. Madan - Laboratory of Molecular Biology, MRC

 

Collection: Biotechnology

 
9 1. The Glycobiology Institute, Department of Biochemistry, University of Oxford, South Parks Road, Oxford OX1 3QU, U.K. 2. Molecular Immunology Group, Tenovus Laboratory, Cancer Sciences Division, Southampton University Hospitals Trust, Southampton SO16 6
 

Summary:  cells involving oligomannose glycans in the antigen binding site of IgG Radcliffe, C.M.1, Arnold, J.N.1... , Suter, D.M.1, Wormald, M.R.1, Harvey, D.J.1, Bendandi, M.3, Dwek, R.A.1, Stevenson, F.K.2 Rudd, P.M.1... binding region. T002 has 3 sites; 2 ...

  

Source: Oxford Glycobiology Institute

 

Collection: Chemistry ; Biology and Medicine

 
10 Formation of regulatory modules by local sequence duplication Armita Nourmohammad1
 

Summary:  (a) of genotypes a = (a1, . . . , a ), which describes a specific set of sequence sites with consecutive base pairs... of length is a probability dis- #12;17 tribution Q(a) for sites a = (a1, . . . , a ) which differs... site sequences a = ...

  

Source: Lässig, Michael - Institut für Theoretische Physik, Universität zu Köln

 

Collection: Physics

 
11 Reprogramming Alternative Pre-messenger RNA Splicing through the Use of Protein-binding Antisense Oligonucleotides*
 

Summary:  binding sites for the heterogeneous nuclear ribonu- cleoprotein A1/A2 proteins. In a HeLa cell extract... . In four different human cell lines, an interfering oligonucleo- tide carrying A1/A2 binding sites also... splice ...

  

Source: Abou Elela, Sherif - Département de Microbiologie et d'Infectiologie, Université de Sherbrooke

 

Collection: Biology and Medicine

 
12 domain is equally informative. `A-type' and `C-type' proteinprotein interaction sites have been implicated
 

Summary:  identical cooperative binding sites. Proc. Natl Acad. Sci. U.S.A. 96, 2042­2047 15 Burns, C.S. et al. (2002... ) Molecular features of the copper binding sites in the octarepeats domain of the prion protein. Biochemistry... families and binding sites M. Madan Babu ...

  

Source: Babu, M. Madan - Laboratory of Molecular Biology, MRC; Teichmann, Sarah - Laboratory of Molecular Biology, MRC

 

Collection: Biology and Medicine ; Biotechnology

 
13 Structure-based prediction of RNA-binding domains and RNA-binding sites and application to
 

Summary:  p6rA1 (40)] as RNA binding proteins. In fact, some of the them were crystallized with RNA and DNA... Structure-based prediction of RNA-binding domains and RNA-binding sites and application... ) and RNA binding sites in two ...

  

Source: Zhou, Yaoqi - School of Informatics, Indiana University

 

Collection: Biology and Medicine

 
14 Cell, Vol. 122, 3343, July 12, 2005, Copyright 2005 by Elsevier Inc. DOI 10.1016/j.cell.2005.05.008 Chromosome-Wide Mapping of Estrogen Receptor
 

Summary:  . This was the PCR of a number of previously validated binding sites was performed. The decrease in FoxA1 completely... ER binding sites contained a Forkhead motif and an ERE or ERE half-site (Figure 5B). ...

  

Source: Brown, Myles - Dana-Farber Cancer Institute, Harvard University; Liu, Xiaole Shirley - Dana-Farber Cancer Institute & Department of Biostatistics, Harvard University

 

Collection: Biology and Medicine ; Biotechnology ; Computer Technologies and Information Sciences

 
15 BioMed Central Page 1 of 12
 

Summary:  ] or of the crater type, see fig. 1(a),1(b). Land- scapes for a pair of sites with cooperative binding interac- tions... AccessResearch article Adaptive evolution of transcription factor binding sites Johannes Berg, Stana... of a gene depends on the ...

  

Source: Lässig, Michael - Institut für Theoretische Physik, Universität zu Köln

 

Collection: Physics

 
16 Model for the Binding of the Inactivation N-Terminal to the Ion Pore of Shaker Potassium Channel: Both Electrostatic Attraction and Covalent Linkage Are Required for Rapid
 

Summary:  , and the average of the Boltzmann factor is over the outer edge of the binding site (corresponding to r ) a1... with the deletion mutant ShB6- 46. The binding site is modeled as a small patch on the surface of the channel... site. If the ...

  

Source: Weston, Ken - Department of Chemistry and Biochemistry, Florida State University

 

Collection: Chemistry

 
17 Design and synthesis of peptides that bind a-bungarotoxin with high affinity and mimic the three-dimensional structure of the
 

Summary:  -dimensional structure of the binding-site of acetylcholine receptor Abstract -Bungarotoxin ( -BTX) is a highly toxic... that the toxin wraps around the binding- site loop, and in addition, binds tightly at the interface of two... of the receptor subunits and blocks access of acetylcholine to its ...

  

Source: Kasher, Roni - Zuckerberg Institute for Water Research, Zuckerberg Institute for Water Research, Jacob Blaustein Institutes for Desert Research

 

Collection: Environmental Sciences and Ecology ; Environmental Management and Restoration Technologies

 
18 Compositional Binding in Network Domains Pamela Zave
 

Summary:  binding maps identifier I to address A1, and both A1 and A2 route to the same endpoint? The answer... AgentMove (g: Agent, a1, a2: Address, d1, d2: Domain) { { -- Preconditions: -- a1 is the result of a B ...

  

Source: Fisher, Kathleen - AT&T Labs Research

 

Collection: Computer Technologies and Information Sciences

 
19 Anesthetic Binding in a Pentameric Ligand-Gated Ion Channel: GLIC Qiang Chen,6
 

Summary:  fluctuation near the binding sites by >20%. Homologous salt-bridges in nAChR, i.e., a1-E45 and a1-R209 n... experiments showed halothane and thiopental binding at three tryptophan-associated sites in the extracellular... ...

  

Source: Xu, Yan - Center for the Neural Basis of Cognition & Departments of Anesthesiology & Structural Biology, University of Pittsburgh

 

Collection: Biology and Medicine

 
20 JOURNAL OF COMPUTATIONAL BIOLOGY Volume 12, Number 6, 2005
 

Summary:  ­701 Finding Motifs with Insufficient Number of Strong Binding Sites HENRY C.M. LEUNG,1 FRANCIS Y.L. CHIN,1 S... short substrings, or binding sites, with similar patterns. The motif discovering problem is to find... on strong-signal sequences only (i.e., those containing binding ...

  

Source: Chin, Francis Y.L. - Department of Computer Science, Hong Kong University

 

Collection: Computer Technologies and Information Sciences


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21 Probabilistic Inference of Transcription Factor Binding from Multiple Data Sources
 

Summary:  promoter has a binding site, but can also be extended to estimate the binding probability at each... , regulatory potential, CpG islands, nucleosome positioning, DNase hypersensitive sites, ChIP-chip binding... of binding sites. This mechanism is ...

  

Source: Yli-Harja, Olli - Institute of Signal Processing, Tampere University of Technology

 

Collection: Computer Technologies and Information Sciences

 
22 INTRODUCTION Many animal body plans are constructed of serially repeated
 

Summary:  find that multiple monomer Ubx-binding sites are required to completely repress this cis... -element in the haltere, and that individual Ubx-binding sites are sufficient to mediate its partial repression... Hox monomer binding sites. Furthermore, because the ...

  

Source: Ithaca College, Department,of Biology

 

Collection: Biology and Medicine

 
23 PROBABILISTIC FRAMEWORK FOR TRANSCRIPTION FACTOR BINDING Harri Lahdesmaki and Ilya Shmulevich
 

Summary:  , is known about genome-wide TF binding to gene promoters. Thus, tran- scription factor binding site (TFBS... TF binding sites are now widely used in computational biology. Binding site prediction tools have... binding ...

  

Source: Yli-Harja, Olli - Institute of Signal Processing, Tampere University of Technology

 

Collection: Computer Technologies and Information Sciences

 
24 PROBABILISTIC FRAMEWORK FOR TRANSCRIPTION FACTOR BINDING Harri Lahdesmaki and Ilya Shmulevich
 

Summary:  , is known about genome-wide TF binding to gene promoters. Thus, tran- scription factor binding site (TFBS... TF binding sites are now widely used in computational biology. Binding site prediction tools have... binding ...

  

Source: Shmulevich, Ilya - Department of Bioengineering, University of Washington at Seattle

 

Collection: Biotechnology ; Biology and Medicine

 
25 BioMed Central Page 1 of 13
 

Summary:  ) substitutions per site observed in the promoters in which these Gal4p binding sites are found (fig. 1A, 1B... binding sites Alan M Moses1, Derek Y Chiang2, Manolis Kellis3,5, Eric S Lander4,5 and Michael B Eisen*1... @lbl.gov * Corresponding ...

  

Source: Kellis, Manolis - Computer Science and Artificial Intelligence Laboratory & Department of Electrical Engineering and Computer Science, Massachusetts Institute of Technology (MIT)

 

Collection: Computer Technologies and Information Sciences

 
26 Models of transcription factor binding: Sensitivity of activation functions to model assumptions
 

Summary:  models of how transcription factors (TFs) bind to their specific binding sites on the DNA: a model based... source of cooperativity between specific binding sites, because such interactions tend to lead... . Introduction Controlled binding of transcription factors ...

  

Source: Kent, University of - Computing Laboratory

 

Collection: Computer Technologies and Information Sciences

 
27 Novel PAX6 Binding Sites in the Human Genome and the Role of Repetitive Elements
 

Summary:  , 16, or 18, found 16 locations with putative PD6 bind- ing sequences, including the Cyp39A1 gene (http... Novel PAX6 Binding Sites in the Human Genome and the Role of Repetitive Elements in the Evolution... binding sites that are specific for the ...

  

Source: Gu, Xun - Department of Genetics, Development and Cell Biology, Iowa State University

 

Collection: Environmental Sciences and Ecology ; Biotechnology

 
28 Eur. J. Biochem. 161,727-731 (1986) Cooperative DNA binding by lambda integration protein -
 

Summary:  -' Parameter Cooperative Non-cooperative binding a = 0 binding(a # 1) K1 = Kz(M-') 1 . 9 ( + 0 . 4 ) ~ 1 0 ~ ~9... that lambda integration protein (Int) exhibits cooperativity in binding to specific recognition sites within... of bind- ing sites ...

  

Source: Clore, G. Marius - Laboratory of Chemical Physics. National Institutes of Health

 

Collection: Biology and Medicine

 
29 Contributions of Amino Acid Side Chains to the Kinetics and Thermodynamics of the Bivalent Binding of Protein L to Ig Light Chain
 

Summary:  to have two binding sites for Ig, corresponding to the two edges of its -sheet. To verify these sites... binding to sites 1 and 2, using gel filtration, BIAcore surface plasmon resonance, fluorescence titration... and multivalently, consistent with two binding ...

  

Source: Baker, David - Center for Nanotechnology and NanoTechnology & Department of Biochemistry, University of Washington at Seattle

 

Collection: Chemistry ; Biotechnology

 
30 Persistence of external chloride and DIDS binding after chemical modification of Glu-681 in human band 3
 

Summary:  H. The putative proton binding site, Glu-681 in human erythro- cyte band 3, is conserved throughout the anion... exchanger family (AE family). To determine whether or not the monova- lent anion binding site is located... transport is inhibited 95% by WRK modification of Glu-681. This indicates that the ...

  

Source: Bahar, Sonya - Center for Neurodynamics, University of Missouri-St. Louis

 

Collection: Biology and Medicine

 
31 Human MutationREVIEW Mapping Structural Landmarks, Ligand Binding Sites, and
 

Summary:  that mutations affecting major ligand- binding sites, for example, for Von Hippel Lindau (VHL) protein in the a1... during angiogenesis results in the loss of a1b1 but gain of avb3 binding [Xu et al., 2000]. RGD sites... : a ...

  

Source: Jensen, Shane T. - Department of Statistics, University of Pennsylvania

 

Collection: Mathematics

 
32 Regulatory signals Project Assignment Bioinformatics module 2009
 

Summary:  are not addressing protein-protein type interactions but rather concentrate on detecting binding sites that could... binding sites usually given in the form of position-specific weight matrices (PSWM s). A number of tools... of being able to predict novel binding ...

  

Source: Goldschmidt, Christina - Department of Statistics, University of Warwick

 

Collection: Mathematics

 
33 Vol. 23 ECCB 2006, pages e104e109 doi:10.1093/bioinformatics/btl292BIOINFORMATICS
 

Summary:  , inspection of Figure 3 reveals that SULT2A1 is more similar in terms of binding site sequence and structure... sulfotransferase family. Binding site sequence and structural comparisons uncovered similarities between 2A1... ...

  

Source: Najmanovich, Rafael - European Bioinformatics Institute, Wellcome Trust Genome Campus Cambridge

 

Collection: Biotechnology ; Biology and Medicine

 
34 ABBREViATiONS: DOB, 1-(4-bromo-2,5-dimethoxy 4-bromoamphetamine; 5-HT, 5-hydroxytryptanune; d-LSD; d-lysergic acid diethylamide; GppNHp, guanosine 5'-(fl,-y-imido)trlphosphate; GTP'yS, guanosine-5'-O-(3-thio)triphosphate; 8-OH-OPAT, 8-hydroxy-2-di-N-propy
 

Summary:  al. (3), Hoyer et a!. (1 1), and Glennon et aI. (20). B, Drug affinities for 5-HT1 binding sites were... . MOLECULAR PHARMACOLOGY, 34:537-542 5-dimethoxyamphetamine Labels a Novel 5-Hydroxytryptamine Binding Site... M) for a relatively low density of ...

  

Source: Wang, Samuel S.-H. - Department of Molecular Biology, Princeton University

 

Collection: Biology and Medicine

 
35 2011NatureAmerica,Inc.Allrightsreserved. nature immunology aDVaNCE ONLINE PUBLICaTION
 

Summary:  b/p40) (VCAM-1) (IL-8) (MCP-1) (E-selectin) (IFNb;IP-10) (COL7A1) (ICAM-1) Glass slide B 10-bp site... -B dimers to noncanonical binding site sequences has also been reported and is suggestive of plasticity... in DNA binding. Examples include the c-Rel target ...

  

Source: Bulyk, Martha L. - Division of Genetics, Brigham and Women's Hospital, Harvard University

 

Collection: Biology and Medicine

 
36 Exploring the Binding Site Structure of the PPAR Ligand-Binding Domain by Computational Solvent Mapping
 

Summary:  Exploring the Binding Site Structure of the PPAR Ligand-Binding Domain by Computational Solvent... of information on the role and cooperativity of these sites. It shows that large portions of the ligand-binding... others at the region of the coactivator binding. The ...

  

Source: Vajda, Sandor - Department of Biomedical Engineering, Boston University

 

Collection: Biotechnology ; Biology and Medicine

 
37 Theoretical Aspects of Specific and Non-specific Equilibrium Binding of Proteins to DNA as Studied by the
 

Summary:  of EcoRI to DIiA. (1,) Sprc{fic and rLon-specijc binding of L. casei dihydrofolatr reductasr to p... , and a1 for interactions between the specific site and its adjacent non-specific sites (see eqn (12... -operative binding of ...

  

Source: Clore, G. Marius - Laboratory of Chemical Physics. National Institutes of Health

 

Collection: Biology and Medicine

 
38 Allosteric Modulation of 2-Adrenergic Receptor by Zn2 GAYATHRI SWAMINATH, JACQUELINE STEENHUIS, BRIAN KOBILKA, and TAE WEON LEE
 

Summary:  with engineered metal ion binding sites as a method to study G protein- coupled receptor (GPCR) structure (Sheikh... M isoproter- enol competes for binding sites with 1 nM [3 H]DHA in the presence of 10 M GTP S and varying... of Zn2 on Gs , possibly by competing for the Mg2 binding ...

  

Source: Kobilka, Brian - Department of Molecular and Cellular Physiology, Stanford University

 

Collection: Biology and Medicine

 
39 Decomposing Complex Cooperative Ligand Binding into Simple Components: Connections between Microscopic and
 

Summary:  implies that all binding sites are equivalent. The coefficients in eq 27 are then given by a1 = 4k1 a2 = 6... of the receptor with i ligands bound. The total binding curve X is in general described by eq 27. X = a1[L] + 2 a2... ...

  

Source: Ullmann, G. Matthias - Lehrstuhl Biopolymere, Universität Bayreuth

 

Collection: Biology and Medicine ; Chemistry

 
40 The Dual-Function Disabled-1 PTB Domain Exhibits Site Independence in Binding Phosphoinositide and Peptide Ligands
 

Summary:  The Dual-Function Disabled-1 PTB Domain Exhibits Site Independence in Binding Phosphoinositide... protein modules have only one ligand-binding site, there are rare examples of single modules that bind two... different ligands at distinct binding ...

  

Source: Blacklow, Stephen C. - Biophysics Program & Department of Pathology, Harvard University

 

Collection: Biology and Medicine


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41 Quantitative Relationships of Site to Site Interaction in Escherichia coli D-3-Phosphoglycerate Dehydrogenase
 

Summary:  sites and effector binding sites arranged in different orientations within the tetramer. They re- veal... eventually bind effector. That is, only two effector sites need to be occupied for maxi- mum inhibition... - mational change that essentially completely inhibits the active ...

  

Source: Kopan, Raphael - Department of Molecular Biology and Pharmacology, Washington University in St. Louis

 

Collection: Biology and Medicine

 
42 Energy-dependent fitness: A quantitative model for the evolution of yeast transcription factor
 

Summary:  binding sites Ville Mustonen*, Justin Kinney , Curtis G. Callan, Jr.§ , and Michael La¨ssig*§ *Institut fu... . Our model for binding site evolution is founded on biophysics: the binding energy be- tween... and gain, of functional binding sites ...

  

Source: Lässig, Michael - Institut für Theoretische Physik, Universität zu Köln

 

Collection: Physics

 
43 bindSDb: A Binding-information Spatial Database Damian Roqueiro
 

Summary:  a database that stores experimental binding data and predicted transcription factor binding sites. All true... and putative binding sites are stored in conjunction with the latest assembly of the human genome in a spatial... database that answers user-input queries about topological ...

  

Source: Dai, Yang - Department of Bioengineering, University of Illinois at Chicago

 

Collection: Engineering ; Biotechnology

 
44 IOP PUBLISHING PHYSICAL BIOLOGY Phys. Biol. 8 (2011) 044001 (4pp) doi:10.1088/1478-3975/8/4/044001
 

Summary:  binding sites for repressor `R' and four for activator `A1­A4'. The distance d is varied. (B) Gene... with four activator binding sites A1, A2, A3, A4 (numbered left to right in Figure 1 in the main manuscript... of ...

  

Source: Rippe, Karsten - BioQuant, Universität Heidelberg

 

Collection: Biology and Medicine

 
45 Gene regulation: From biophysics to evolutionary genetics
 

Summary:  of a site, which quantifies its functionality. E(a) a1 ... ak Transcription factor proteins bind... to specific DNA sites catalyzing transcription. E(a) depends on the site sequence a = (a1,...,ak... interactions ...

  

Source: Lässig, Michael - Institut für Theoretische Physik, Universität zu Köln

 

Collection: Physics

 
46 Cell wall attachment of a widely distributed peptidoglycan binding domain is hindered
 

Summary:  domain and the cA were separately produced in L. lactis. The active site domain A1-218 did not bind... not shown, but see below). The C-terminally truncated variant of AcmA, A1-218, and MSA2* did not bind... at sites where no ...

  

Source: Groningen, Rijksuniversiteit - Centre for Ecological and Evolutionary Studies, Department of Marine Benthic Ecology and Evolution,

 

Collection: Biology and Medicine ; Environmental Sciences and Ecology

 
47 DOI: 10.1002/cbic.201000442 Mechanisms of Macromolecular Protease Inhibitors
 

Summary:  of homology in the active site, substrate-like binding often leads to inhibitors that can potently inhibit... ] . The majority of protease inhibitors bind in and block access to the active site of their target protease... the catalyt- ic residues and out of the active site. The two ...

  

Source: Craik, Charles S. - Departments of Pharmaceutical Chemistry, Cellular and Molecular Pharmacology & Biochemistry and Biophysics,University of California at San Francisco

 

Collection: Biology and Medicine

 
48 BIOINFORMATICS APPLICATIONS NOTE Vol. 27 no. 13 2011, pages 18671868
 

Summary:  the binding site increase in occupancy, while those in the vicinity of the binding site itself are displaced... transcription factor binding events based on two observations. First, transcription factor binding sites... nucleosomes flanking the ...

  

Source: Liu, Xiaole Shirley - Dana-Farber Cancer Institute & Department of Biostatistics, Harvard University

 

Collection: Computer Technologies and Information Sciences ; Biotechnology ; Biology and Medicine

 
49 BINOCh: Binding Inference from Nucleosome Occupancy Clifford A. Meyer1
 

Summary:  in which nucleosomes flanking the binding site increase in occupancy while those in the vicinity... of the binding site itself are displaced. Genome wide information on enhancer proximal nucleosome occupancy can... , transcription factor binding sites are oftenasso- ...

  

Source: Liu, Xiaole Shirley - Dana-Farber Cancer Institute & Department of Biostatistics, Harvard University

 

Collection: Computer Technologies and Information Sciences ; Biotechnology ; Biology and Medicine

 
50 Classifying RNA-Binding Proteins Based on Electrostatic Shula Shazman, Yael Mandel-Gutfreund*
 

Summary:  for identify- ing RNA-binding sites on RBPs [19­22]. Here we present a machine learning approach to classifying... Classifying RNA-Binding Proteins Based on Electrostatic Properties Shula Shazman, Yael Mandel... . In this study, we apply a machine learning approach for classifying RNA-binding proteins based ...

  

Source: Mandel-Gutfreund, Yael - Department of Biology, Technion, Israel Institute of Technology

 

Collection: Biology and Medicine

 
51 Submandibular Gland Acinar Cells Express Multiple 1-Adrenoceptor Subtypes
 

Summary:  function. 1-Adrenoceptors are subdi- vided into three subtypes called 1A, 1B, and 1D, which can... - mandibular glands. RT-PCR identified mRNAs for 1A-, 1B-, and 1D-adrenoceptors in SMG-C10 cells... and fit best to a two-site binding model with 40 8% high (KiH)- and ...

  

Source: Bruchas, Michael R. - Department of Anesthesiology, Washington University in St. Louis

 

Collection: Biology and Medicine

 
52 www.landesbioscience.com RNA Biology 1 RNA Biology 8:6, 1-9; November/December 2011; 2011 Landes Bioscience
 

Summary:  binding sites, fold recognition, binding RNA types Thismanuscripthasbeenpublishedonline... prediction of RNA binding residues (or binding sites) directly based on either sequence-based11... binding sites even for the proteins ...

  

Source: Zhou, Yaoqi - School of Informatics, Indiana University

 

Collection: Biology and Medicine

 
53 Reprint from B. I. F. Futura (1997) 12, 20-26 Analysis of protein-DNA binding at equilibrium
 

Summary:  the binding of a protein to a single site on a DNA molecule. This can be analyzed conveniently... of cooperative binding an example is discussed for the binding of a protein to two identical binding sites... simple regulation mechanism would be that of a repressor ...

  

Source: Rippe, Karsten - BioQuant, Universität Heidelberg

 

Collection: Biology and Medicine

 
54 Evolutionary population genetics of promoters: Predicting binding sites and functional phylogenies
 

Summary:  verified binding sites in the DPInteract database (23). For each sequence count a (a1, . . . , al), we... (a1, . . . , al) of binding loci. These loci are treated as coherent population genetic units, taking... Evolutionary population genetics of ...

  

Source: Lässig, Michael - Institut für Theoretische Physik, Universität zu Köln; Zhong, Sheng - Department of Bioengineering, University of Illinois at Urbana-Champaign

 

Collection: Biology and Medicine ; Computer Technologies and Information Sciences ; Physics

 
55 FoxA1 Translates Epigenetic Signatures into Enhancer-Driven
 

Summary:  the ability of FoxA1 to bind nucleosomes, its differential binding to chroma- tin sites is dependent... (ChIP-chip) to define the reper- toire of FoxA1-binding sites, which we define as its ``cistrome... ...

  

Source: Brown, Myles - Dana-Farber Cancer Institute, Harvard University; Liu, Xiaole Shirley - Dana-Farber Cancer Institute & Department of Biostatistics, Harvard University

 

Collection: Biology and Medicine ; Biotechnology ; Computer Technologies and Information Sciences

 
56 Informatics Institute and Department of Computer Science
 

Summary:  · interaction = (S1, S2, Or) 6 #12;Protein-protein interaction vocabulary · Protein binding site... for an interaction I1= (S1, S2, Or) is a set of all pairs of contact residues, one from each protein binding site 7... #12;How to characterize an interaction interface · N of contact residues in a ...

  

Source: Cheng, Jianlin Jack - Department of Computer Science, University of Missouri-Columbia

 

Collection: Computer Technologies and Information Sciences

 
57 Informatics Institute and Department of Computer Science
 

Summary:  binding site for an interaction I1= (S1, S2, Or) is a set of all contact residues of either S1 or S2... each protein binding site 7 #12;How to characterize an interaction interface · N of contact residues... in a binding site ­ On average 20-30 residues per each ...

  

Source: Cheng, Jianlin Jack - Department of Computer Science, University of Missouri-Columbia

 

Collection: Computer Technologies and Information Sciences

 
58 J. Mol. Biol. (1996) 256, 201213 The Automatic Search for Ligand Binding Sites in
 

Summary:  J. Mol. Biol. (1996) 256, 201­213 The Automatic Search for Ligand Binding Sites in Proteins... -University of Berlin, Medical Faculty specific binding sites. These sites are located at the surface of the protein... such binding sites using ...

  

Source: Engelman, Donald M.- Department of Molecular Biophysics and Biochemistry, Yale University

 

Collection: Biology and Medicine

 
59 Shape analysis of higher-order programs
 

Summary:  ;Function = Closure = Lambda-term + Environment #12;x.A sin(x + ) #12;(x.A sin(x + ),[A=1,=1,=/2]) #12;cos... ;address :: binding #12;structure :: binding environment #12;heap :: value environment #12;shape analysis... ; Env = Var Clo Env = Var Clo Split environments (Shivers, 1991) #12; BEnv = Var ...

  

Source: Might, Matt - School of Computing, University of Utah

 

Collection: Computer Technologies and Information Sciences

 
60 Structural Analysis of Substrate and Effector Binding in Mycobacterium tuberculosis D-3-Phosphoglycerate Dehydrogenase,
 

Summary:  - structure and provide insight into the mode of serine binding and closure of the active site. Mutagenesis... on the presence of substrate. This observation, along with the binding of substrate in the active site... to the active site where substrate and cofactor would ...

  

Source: Kopan, Raphael - Department of Molecular Biology and Pharmacology, Washington University in St. Louis

 

Collection: Biology and Medicine


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61 Genome-wide analysis of estrogen receptor binding sites Jason S Carroll1, Clifford A Meyer2,3, Jun Song2,3, Wei Li2,3, Timothy R Geistlinger1, Jero^me Eeckhoute1,
 

Summary:  but not to any of the negative controls (Fig. 4b). FoxA1 binding occurred at most of these sites (but not at any... ,665 estrogen receptor binding sites in the entire human genome, we both confirmed the role of FoxA1... ...

  

Source: Brown, Myles - Dana-Farber Cancer Institute, Harvard University; Liu, Xiaole Shirley - Dana-Farber Cancer Institute & Department of Biostatistics, Harvard University

 

Collection: Biology and Medicine ; Biotechnology ; Computer Technologies and Information Sciences

 
62 A Statistical Model for Investigating Binding Probabilities of DNA Nucleotide Sequences Using Microarrays
 

Summary:  the binding log-probability ln Pa and the nucleotide structure of sequence a = {a1, . . . , al} (Agresti, 1996... the independence assumption, i.e., Pa > l i=1 Pai where a = {a1, · · · , al}, might be viewed as a binding... estimate the ratio of their ...

  

Source: Bulyk, Martha L. - Division of Genetics, Brigham and Women's Hospital, Harvard University; Church, George M. - Wyss Institute for Biologically Inspired Engineering & Department of Genetics, Harvard University

 

Collection: Biology and Medicine ; Biotechnology

 
63 Mode of receptor binding and activation by plasminogen-related growth factors
 

Summary:  chain for MSP. We propose that after cleavage exposes a LL chain binding site (high affinity for MSP... chain binding sites of different affinity. z 1998 Federation of European Biochemical Societies. Key... their speci¢c receptors? 2.1. The primary receptor binding ...

  

Source: Wlodawer, Alexander - Macromolecular Crystallography Laboratory, National Cancer Institute

 

Collection: Chemistry ; Biology and Medicine

 
64 Comparison of the Structure and DNA-binding Properties of the E2 Proteins from an Oncogenic and
 

Summary:  -risk HPV types, the papillomavirus E2 protein binds to four sites within the viral long con- trol region... DBDs recognise an extended version of the consensus E2 binding site derived from studies of the BPV1 E2... protein. In both cases, the preferred binding site ...

  

Source: Gaston, Kevin - Department of Biochemistry, University of Bristol

 

Collection: Biology and Medicine

 
65 Exploring the Binding Sites of the Haloalkane Dehalogenase DhlA from Xanthobacter autotrophicus GJ10
 

Summary:  Exploring the Binding Sites of the Haloalkane Dehalogenase DhlA from Xanthobacter autotrophicus GJ... to the active site, two pockets that bind Br- ions, a pocket in the slot region, and two additional sites... and cavities to the surface. Solvent mapping precisely reproduced all three ...

  

Source: Vajda, Sandor - Department of Biomedical Engineering, Boston University

 

Collection: Biotechnology ; Biology and Medicine

 
66 DIP-chip: Rapid and accurate determination of DNA-binding specificity
 

Summary:  binding-site descriptions. Using objective criteria for assessing the accuracy of DNA-binding motifs... ://genome.unc.edu.] Accurate binding-site descriptions of hundreds, or perhaps thou- sands of transcription factors... with the genome to generate coordinated transcriptional pro- grams. Well-established methods, like ...

  

Source: Lieb, Jason - Department of Biology, University of North Carolina at Chapel Hill

 

Collection: Biology and Medicine

 
67 Biophysical Chemistry 109 (2004) 137148 0301-4622/04/$ -see front matter 2003 Elsevier B.V. All rights reserved.
 

Summary:  , which demonstrates the ice-binding surface more hydro- phobic on average. For the wild type, the A1yA2... site is in the A1y A2 ratio for the polar groups. For the wild type, at 0.91 it is approximately 28... significant differences in the hydration structure of the ...

  

Source: Sharp, Kim - Department of Biochemistry and Biophysics, University of Pennsylvania

 

Collection: Biology and Medicine ; Chemistry

 
68 Prediction of structure and function of G protein-coupled receptors
 

Summary:  structure of GPCRs, and for predicting the ligand binding sites and relative binding affinities. Comparing... . We find that the predicted structure of 1-adrenergic receptor leads to a binding site for epinephrine... that agrees well with the mutation experiments. Similarly the predicted ...

  

Source: Goddard III, William A. - Materials and Process Simulation Center & Department of Chemistry, California Institute of Technology

 

Collection: Materials Science

 
69 From Biophysics to Evolutionary Genetics: Statistical Aspects of Gene Regulation
 

Summary:  relevant values of order 10). The specific binding energy E(r) depends on consecutive nucleotides a = (a1... ]. These can be summarized as follows: (a) The single nucleotides of a binding locus a (a1, . . . , a ) give... , there is a unique "ground state" sequence a = ...

  

Source: Lässig, Michael - Institut für Theoretische Physik, Universität zu Köln

 

Collection: Physics

 
70 Bradfield; Mechanisms of Liver Carcinogenesis 18 UNIT VI: Nuclear Receptors: Zn Finger proteins and their roles in
 

Summary:  are most often identified by sequence similarity. 2. Receptor: stereospecific binding sites for a molecule... ) Active gene expression through homo- and heterodimers, 7) Partners bind to characteristic DNA half-sites... proteins? ?? Steroid receptors bind as symmetrical homodimers. Each ...

  

Source: Bradfield, Christopher A. - McArdle Laboratory for Cancer , University of Wisconsin at Madison

 

Collection: Biology and Medicine

 
71 Saccharomyces cereVisiae Replication Protein A Binds to Single-Stranded DNA in Multiple Salt-Dependent Modes
 

Summary:  to determine whether scRPA can bind to ssDNA in multiple binding modes. We measured the occluded site size... . Measurements of the Hobsd for scRPA binding to (dT)L at 1.5 M NaCl yield a contact site size of 28 nucleotides... in which scRPA can bind to ssDNA in at ...

  

Source: Cistola, David P. - Department of Biochemistry and Molecular Biophysics, Washington University in St. Louis; Lohman, Timothy M. - Department of Biochemistry and Molecular Biophysics, Washington University in St. Louis

 

Collection: Biology and Medicine

 
72 On the Binding Determinants of the Glutamate Agonist with the Glutamate Receptor Ligand Binding Domain
 

Summary:  -1608]. A detailed picture of the interactions in the binding site is inferred by analyzing contributions... domains forming the ligand-binding site; TM1, TM2, P, and TM3 form the transmembrane region of each... structures is also reflected in kinetic experiments (12). Since the binding ...

  

Source: Kurnikova, Maria - Department of Chemistry, Carnegie Mellon University

 

Collection: Chemistry ; Biology and Medicine

 
73 REVIEWS Drug Discovery Today Volume 13, Numbers 3/4 February 2008 The application of FAST-NMR for the
 

Summary:  panel) Binding sites of 1MKYand 2E87. Binding- site residues for proteins (A) 1MKYand (B) 2E87. Residues... that a biological function can be described by a similarity in binding sites and ligand interactions with proteins... ...

  

Source: Powers, Robert - Department of Chemistry, University of Nebraska-Lincoln

 

Collection: Chemistry

 
74 Pocketome: an encyclopedia of small-molecule binding sites in 4D
 

Summary:  polypeptide chain, A1, representing the Uniprot entry AA2AR_HUMAN), list of binding site residues, full PDB... Pocketome: an encyclopedia of small-molecule binding sites in 4D Irina Kufareva1, *, Andrey V... August 15, 2011; Accepted September 18, 2011 ABSTRACT The ...

  

Source: Abagyan, Ruben - School of Pharmacy and Pharmaceutical Sciences, University of California at San Diego

 

Collection: Biology and Medicine

 
75 1,4-Dihydropyridine Binding Sites in Moss Plasma Membranes PROPERTIES OF RECEPTORS FOR A CALCIUM CHANNEL ANTAGONIST*
 

Summary:  1,4-Dihydropyridine Binding Sites in Moss Plasma Membranes PROPERTIES OF RECEPTORS FOR A CALCIUM... .7 with BTP; 50 mM KCl, 0.1 M bafilomycin A1, and 5 mM sodium azide (NaN3) were included in all assays... .1 mM sodium vanadate (Na3VO4). For measurement of bafilomycin ...

  

Source: Schumaker, Karen - School of Plant Sciences, University of Arizona

 

Collection: Biology and Medicine

 
76 Molecular Cell, Volume 37 Supplemental Information
 

Summary:  Transcription Factors and Clustered DNA-Binding Sites Enable Graded Transcriptional Responses to Environmental... NF-kB binding site is present (n=1). (A) Mean NF-kB binding site occupancy as a function of NF... than one NF-kB binding ...

  

Source: Bulyk, Martha L. - Division of Genetics, Brigham and Women's Hospital, Harvard University

 

Collection: Biology and Medicine

 
77 Crystal Structure of b1,4-Galactosyltransferase Complex with UDP-Gal Reveals an Oligosaccharide
 

Summary:  -4GlcNAcb- is bound in the GlcNAc binding site on Gal-T1, while the a-1-3 arm is placed perpendicular... Acceptor Binding Site B. Ramakrishnan1,2 , P.V. Balaji1,2 and Pradman K. Qasba1 * 1 Structural Glycobiology... . The structure not only identifies galactose, the ...

  

Source: Qasba, Pradman K. - Laboratory of Experimental and Computational Biology, National Cancer Institute

 

Collection: Biology and Medicine

 
78 Structural Determinants for High-Affinity Zolpidem Binding to GABA-A receptors
 

Summary:  in their binding requirements. On the subunit, 1His101 (loop A), 1Thr162 (loop B), and 1Ser204 (loop C) lie within... :874­881, 1997). In this study, we used radioligand binding techniques, 2/ 1 chimeric subunits ( ), site... with other loop F residues to maintain the structural ...

  

Source: Kalil, Ronald E. - Neuroscience Training Program & W.M. Keck Laboratory for Biological Imaging, University of Wisconsin at Madison; Teissére, Jeremy Alden - Biology Department, Muhlenberg College; Zhang, Su-Chun - Neuroscience Training Program & Waisman Center, University of Wisconsin at Madison

 

Collection: Biology and Medicine

 
79 Brevity of the Ca2 Microdomain and Active Zone Geometry Prevent
 

Summary:  of the binding sites increase effective affinity of the Ca2 sensor for release. Our results predict... that different levels of expression of Ca2 binding sites could account for apparent differences in Ca2 sensor... appears to be triggered by the cooperative action of Ca2 ions on three to five Ca2 ...

  

Source: Delaney, Kerry R. - Department of Biology, University of Victoria

 

Collection: Environmental Sciences and Ecology ; Biology and Medicine

 
80 Investigation of the Mechanism of Binding between Internalin B and Heparin Using Surface Plasmon Resonance
 

Summary:  binding sites on heparin in a positive and weakly cooperative manner. This mode is consistent... by the interaction of the bacterial cell wall-attached protein internalin A (InlA)1 with host cell E-cadherin (2... and C represent the two different types of binding ...

  

Source: Linhardt, Robert J. - Center for Biotechnology and Interdisciplinary Studies & Department of Chemical and Biological Engineering, Rensselaer Polytechnic Institute

 

Collection: Biotechnology ; Chemistry


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81 The Mechanism of VWF-Mediated Platelet GPIba Binding Matthew Auton,
 

Summary:  . 2000. Mapping the glyco- protein Ib-binding site in the Von Willebrand Factor A1 domain. J. Biol. Chem... ABSTRACT The binding of Von Willebrand Factor to platelets is dependent on the conformation of the A1... of a-helical secondary structure ...

  

Source: Zhu, Cheng - Department of Biomedical Engineering, Georgia Institute of Technology and Emory University

 

Collection: Engineering ; Biology and Medicine

 
82 This journal is c The Royal Society of Chemistry 2010 Mol. BioSyst. Proteome-wide prediction of overlapping small molecule and protein
 

Summary:  of overlapping small molecule and protein binding sites using structure Fred P. Davis* Received 17th September... -based approach to predict `bi-functional' sites able to bind both small molecule ligands and proteins... and protein binding sites with estimated true ...

  

Source: Eddy, Sean - Janelia Farm Research Campus, Howard Hughes Medical Institute

 

Collection: Biology and Medicine

 
83 This journal is c The Royal Society of Chemistry 2011 Mol. BioSyst., 2011, 7, 545557 545 Proteome-wide prediction of overlapping small molecule and protein
 

Summary:  -wide prediction of overlapping small molecule and protein binding sites using structure Fred P. Davis* Received 17... a structure-based approach to predict `bi-functional' sites able to bind both small molecule ligands... that transfers binding sites of known ...

  

Source: Eddy, Sean - Janelia Farm Research Campus, Howard Hughes Medical Institute

 

Collection: Biology and Medicine

 
84 Statistical model for receptor-ligand binding thermodynamics Marc Thilo Figge*
 

Summary:  of sizes, respectively, larger and smaller than Mb contact residues: P N 1 PoutPin . A1 It is now... Statistical model for receptor-ligand binding thermodynamics Marc Thilo Figge* Centre... -ligand binding in terms of the number of binding contact residues and the number of separate ...

  

Source: De Raedt, H. - Department of Applied Physics, Rijksuniversiteit Groningen

 

Collection: Computer Technologies and Information Sciences ; Materials Science

 
85 Efficient Prediction of Nucleic Acid Binding Function from Low-resolution Protein Structures
 

Summary:  of DNA-binding Proteins #12;1bl0A, 1cezA, 1cl8A, 1d02A, 1dc1A, 1dctA, 1dewA, ...

  

Source: Skolnick, Jeff - Center for the Study of Systems Biology, Georgia Institute of Technology

 

Collection: Chemistry ; Biology and Medicine

 
86 DNA Motif Representation with Nucleotide Dependency
 

Summary:  . The problem of discovering novel motifs of binding sites is important to the understanding of gene regulatory... , these representations cannot model biological binding sites well because they fail to capture nucleotide interdependence... . It has been pointed out by many researchers that the nucleotides of ...

  

Source: Chin, Francis Y.L. - Department of Computer Science, Hong Kong University

 

Collection: Computer Technologies and Information Sciences

 
87 fromMCF7cells FAIRE-chipsignal
 

Summary:  binding sites #12;All FoxA1 sites Low FAIRE FOXA1 MCF7 binding sites Fig.S5 Med. FAIRE High FAIREHigh... Ibindingsites Allsites FOXA1 No1kb promoters RNAPolIbindingsites FOXA1 binding sites #12;2,5 3 3,5 6 ...

  

Source: Brown, Myles - Dana-Farber Cancer Institute, Harvard University

 

Collection: Biology and Medicine

 
88 Shape Analysis in the Absence of Pointers and Structure
 

Summary:  x03. Suppose the addresses abstract so that (0x01) = ^a1 and (0x02) = (0x03) = ^a. The address ^a1... and ^a = ^a1 = ^a then p1 must alias p2. In order to solve the super- inlining problem, Shivers... ?" By treating binding environments as ...

  

Source: Might, Matt - School of Computing, University of Utah

 

Collection: Computer Technologies and Information Sciences

 
89 OptGraft: A computational procedure for transferring a binding site onto
 

Summary:  Binding Site into the First Domain of CD2 Geometry score Mutations Distancea (A°) 1 18.7 78V!T 80V!D 89L... (Step 1) for Constructing the Copper Binding Site in Thioredoxin Geometry score Mutations Distancea (A... OptGraft: A computational ...

  

Source: Maranas, Costas - Department of Chemical Engineering, Pennsylvania State University

 

Collection: Engineering ; Biotechnology

 
90 Mapping convulsants' binding to the GABA-A receptor chloride ionophore: A proposed model for channel binding sites
 

Summary:  for channel binding sites A.V. Kalueff * Laboratory of Clinical Science, Building 10, Room 3D41, National... sites. The paper reviews data on convulsants' binding sensitivity to different point mutations... of this model to other homologous ionotropic receptors. Positioning various ...

  

Source: Kalueff, Allan V. - Department of Pharmacology, Tulane University

 

Collection: Biology and Medicine

 
91 Pseudocomplementary PNAs as selective modiers of protein activity on duplex DNA: the case of type
 

Summary:  for gene targeting as they exhibit rather mild sequence limitations for binding to designated dsDNA sites... binding to their recognition sites on dsDNA. To this end, Lohse et al. assayed the ability of pc... II) methylation/restriction enzymes to their recognition sites if the ...

  

Source: Boston University, Center for Advanced Biotechnology

 

Collection: Biotechnology

 
92 11821191 Nucleic Acids Research, 2002, Vol. 30, No. 5 2002 Oxford University Press Protein and drug interactions in the minor groove of DNA
 

Summary:  still have just one binding site. Ligands bind to N3 and O2 atoms in analogous positions... - selective and sequence-neutral ways at the level of successful prediction of binding modes and site... positions of the interacting ligand atoms and are referred to as ...

  

Source: Schneider, Bohdan - Institute of Biotechnology (Prague)

 

Collection: Biotechnology ; Materials Science

 
93 Submitted to the Annals of Applied Statistics arXiv: math.PR/0000000
 

Summary:  .2. The other two types are discussed below. A.1. Identifiability in the Additive Binding Model. Physically, we... with in vivo DNA binding data to improve detection of putative recognition sites for Bicoid in the genome... of sequences in each round. 1.2. Binding ...

  

Source: Bickel, Peter - Department of Statistics, University of California at Berkeley

 

Collection: Mathematics

 
94 Hyperfine Interact (2010) 197:3741 DOI 10.1007/s10751-010-0263-7
 

Summary:  . Keywords Magnetic semiconductors · Transition metal impurities · Binding energies · Trapping sites... than the stronger Mn2+ and V2+ ions. The binding at the substitutional site is stronger for the Mn0... when it approaches it. Among the positive binding energy ...

  

Source: Chow, Lee - Department of Physics, University of Central Florida

 

Collection: Physics ; Materials Science

 
95 Spectroscopic Determination of the Thermodynamics of Cobalt and Zinc Binding to GATA Proteins
 

Summary:  's) and site occupancy markers (A1, A2, M1, M2) refer to the site number; the subscripts in the stoichiometric... and sufficient to bind to single GATA DNA sites, the N-terminal finger interacts with DNA such that the double... finger unit (DF domain) has a ...

  

Source: Scott, Robert A. - Departments of Biochemistry and Molecular Biology & Chemistry, University of Georgia

 

Collection: Chemistry ; Biotechnology

 
96 Structural Requirements for Eszopiclone and Zolpidem Binding to the -Aminobutyric Acid Type-A (GABAA) Receptor Are Different
 

Summary:  in the benzodiazepine (BZD) binding site of R1 22 GABAARs and measured zolpidem, eszopiclone, and BZD-site antagonist... in that they bind to the same site in the GABAAR but differ significantly in their chemical structures... of ESZ must stem from more than just R-subunit selectivity. ...

  

Source: Kalil, Ronald E. - Neuroscience Training Program & W.M. Keck Laboratory for Biological Imaging, University of Wisconsin at Madison

 

Collection: Biology and Medicine

 
97 10.1101/gad.1709008Access the most recent version at doi: 2008 22: 2941-2952Genes Dev.
 

Summary:  . The consensus PPAR /RXR "DR-1"-binding motif was found at most of the sites, and ChIP for RXR showed... protein (C/EBP)-binding motifs in the vicinity of most PPAR -binding sites, and genome-wide analysis of C... . 1993; IJpenberg et al. 1997). Known PPAR -binding ...

  

Source: Liu, Xiaole Shirley - Dana-Farber Cancer Institute & Department of Biostatistics, Harvard University

 

Collection: Computer Technologies and Information Sciences ; Biotechnology ; Biology and Medicine

 
98 Nucleic Acids Research, 1994, Vol. 22, No. 23 4969-4978 DNA binding specificity of the wheat bZIP protein EmBP-1
 

Summary:  selection of oligo 2. It is consistent that the half site G-4 C_3 C-2 A-1 C-0 which is selected strongly... -, and T-4 A-3 C-2 A-1 are weaker symmetric half sites. However, sites composed of any of these symmetric... selection of DNA from random ...

  

Source: Guiltinan, Mark - Department of Horticulture, Pennsylvania State University

 

Collection: Biotechnology

 
99 DNA Binding by the ETS Protein TEL (ETV6) Is Regulated by Autoinhibition and Self-association*S
 

Summary:  -length TEL is unclear. Here we report that monomeric TEL binds to a consen- sus ETS site with unusually low... be affected by self-association, enabling the interaction with multiple ETS binding sites. The PNT domain... and orientation requirements of tandem ETS sites for this ...

  

Source: McIntosh, Lawrence P. - Department of Biochemistry and Molecular Biology, University of British Columbia

 

Collection: Biotechnology ; Biology and Medicine

 
100 DNA Binding by the ETS Protein TEL (ETV6) Is Regulated by Autoinhibition and Self-association*S
 

Summary:  -length TEL is unclear. Here we report that monomeric TEL binds to a consen- sus ETS site with unusually low... be affected by self-association, enabling the interaction with multiple ETS binding sites. The PNT domain... requirements of tandem ETS sites for this ...

  

Source: Graves, Barbara J. - Huntsman Cancer Institute, University of Utah

 

Collection: Biology and Medicine


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