Interaction of RNA hairpins with the human U1A N-terminal RNA binding domain.

No abstract is available for this paper.

• Publication year

  1994

• Venue

  Biochemistry

• Publication date

  1994-08-23

• Fields of study

  Biology, Medicine, Chemistry

• Identifiers
  DOI 10.1021/BI00199A035PMID 7520277
• External record

  Open on Semantic Scholar

• Source metadata

  Semantic Scholar, PubMed

• No claims are published for this paper.

• No concepts are published for this paper.

• Coupling of local folding to site-specific binding of proteins to DNA.

  1994cited by this paper
• The human U1A snRNP protein regulates polyadenylation via a direct interaction with poly(A) polymerase.

  1994cited by this paper
• Selective isotopic enrichment of synthetic RNA: application to the HIV-1 TAR element.

  1993cited by this paper
• hnRNP proteins and the biogenesis of mRNA.

  1993cited by this paper
• The human U1 snRNP-specific U1A protein inhibits polyadenylation of its own pre-mRNA.

  1993cited by this paper
• A complex secondary structure in U1A pre‐mRNA that binds two molecules of U1A protein is required for regulation of polyadenylation.

  1993cited by this paper
• SP6 RNA polymerase efficiently synthesizes RNA from short double-stranded DNA templates.

  1993cited by this paper
• An efficient procedure for assignment of the proton, carbon and nitrogen resonances in 13C/15N labeled nucleic acids.

  1993cited by this paper
• 1H, 13C, and 15N NMR assignments and global folding pattern of the RNA-binding domain of the human hnRNP C proteins.

  1992cited by this paper
• Interaction of N-terminal domain of U1A protein with an RNA stem/loop.

  1992cited by this paper
• Preparation of 13C and 15N labelled RNAs for heteronuclear multi-dimensional NMR studies.

  1992cited by this paper
• Conformation of the TAR RNA-arginine complex by NMR spectroscopy.

  1992cited by this paper
• Properties of pseudouridine N1 imino protons located in the major groove of an A-form RNA duplex.

  1992cited by this paper
• Interaction of the RNA‐binding domain of the hnRNP C proteins with RNA.

  1992cited by this paper
• Identification of molecular contacts between the U1 A small nuclear ribonucleoprotein and U1 RNA.

  1991cited by this paper
• Specific contacts between the bacteriophage T3, T7, and SP6 RNA polymerases and their promoters.

  1991cited by this paper
• Modular structure of transcription factors: implications for gene regulation.

  1991cited by this paper
• Nuclear RNA-binding proteins.

  1991cited by this paper
• Structural features that give rise to the unusual stability of RNA hairpins containing GNRA loops.

  1991cited by this paper
• Recognition of U1 and U2 small nuclear RNAs can be altered by a 5-amino-acid segment in the U2 small nuclear ribonucleoprotein particle (snRNP) B" protein and through interactions with U2 snRNP-A' protein

  1991cited by this paper
• Analysis of in vitro binding of U1-A protein mutants to U1 snRNA.

  1991cited by this paper
• RNA-binding domain of the A protein component of the U1 small nuclear ribonucleoprotein analyzed by NMR spectroscopy is structurally similar to ribosomal proteins.

  1991cited by this paper
• RNA recognition: towards identifying determinants of specificity.

  1991cited by this paper
• The DNA binding arm of lambda repressor: critical contacts from a flexible region.

  1991cited by this paper
• Crystal structure of the RNA-binding domain of the U1 small nuclear ribonucleoprotein A

  1990cited by this paper
• Major determinants of the specificity of interaction between small nuclear ribonucleoproteins U1A and U2B" and their cognate RNAs

  1990cited by this paper
• The U2B″ RNP motif as a site of protein‐protein interaction.

  1990cited by this paper
• Lambda repressor: a model system for understanding protein-DNA interactions and protein stability.

  1990cited by this paper
• Modeling by homology of RNA binding domain in A1 hnRNP protein

  1990cited by this paper
• Overcoming the overlap problem in the assignment of 1H NMR spectra of larger proteins by use of three-dimensional heteronuclear 1H-15N Hartmann-Hahn-multiple quantum coherence and nuclear Overhauser-multiple quantum coherence spectroscopy: application to interleukin 1 beta.

  1989cited by this paper
• Identification of the RNA binding segment of human U1 A protein and definition of its binding site on U1 snRNA.

  1989cited by this paper
• A binding consensus: RNA-protein interactions in splicing, snRNPs, and sex.

  1989cited by this paper
• A common RNA recognition motif identified within a defined U1 RNA binding domain of the 70K U1 snRNP protein.

  1989cited by this paper
• Role of the hydrophobic effect in stability of site-specific protein-DNA complexes.

  1989cited by this paper
• RNA-binding proteins as developmental regulators.

  1989cited by this paper
• Secondary structure prediction for RNA binding domain in RNP proteins identifies beta alpha beta as the main structural motif.

  1989cited by this paper
• Secondary structure prediction for RNA binding domain in RNP proteins identifies βαβ as the main structural motif

  1989cited by this paper
• ompT encodes the Escherichia coli outer membrane protease that cleaves T7 RNA polymerase during purification

  1988cited by this paper
• Heterogeneous nuclear ribonucleoprotein particles and the pathway of mRNA formation.

  1988cited by this paper
• Classification and purification of proteins of heterogeneous nuclear ribonucleoprotein particles by RNA-binding specificities

  1988cited by this paper
• Phenylalanines that are conserved among several RNA-binding proteins form part of a nucleic acid-binding pocket in the A1 heterogeneous nuclear ribonucleoprotein.

  1988cited by this paper
• A single domain of yeast poly(A)-binding protein is necessary and sufficient for RNA binding and cell viability

  1987cited by this paper
• Oligoribonucleotide synthesis using T7 RNA polymerase and synthetic DNA templates.

  1987cited by this paper
• Characterization of the RNA binding properties of transcription factor IIIA of Xenopus laevis oocytes.

  1985cited by this paper
• Kinetic and thermodynamic characterization of the R17 coat protein-ribonucleic acid interaction.

  1983cited by this paper
• A two-dimensional nuclear overhauser experiment with pure absorption phase in four quadrants☆

  1982cited by this paper
• Exchangeable proton NMR without base-line distorsion, using new strong-pulse sequences

  1982cited by this paper
• STRUCTURAL AND DYNAMIC INFORMATION ABOUT DOUBLE-STRANDED DNA FROM NITROGEN-15 NMR SPECTROSCOPY

  1981cited by this paper
• Sensitivity enhanced detection of weak nuclei using heteronuclear multiple quantum coherence

  1979cited by this paper
• Thermodynamic analysis of ion effects on the binding and conformational equilibria of proteins and nucleic acids: the roles of ion association or release, screening, and ion effects on water activity

  1978cited by this paper
• Ion effects on ligand-nucleic acid interactions.

  1976cited by this paper
• Absorption and optical rotatory dispersion of seven trinucleoside diphosphates.

  1965cited by this paper
• Application of a Theory of Enzyme Specificity to Protein Synthesis.

  1958cited by this paper

• PERFUMES: pipeline to extract RNA functional motifs and exposed structures

  2024cites this paper
• PRIESSTESS: interpretable, high-performing models of the sequence and structure preferences of RNA-binding proteins

  2022cites this paper
• A study on allosteric communication in U1A-snRNA binding interactions: network analysis combined with molecular dynamics data.

  2020cites this paper
• A Novel Galactoglucomannan Exopolysaccharide Produced by Oil Fermentation with Pseudozyma sp. SY16

  2020cites this paper
• Interpreting the Dynamics of Binding Interactions of snRNA and U1A Using a Coarse-Grained Model.

  2019cites this paper
• Co-evolution of SNF spliceosomal proteins with their RNA targets in trans-splicing nematodes

  2016cites this paper
• Identification of antisense RNA stem-loops that inhibit RNA-protein interactions using a bacterial reporter system.

  2015cites this paper
• Climbing the vertebrate branch of U 1 A / U 2 B ′ ′ protein evolution

  2015cites this paper
• A thorough anion–π interaction study in biomolecules: on the importance of cooperativity effects† †Electronic supplementary information (ESI) available: Fig. 1 and 2, Tables 1–24 and all interactions. See DOI: 10.1039/c5sc01386k

  2015cites this paper
• Native conformational dynamics of the spliceosomal U1A protein.

  2015cites this paper
• The U1A/U2B"/SNF Family of RNA Binding Proteins: Evolution of RNA Binding Specificity and Contributions of Heterotropic Linkage to snRNP Protein Partitioning

  2015cites this paper
• Binding Affinity and Cooperativity Control U2B″/snRNA/U2A′ RNP Formation

  2014cites this paper
• Synthetic RNA recognition motifs that selectively recognize HIV-1 trans-activation response element hairpin RNA.

  2014cites this paper
• A compare-and-contrast NMR dynamics study of two related RRMs: U1A and SNF.

  2014cites this paper
• Combined mechanism of conformational selection and induced fit in U1A-RNA molecular recognition.

  2014cites this paper
• Linkage and Allostery in snRNP Protein/RNA Complexes

  2014cites this paper
• Climbing the vertebrate branch of U1A/U2B″ protein evolution

  2014influential citation
• The role of the C-terminal helix of U1A protein in the interaction with U1hpII RNA

  2013cites this paper
• The role of the C-terminal helix of U 1 A protein in the interaction with U 1 hpII RNA

  2013cites this paper
• Resurrection of an Urbilaterian U 1 A / U 2 B ′′ / SNF Protein iams

  2013cites this paper
• Analysis of protein-RNA complexes involving a RNA recognition motif engineered to bind hairpins with seven- and eight-nucleotide loops.

  2013cites this paper
• Resurrection of an Urbilaterian U1A/U2B″/SNF protein.

  2013cites this paper
• U1A protein-stem loop 2 RNA recognition: prediction of structural differences from protein mutations.

  2011cites this paper
• Multistep kinetics of the U1A-SL2 RNA complex dissociation.

  2011cites this paper
• Analysis of the interaction with the hepatitis C virus mRNA reveals an alternative mode of RNA recognition by the human La protein

  2011cites this paper
• Human U2B″ protein binding to snRNA stemloops.

  2011cites this paper
• Efficient transcription through an intron requires the binding of an Sm-type U1 snRNP with intact stem loop II to the splice donor

  2010cites this paper
• Identification of antisense RNA stem–loops that inhibit RNA–protein interactions using a bacterial reporter system

  2010cites this paper
• A three‐dimensional model of the U1 small nuclear ribonucleoprotein particle

  2010influential citation
• Induced fit or conformational selection for RNA/U1A folding.

  2010cites this paper
• Coevolution of Drosophila snf protein and its snRNA targets.

  2010cites this paper
• Characterization of the dynamics of an essential helix in the U1A protein by time-resolved fluorescence measurements.

  2008cites this paper
• Conformationally restricted nucleotides as a probe of structure-function relationships in RNA.

  2008cites this paper
• Changing U1A levels regulate expression of immunoglobulin M and the transcriptional repressor ZHXL during B cell differentiation

  2008cites this paper
• Characterization of two adenosine analogs as fluorescence probes in RNA.

  2008cites this paper
• Correlated Motions in the U 1 snRNA Stem / Loop 2 : U 1 A RBD 1 Complex

  2008cites this paper
• Recognition of essential purines by the U1A protein

  2007cites this paper
• A study of collective atomic fluctuations and cooperativity in the U1A-RNA complex based on molecular dynamics simulations.

  2007cites this paper
• Affinity and specificity of protein U1A-RNA complex formation based on an additive component free energy model.

  2007cites this paper
• Solving the structure of PTB in complex with pyrimidine tracts: an NMR study of protein-RNA complexes of weak affinities.

  2007cites this paper
• Binding of U1A protein changes RNA dynamics as observed by 13C NMR relaxation studies.

  2007cites this paper
• The role of RNA structure in the interaction of U1A protein with U1 hairpin II RNA.

  2006influential citation
• The role of positively charged amino acids and electrostatic interactions in the complex of U1A protein and U1 hairpin II RNA

  2006cites this paper
• Biochemical and thermodynamic characterization of compounds that bind to RNA hairpin loops: toward an understanding of selectivity.

  2006cites this paper
• Molecular basis of RNA recognition by the human alternative splicing factor Fox‐1

  2006cites this paper
• Molecular dynamics simulation studies of a protein–RNA complex with a selectively modified binding interface

  2006cites this paper
• Kinetic analysis of the role of the tyrosine 13, phenylalanine 56 and glutamine 54 network in the U1A/U1 hairpin II interaction

  2005cites this paper
• A binding mechanism in protein-nucleotide interactions: implication for U1A RNA binding.

  2005cites this paper
• 13C NMR relaxation studies of RNA base and ribose nuclei reveal a complex pattern of motions in the RNA binding site for human U1A protein.

  2005cites this paper
• Correlated motions in the U1 snRNA stem/loop 2:U1A RBD1 complex.

  2005cites this paper
• Altering the RNA-binding mode of the U1A RBD1 protein.

  2004cites this paper
• Contributions of the RNA-binding and linker domains and RNA structure to the specificity and affinity of the nucleolin RBD12/NRE interaction.

  2004cites this paper
• Probing specificity of RNA : ribonucleoprotein interactions through in vitro selection

  2004influential citation
• Structural basis of single-stranded RNA recognition.

  2004cites this paper
• Design of an adenosine analogue that selectively improves the affinity of a mutant U1A protein for RNA.

  2003cites this paper
• Selection of RRE RNA binding peptides using a kanamycin antitermination assay.

  2003influential citation
• Sequences Adjacent to the 5′ Splice Site Control U1A Binding Upstream of the IgM Heavy Chain Secretory Poly(A) Site*

  2003cites this paper
• Quantitation of free energy profiles in RNA-ligand interactions by nucleotide analog interference mapping.

  2003cites this paper
• Determinants within an 18-Amino-Acid U1A Autoregulatory Domain That Uncouple Cooperative RNA Binding, Inhibition of Polyadenylation, and Homodimerization

  2003influential citation
• U1A RNA-binding domain at 1.8 A resolution.

  2003cites this paper
• Mutational analysis of a sequence-specific ssDNA binding lupus autoantibody.

  2003cites this paper
• Substitution of an essential adenine in the U1A-RNA complex with a non-polar isostere.

  2002cites this paper
• Interaction of C5 protein with RNA aptamers selected by SELEX.

  2002cites this paper
• Automated selection of aptamers against protein targets translated in vitro: from gene to aptamer.

  2002cites this paper
• A bulged stem tethers Est1p to telomerase RNA in budding yeast.

  2002cites this paper
• Inhibition of the U1A-RNA complex by an aminoacridine derivative.

  2002cites this paper
• Molecular dynamics simulation studies of induced fit and conformational capture in U1A-RNA binding: do molecular substates code for specificity?

  2002cites this paper
• Complex role of the β2-β3 Loop in the Interaction of U1A with U1 Hairpin II RNA*

  2002cites this paper
• Investigation of a conserved stacking interaction in target site recognition by the U1A protein.

  2002cites this paper
• U 1 A N-terminal RNA binding domain Contribution of the tyrosines to the structure and function of the

  2002cites this paper
• Analytical biotechnology

  2002cites this paper
• The heart of photosynthesis in glorious 3D.

  2001cites this paper
• Thermodynamics of 2'-ribose substitutions in UUCG tetraloops.

  2001cites this paper
• Molecular dynamics and thermodynamics of protein-RNA interactions: mutation of a conserved aromatic residue modifies stacking interactions and structural adaptation in the U1A-stem loop 2 RNA complex.

  2001cites this paper
• From RNA helicases to RNPases.

  2001cites this paper
• Thermodynamic basis for sequence-specific recognition of ssDNA by an autoantibody.

  2001cites this paper
• Two Functionally Distinct Steps Mediate High Affinity Binding of U1A Protein to U1 Hairpin II RNA*

  2001cites this paper
• Experimental and theoretical studies of the effects of deoxyribose substitutions on the stability of the UUCG tetraloop.

  2000cites this paper
• Experimental and computational studies of the G[UUCG]C RNA tetraloop.

  2000cites this paper
• Structure and thermodynamics of RNA-protein binding: using molecular dynamics and free energy analyses to calculate the free energies of binding and conformational change.

  2000cites this paper
• Spatial orientation and dynamics of the U1A proteins in the U1A-UTR complex.

  2000cites this paper
• Investigating the binding specificity of U1A-RNA by computational mutagenesis.

  2000cites this paper
• RNA Structure and RNA-Protein Recognition During Regulation of Eukaryotic Gene Expression

  1999cites this paper
• Changes in side-chain and backbone dynamics identify determinants of specificity in RNA recognition by human U1A protein.

  1999cites this paper
• Unrestrained stochastic dynamics simulations of the UUCG tetraloop using an implicit solvation model.

  1999cites this paper
• RNA recognition by the human U1A protein is mediated by a network of local cooperative interactions that create the optimal binding surface.

  1999influential citation
• Chemical shift perturbation studies of the interactions of the second RNA-binding domain of the Drosophila sex-lethal protein with the transformer pre-mRNA polyuridine tract and 3' splice-site sequences.

  1999cites this paper
• Molecular dynamics simulations of the complex between human U1A protein and hairpin II of U1 small nuclear RNA and of free RNA in solution.

  1999cites this paper
• Themes in RNA-protein recognition.

  1999cites this paper
• Molecular dynamics studies of U1A-RNA complexes.

  1999cites this paper
• Identification of the RNA Binding Domain of T4 RegA Protein by Structure-based Mutagenesis*

  1999cites this paper
• Structural basis for recognition of the tra mRNA precursor by the Sex-lethal protein

  1999cites this paper
• RNA recognition by RNP proteins during RNA processing.

  1998cites this paper
• Defining the orientation of the human U1A RBD1 on its UTR by tethered-EDTA(Fe) cleavage.

  1998cites this paper
• Determination of the NMR structure of the complex between U1A protein and its RNA polyadenylation inhibition element

  1998cites this paper
• Crystal structure of the spliceosomal U2B″–U2A′ protein complex bound to a fragment of U2 small nuclear RNA

  1998cites this paper
• The KH domain of the branchpoint sequence binding protein determines specificity for the pre-mRNA branchpoint sequence.

  1998cites this paper
• 5 – RNA—Protein Recognition during RNA Processing and Maturation*

  1998cites this paper
• RNA binding mediates the local cooperativity between the beta-sheet and the C-terminal tail of the human U1A RBD1 protein.

  1998cites this paper
• Heavy chain CDR3 optimization of a germline encoded recombinant antibody fragment predisposed to bind the U1A protein.

  1997cites this paper