Published in Cell on February 06, 2004
Remote site control of an active site fidelity checkpoint in a viral RNA-dependent RNA polymerase. J Biol Chem (2005) 2.40
Structures of phi29 DNA polymerase complexed with substrate: the mechanism of translocation in B-family polymerases. EMBO J (2007) 2.22
Nucleic acid polymerases use a general acid for nucleotidyl transfer. Nat Struct Mol Biol (2009) 2.13
Conformational transitions in DNA polymerase I revealed by single-molecule FRET. Proc Natl Acad Sci U S A (2009) 2.10
Single-molecule and ensemble fluorescence assays for a functionally important conformational change in T7 DNA polymerase. Proc Natl Acad Sci U S A (2007) 2.06
Structural basis for active site closure by the poliovirus RNA-dependent RNA polymerase. Proc Natl Acad Sci U S A (2010) 1.96
Structure of human mitochondrial RNA polymerase. Nature (2011) 1.82
TFB2 is a transient component of the catalytic site of the human mitochondrial RNA polymerase. Cell (2009) 1.75
Motif D of viral RNA-dependent RNA polymerases determines efficiency and fidelity of nucleotide addition. Structure (2012) 1.71
Structural basis for transcription inhibition by tagetitoxin. Nat Struct Mol Biol (2005) 1.64
Stepwise mechanism for transcription fidelity. BMC Biol (2010) 1.58
Stabilization of poliovirus polymerase by NTP binding and fingers-thumb interactions. J Mol Biol (2006) 1.40
Discrimination against deoxyribonucleotide substrates by bacterial RNA polymerase. J Biol Chem (2004) 1.29
Modular control of multiple pathways using engineered orthogonal T7 polymerases. Nucleic Acids Res (2012) 1.28
Single-molecule measurements of synthesis by DNA polymerase with base-pair resolution. Proc Natl Acad Sci U S A (2009) 1.27
Diffusion of nucleoside triphosphates and role of the entry site to the RNA polymerase II active center. Proc Natl Acad Sci U S A (2004) 1.23
Distinct complexes of DNA polymerase I (Klenow fragment) for base and sugar discrimination during nucleotide substrate selection. J Biol Chem (2011) 1.13
DNA conformational changes at the primer-template junction regulate the fidelity of replication by DNA polymerase. Proc Natl Acad Sci U S A (2010) 1.12
Visualizing high error levels during gene expression in living bacterial cells. Proc Natl Acad Sci U S A (2010) 1.11
Dynamics of nucleotide incorporation: snapshots revealed by 2-aminopurine fluorescence studies. Biochemistry (2006) 1.10
Elongation complexes of Thermus thermophilus RNA polymerase that possess distinct translocation conformations. Nucleic Acids Res (2006) 1.09
Structure of human mitochondrial RNA polymerase elongation complex. Nat Struct Mol Biol (2013) 1.06
The structural changes of T7 RNA polymerase from transcription initiation to elongation. Curr Opin Struct Biol (2009) 1.04
T7 RNA polymerase studied by force measurements varying cofactor concentration. Biophys J (2008) 1.01
Incorporation of the fluorescent ribonucleotide analogue tCTP by T7 RNA polymerase. Anal Chem (2010) 0.99
An intramolecular FRET system monitors fingers subdomain opening in Klentaq1. Protein Sci (2008) 0.98
A mechanism of nucleotide misincorporation during transcription due to template-strand misalignment. Mol Cell (2006) 0.96
Photocaged t7 RNA polymerase for the light activation of transcription and gene function in pro- and eukaryotic cells. Chembiochem (2010) 0.94
Stable complexes formed by HIV-1 reverse transcriptase at distinct positions on the primer-template controlled by binding deoxynucleoside triphosphates or foscarnet. J Mol Biol (2007) 0.93
Active-site dynamics in RNA polymerases. Cell (2004) 0.93
Mechanism of sequence-specific template binding by the DNA primase of bacteriophage T7. Nucleic Acids Res (2010) 0.93
Functional architecture of T7 RNA polymerase transcription complexes. J Mol Biol (2007) 0.93
How the CCA-adding enzyme selects adenine over cytosine at position 76 of tRNA. Science (2010) 0.92
X-ray crystal structure of the polymerase domain of the bacteriophage N4 virion RNA polymerase. Proc Natl Acad Sci U S A (2008) 0.90
X-ray crystal structures elucidate the nucleotidyl transfer reaction of transcript initiation using two nucleotides. Proc Natl Acad Sci U S A (2011) 0.89
Watching the bacteriophage N4 RNA polymerase transcription by time-dependent soak-trigger-freeze X-ray crystallography. J Biol Chem (2012) 0.89
Molecular dynamics studies of the energetics of translocation in model T7 RNA polymerase elongation complexes. Proteins (2008) 0.89
Crystal structure of an asymmetric complex of pyruvate dehydrogenase kinase 3 with lipoyl domain 2 and its biological implications. J Mol Biol (2007) 0.85
Transcription elongation past O6-methylguanine by human RNA polymerase II and bacteriophage T7 RNA polymerase. Nucleic Acids Res (2008) 0.84
Distinct roles for sequences upstream of and downstream from Physarum editing sites. RNA (2009) 0.84
A small post-translocation energy bias aids nucleotide selection in T7 RNA polymerase transcription. Biophys J (2012) 0.82
Computational simulation strategies for analysis of multisubunit RNA polymerases. Chem Rev (2013) 0.82
Differential blocking effects of the acetaldehyde-derived DNA lesion N2-ethyl-2'-deoxyguanosine on transcription by multisubunit and single subunit RNA polymerases. J Biol Chem (2008) 0.82
Transcription yield of fully 2'-modified RNA can be increased by the addition of thermostabilizing mutations to T7 RNA polymerase mutants. Nucleic Acids Res (2015) 0.82
Transcription processing at 1,N2-ethenoguanine by human RNA polymerase II and bacteriophage T7 RNA polymerase. J Mol Biol (2007) 0.81
Evolution of the genetic code by incorporation of amino acids that improved or changed protein function. J Mol Evol (2013) 0.81
Five checkpoints maintaining the fidelity of transcription by RNA polymerases in structural and energetic details. Nucleic Acids Res (2014) 0.79
Importance of steric effects on the efficiency and fidelity of transcription by T7 RNA polymerase. Biochemistry (2011) 0.78
Structural basis of viral RNA-dependent RNA polymerase catalysis and translocation. Proc Natl Acad Sci U S A (2016) 0.78
A Jump-from-Cavity Pyrophosphate Ion Release Assisted by a Key Lysine Residue in T7 RNA Polymerase Transcription Elongation. PLoS Comput Biol (2015) 0.77
Conformational dynamics of Thermus aquaticus DNA polymerase I during catalysis. J Mol Biol (2014) 0.77
A critical residue selectively recruits nucleotides for t7 RNA polymerase transcription fidelity control. Biophys J (2014) 0.76
Yeast mitochondrial RNAP conformational changes are regulated by interactions with the mitochondrial transcription factor. Nucleic Acids Res (2014) 0.76
Allosteric regulation of HIV-1 reverse transcriptase by ATP for nucleotide selection. PLoS One (2010) 0.76
The Closing Mechanism of DNA Polymerase I at Atomic Resolution. Structure (2015) 0.76
Triphosphate Re-orientation of the Incoming Nucleotide as a Fidelity Checkpoint in Viral RNA-dependent RNA polymerases. J Biol Chem (2017) 0.76
Mechanism of NTP Binding to the Active Site of T7 RNA Polymerase Revealed by Free-Energy Simulation. Biophys J (2017) 0.75
Active nucleosome displacement: a theoretical approach. Biophys J (2009) 0.75
Determination of the melting site of the DNA duplex in the active center of bacterial RNA-polymerase by fluorescence quenching technique. Dokl Biochem Biophys (2007) 0.75
Crystal structure of a bacterial RNA polymerase holoenzyme at 2.6 A resolution. Nature (2002) 6.74
Structural basis for defects of Keap1 activity provoked by its point mutations in lung cancer. Mol Cell (2006) 6.09
Structural basis for RNA unwinding by the DEAD-box protein Drosophila Vasa. Cell (2006) 5.70
Crystal structure of the complex of human epidermal growth factor and receptor extracellular domains. Cell (2002) 5.64
An open-and-shut case? Recent insights into the activation of EGF/ErbB receptors. Mol Cell (2003) 5.06
Curved EFC/F-BAR-domain dimers are joined end to end into a filament for membrane invagination in endocytosis. Cell (2007) 4.73
Let-7 microRNA-mediated mRNA deadenylation and translational repression in a mammalian cell-free system. Genes Dev (2007) 4.35
Protein production and purification. Nat Methods (2008) 3.97
Regulation through the secondary channel--structural framework for ppGpp-DksA synergism during transcription. Cell (2004) 3.39
ATP binding by glutamyl-tRNA synthetase is switched to the productive mode by tRNA binding. EMBO J (2003) 3.14
A small-molecule AdipoR agonist for type 2 diabetes and short life in obesity. Nature (2013) 2.74
Structural basis for orthogonal tRNA specificities of tyrosyl-tRNA synthetases for genetic code expansion. Nat Struct Biol (2003) 2.71
Structural basis for interaction of the ribosome with the switch regions of GTP-bound elongation factors. Mol Cell (2007) 2.62
Structural basis for transcription regulation by alarmone ppGpp. Cell (2004) 2.60
Structure of a T7 RNA polymerase elongation complex at 2.9 A resolution. Nature (2002) 2.57
Structural basis for converting a general transcription factor into an operon-specific virulence regulator. Mol Cell (2007) 2.56
Conformational transition of Sec machinery inferred from bacterial SecYE structures. Nature (2008) 2.48
An unnatural hydrophobic base pair system: site-specific incorporation of nucleotide analogs into DNA and RNA. Nat Methods (2006) 2.46
Structural basis of transcription inhibition by antibiotic streptolydigin. Mol Cell (2005) 2.40
Different electrostatic potentials define ETGE and DLG motifs as hinge and latch in oxidative stress response. Mol Cell Biol (2007) 2.38
Adding l-lysine derivatives to the genetic code of mammalian cells with engineered pyrrolysyl-tRNA synthetases. Biochem Biophys Res Commun (2008) 2.29
Alternative tertiary structure of tRNA for recognition by a posttranscriptional modification enzyme. Cell (2003) 2.29
Crystal structure of hypothetical protein TTHB192 from Thermus thermophilus HB8 reveals a new protein family with an RNA recognition motif-like domain. Protein Sci (2006) 2.29
Preparation of Escherichia coli cell extract for highly productive cell-free protein expression. J Struct Funct Genomics (2004) 2.14
Multistep engineering of pyrrolysyl-tRNA synthetase to genetically encode N(epsilon)-(o-azidobenzyloxycarbonyl) lysine for site-specific protein modification. Chem Biol (2008) 2.13
Reconstitution reveals the functional core of mammalian eIF3. EMBO J (2007) 2.06
A B-box 2 surface patch important for TRIM5alpha self-association, capsid binding avidity, and retrovirus restriction. J Virol (2009) 2.03
Crystal structure of bacterial RNA polymerase bound with a transcription inhibitor protein. Nature (2010) 2.01
Parkin binds the Rpn10 subunit of 26S proteasomes through its ubiquitin-like domain. EMBO Rep (2003) 2.01
A computational model on the modulation of mitogen-activated protein kinase (MAPK) and Akt pathways in heregulin-induced ErbB signalling. Biochem J (2003) 2.00
Crystal structure of the homologous-pairing domain from the human Rad52 recombinase in the undecameric form. Mol Cell (2002) 1.98
Structure of the oncoprotein gankyrin in complex with S6 ATPase of the 26S proteasome. Structure (2007) 1.97
Inference of S-system models of genetic networks using a cooperative coevolutionary algorithm. Bioinformatics (2004) 1.96
Interaction of Era with the 30S ribosomal subunit implications for 30S subunit assembly. Mol Cell (2005) 1.93
Structural basis of the substrate-specific two-step catalysis of long chain fatty acyl-CoA synthetase dimer. J Biol Chem (2004) 1.89
The crystal structure of leucyl-tRNA synthetase complexed with tRNALeu in the post-transfer-editing conformation. Nat Struct Mol Biol (2005) 1.87
Mechanism of chromatin remodeling and recovery during passage of RNA polymerase II. Nat Struct Mol Biol (2009) 1.86
Aminoacylation complex structures of leucyl-tRNA synthetase and tRNALeu reveal two modes of discriminator-base recognition. Nat Struct Mol Biol (2005) 1.82
Increased Ras expression and caspase-independent neuroblastoma cell death: possible mechanism of spontaneous neuroblastoma regression. J Natl Cancer Inst (2002) 1.78
TFB2 is a transient component of the catalytic site of the human mitochondrial RNA polymerase. Cell (2009) 1.75
An enzyme with a deep trefoil knot for the active-site architecture. Acta Crystallogr D Biol Crystallogr (2002) 1.72
Codon reassignment in the Escherichia coli genetic code. Nucleic Acids Res (2010) 1.68
Human mitochondrial transcription revisited: only TFAM and TFB2M are required for transcription of the mitochondrial genes in vitro. J Biol Chem (2010) 1.67
Protein photo-cross-linking in mammalian cells by site-specific incorporation of a photoreactive amino acid. Nat Methods (2005) 1.67
UTX and UTY demonstrate histone demethylase-independent function in mouse embryonic development. PLoS Genet (2012) 1.67
Crystal structure of elongation factor P from Thermus thermophilus HB8. Proc Natl Acad Sci U S A (2004) 1.65
Real-time imaging of histone H4K12-specific acetylation determines the modes of action of histone deacetylase and bromodomain inhibitors. Chem Biol (2011) 1.65
Genetic encoding of 3-iodo-L-tyrosine in Escherichia coli for single-wavelength anomalous dispersion phasing in protein crystallography. Structure (2009) 1.64
Site-specific incorporation of an unnatural amino acid into proteins in mammalian cells. Nucleic Acids Res (2002) 1.64
DOCK8 is a Cdc42 activator critical for interstitial dendritic cell migration during immune responses. Blood (2012) 1.63
Transcription inactivation through local refolding of the RNA polymerase structure. Nature (2008) 1.63
Structure, interaction and real-time monitoring of the enzymatic reaction of wild-type APOBEC3G. EMBO J (2009) 1.63
Structural evidence for loose linkage between ligand binding and kinase activation in the epidermal growth factor receptor. Mol Cell Biol (2010) 1.63
A paralog of lysyl-tRNA synthetase aminoacylates a conserved lysine residue in translation elongation factor P. Nat Struct Mol Biol (2010) 1.62
Site-specific incorporation of a photo-crosslinking component into RNA by T7 transcription mediated by unnatural base pairs. Chem Biol (2004) 1.59
Structural basis for octameric ring formation and DNA interaction of the human homologous-pairing protein Dmc1. Mol Cell (2004) 1.57
An unnatural base pair system for efficient PCR amplification and functionalization of DNA molecules. Nucleic Acids Res (2008) 1.56
The RAC binding domain/IRSp53-MIM homology domain of IRSp53 induces RAC-dependent membrane deformation. J Biol Chem (2006) 1.56
Structural bases of transfer RNA-dependent amino acid recognition and activation by glutamyl-tRNA synthetase. Structure (2006) 1.56
Expression and purification of recombinant human histones. Methods (2004) 1.54
Crystal structure of the human BRD2 bromodomain: insights into dimerization and recognition of acetylated histone H4. J Biol Chem (2006) 1.54
Structural basis of replication origin recognition by the DnaA protein. Nucleic Acids Res (2003) 1.54
Deep knot structure for construction of active site and cofactor binding site of tRNA modification enzyme. Structure (2004) 1.53
Drosophila U6 promoter-driven short hairpin RNAs effectively induce RNA interference in Schneider 2 cells. Biochem Biophys Res Commun (2005) 1.53
Structural basis for functional mimicry of long-variable-arm tRNA by transfer-messenger RNA. Proc Natl Acad Sci U S A (2007) 1.52
Allosteric modulation of the RNA polymerase catalytic reaction is an essential component of transcription control by rifamycins. Cell (2005) 1.52
Structure and function of a membrane component SecDF that enhances protein export. Nature (2011) 1.51
Mammalian GW182 contains multiple Argonaute-binding sites and functions in microRNA-mediated translational repression. RNA (2009) 1.50
The antibiotic kasugamycin mimics mRNA nucleotides to destabilize tRNA binding and inhibit canonical translation initiation. Nat Struct Mol Biol (2006) 1.47
Pin1 and Par14 peptidyl prolyl isomerase inhibitors block cell proliferation. Chem Biol (2003) 1.47
A common mechanism for the ATP-DnaA-dependent formation of open complexes at the replication origin. J Biol Chem (2008) 1.46
Solution structure of an Arabidopsis WRKY DNA binding domain. Plant Cell (2005) 1.45
Cytoplasmic destruction of p53 by the endoplasmic reticulum-resident ubiquitin ligase 'Synoviolin'. EMBO J (2006) 1.45
Tertiary structure checkpoint at anticodon loop modification in tRNA functional maturation. Nat Struct Mol Biol (2009) 1.45
KUJIRA, a package of integrated modules for systematic and interactive analysis of NMR data directed to high-throughput NMR structure studies. J Biomol NMR (2007) 1.44
Still looking for the magic spot: the crystallographically defined binding site for ppGpp on RNA polymerase is unlikely to be responsible for rRNA transcription regulation. J Mol Biol (2008) 1.44
Functional convergence of two lysyl-tRNA synthetases with unrelated topologies. Nat Struct Biol (2002) 1.43
Allosteric control of the RNA polymerase by the elongation factor RfaH. Nucleic Acids Res (2007) 1.43
Mutational separation of two pathways for editing by a class I tRNA synthetase. Mol Cell (2002) 1.42
Highly specific unnatural base pair systems as a third base pair for PCR amplification. Nucleic Acids Res (2011) 1.42
An efficient unnatural base pair for PCR amplification. J Am Chem Soc (2007) 1.41
Solution structure of the B3 DNA binding domain of the Arabidopsis cold-responsive transcription factor RAV1. Plant Cell (2004) 1.40
RAD51 plays a crucial role in halting cell death program induced by ionizing radiation in bovine oocytes. Biol Reprod (2012) 1.40
Structural basis for histone H3 Lys 27 demethylation by UTX/KDM6A. Genes Dev (2011) 1.40
Structural basis for the exclusive specificity of Slac2-a/melanophilin for the Rab27 GTPases. Structure (2008) 1.38
The interaction of DiaA and DnaA regulates the replication cycle in E. coli by directly promoting ATP DnaA-specific initiation complexes. Genes Dev (2007) 1.37
X-ray structure of the complex of regulatory subunits of human DNA polymerase delta. Cell Cycle (2008) 1.36
Structurally designed trans-2-phenylcyclopropylamine derivatives potently inhibit histone demethylase LSD1/KDM1 . Biochemistry (2010) 1.36
Structural basis for template-independent RNA polymerization. Nature (2004) 1.35
Crystal structure of leucyl-tRNA synthetase from the archaeon Pyrococcus horikoshii reveals a novel editing domain orientation. J Mol Biol (2004) 1.35
An engineered Escherichia coli tyrosyl-tRNA synthetase for site-specific incorporation of an unnatural amino acid into proteins in eukaryotic translation and its application in a wheat germ cell-free system. Proc Natl Acad Sci U S A (2002) 1.35