Published in Nucleic Acids Res on July 15, 2004
The interaction between C75 of tRNA and the A loop of the ribosome stimulates peptidyl transferase activity. RNA (2006) 1.53
A structural view on the mechanism of the ribosome-catalyzed peptide bond formation. Biochim Biophys Acta (2009) 1.08
pH-dependent dynamics of complex RNA macromolecules. J Chem Theory Comput (2013) 1.05
A single-step method for purification of active His-tagged ribosomes from a genetically engineered Escherichia coli. Nucleic Acids Res (2008) 1.03
pH-dependent structural changes of helix 69 from Escherichia coli 23S ribosomal RNA. RNA (2008) 0.98
Towards Accurate Prediction of Protonation Equilibrium of Nucleic Acids. J Phys Chem Lett (2013) 0.88
Modulating the activity of the peptidyl transferase center of the ribosome. RNA (2008) 0.87
The role of the universally conserved A2450-C2063 base pair in the ribosomal peptidyl transferase center. Nucleic Acids Res (2010) 0.82
The A2453-C2499 wobble base pair in Escherichia coli 23S ribosomal RNA is responsible for pH sensitivity of the peptidyltransferase active site conformation. Nucleic Acids Res (2004) 0.82
The comparative RNA web (CRW) site: an online database of comparative sequence and structure information for ribosomal, intron, and other RNAs. BMC Bioinformatics (2002) 29.41
The complete atomic structure of the large ribosomal subunit at 2.4 A resolution. Science (2000) 28.25
The structural basis of ribosome activity in peptide bond synthesis. Science (2000) 18.82
Crystal structure of the ribosome at 5.5 A resolution. Science (2001) 18.21
High resolution structure of the large ribosomal subunit from a mesophilic eubacterium. Cell (2001) 6.97
Structural analysis of RNA using chemical and enzymatic probing monitored by primer extension. Methods Enzymol (1988) 6.38
Interaction of tRNA with 23S rRNA in the ribosomal A, P, and E sites. Cell (1989) 5.79
A base pair between tRNA and 23S rRNA in the peptidyl transferase centre of the ribosome. Nature (1995) 4.59
Ribosomes and translation. Annu Rev Biochem (1997) 3.87
The active site of the ribosome is composed of two layers of conserved nucleotides with distinct roles in peptide bond formation and peptide release. Cell (2004) 3.18
Parameters for the preparation of Escherichia coli ribosomes and ribosomal subunits active in tRNA binding. Methods Enzymol (1988) 2.51
A single adenosine with a neutral pKa in the ribosomal peptidyl transferase center. Science (2000) 2.36
Sites of interaction of the CCA end of peptidyl-tRNA with 23S rRNA. Proc Natl Acad Sci U S A (1991) 2.34
GTP consumption of elongation factor Tu during translation of heteropolymeric mRNAs. Proc Natl Acad Sci U S A (1995) 2.28
Base-pairing between 23S rRNA and tRNA in the ribosomal A site. Mol Cell (1999) 2.19
Structural basis of the ribosomal machinery for peptide bond formation, translocation, and nascent chain progression. Mol Cell (2003) 2.16
Crystallization and structure determination of a hepatitis delta virus ribozyme: use of the RNA-binding protein U1A as a crystallization module. J Mol Biol (2000) 2.09
Analysis of mutations at residues A2451 and G2447 of 23S rRNA in the peptidyltransferase active site of the 50S ribosomal subunit. Proc Natl Acad Sci U S A (2001) 2.06
Important contribution to catalysis of peptide bond formation by a single ionizing group within the ribosome. Mol Cell (2002) 1.91
Ribosome-catalyzed peptidyl transfer. Effects of cations and pH value. Eur J Biochem (1968) 1.87
Solution structure of loop A from the hairpin ribozyme from tobacco ringspot virus satellite. Biochemistry (1996) 1.84
A complex secondary structure in U1A pre-mRNA that binds two molecules of U1A protein is required for regulation of polyadenylation. EMBO J (1993) 1.62
A conformational change in the ribosomal peptidyl transferase center upon active/inactive transition. Proc Natl Acad Sci U S A (2001) 1.57
Ribosome-catalyzed ester formation. Biochemistry (1970) 1.47
Reconstitution of functional 50S ribosomes from in vitro transcripts of Bacillus stearothermophilus 23S rRNA. Biochemistry (1999) 1.47
Peptidyl-puromycin synthesis on polyribosomes from Escherichia coli. Proc Natl Acad Sci U S A (1972) 1.39
Reconstitution of functionally active Thermus aquaticus large ribosomal subunits with in vitro-transcribed rRNA. Biochemistry (1999) 1.29
pH-dependent conformational flexibility within the ribosomal peptidyl transferase center. RNA (2001) 1.29
23S rRNA positions essential for tRNA binding in ribosomal functional sites. Proc Natl Acad Sci U S A (1998) 1.22
Affinity purification of ribosomes with a lethal G2655C mutation in 23 S rRNA that affects the translocation. J Biol Chem (2003) 1.16
Mapping important nucleotides in the peptidyl transferase centre of 23 S rRNA using a random mutagenesis approach. J Mol Biol (1995) 1.14
The G2447A mutation does not affect ionization of a ribosomal group taking part in peptide bond formation. RNA (2003) 1.13
Mutagenesis of the peptidyltransferase center of 23S rRNA: the invariant U2449 is dispensable. Nucleic Acids Res (2001) 1.04
Osmolytes stimulate the reconstitution of functional 50S ribosomes from in vitro transcripts of Escherichia coli 23S rRNA. RNA (2002) 1.00
Pseudoknot in domain II of 23 S rRNA is essential for ribosome function. J Mol Biol (1995) 1.00
Direct three-dimensional localization and positive identification of RNA helices within the ribosome by means of genetic tagging and cryo-electron microscopy. Structure (1999) 0.92
Interactions between 23S rRNA and tRNA in the ribosomal E site. RNA (2001) 0.89
Genetic selection of rRNA mutations. Methods Mol Biol (1998) 0.89
The elongating ribosome: structural and functional aspects. Biochem Cell Biol (1996) 0.87
The importance of conserved nucleotides of 23 S ribosomal RNA and transfer RNA in ribosome catalyzed peptide bond formation. J Biol Chem (1994) 0.87
Mutational analysis of 23S ribosomal RNA structure and function in Escherichia coli. Adv Genet (1999) 0.87
Crystal structure of the U1A spliceosomal protein complexed with its cognate RNA hairpin. Nucleic Acids Symp Ser (1995) 0.78
Long noncoding RNAs with enhancer-like function in human cells. Cell (2010) 13.00
Activating RNAs associate with Mediator to enhance chromatin architecture and transcription. Nature (2013) 3.98
Crystal structure of a self-splicing group I intron with both exons. Nature (2004) 3.92
Ribosome dynamics and tRNA movement by time-resolved electron cryomicroscopy. Nature (2010) 3.48
An elongation factor G-induced ribosome rearrangement precedes tRNA-mRNA translocation. Mol Cell (2003) 3.48
Kinetic determinants of high-fidelity tRNA discrimination on the ribosome. Mol Cell (2004) 3.40
Structural basis of ligand binding by a c-di-GMP riboswitch. Nat Struct Mol Biol (2009) 3.28
An induced-fit mechanism to promote peptide bond formation and exclude hydrolysis of peptidyl-tRNA. Nature (2005) 3.18
Structural basis for the function of the ribosomal L7/12 stalk in factor binding and GTPase activation. Cell (2005) 2.97
Structure of ratcheted ribosomes with tRNAs in hybrid states. Proc Natl Acad Sci U S A (2008) 2.77
Structural investigation of the GlmS ribozyme bound to Its catalytic cofactor. Chem Biol (2006) 2.60
Substrate-assisted catalysis of peptide bond formation by the ribosome. Nat Struct Mol Biol (2004) 2.53
Structural insights into the roles of water and the 2' hydroxyl of the P site tRNA in the peptidyl transferase reaction. Mol Cell (2005) 2.49
EF-P is essential for rapid synthesis of proteins containing consecutive proline residues. Science (2012) 2.44
Conformational changes of the small ribosomal subunit during elongation factor G-dependent tRNA-mRNA translocation. J Mol Biol (2004) 2.41
The ribosome as an entropy trap. Proc Natl Acad Sci U S A (2004) 2.40
A pre-translocational intermediate in protein synthesis observed in crystals of enzymatically active 50S subunits. Nat Struct Biol (2002) 2.36
Ribosome interactions of aminoacyl-tRNA and elongation factor Tu in the codon-recognition complex. Nat Struct Biol (2002) 2.24
Essential role of histidine 84 in elongation factor Tu for the chemical step of GTP hydrolysis on the ribosome. J Mol Biol (2003) 2.14
Structural evidence for a two-metal-ion mechanism of group I intron splicing. Science (2005) 2.05
Important contribution to catalysis of peptide bond formation by a single ionizing group within the ribosome. Mol Cell (2002) 1.91
GTPase activation of elongation factors Tu and G on the ribosome. Biochemistry (2002) 1.85
Control of phosphate release from elongation factor G by ribosomal protein L7/12. EMBO J (2005) 1.79
Sequence of steps in ribosome recycling as defined by kinetic analysis. Mol Cell (2005) 1.78
Role and timing of GTP binding and hydrolysis during EF-G-dependent tRNA translocation on the ribosome. Proc Natl Acad Sci U S A (2006) 1.73
A uniform response to mismatches in codon-anticodon complexes ensures ribosomal fidelity. Mol Cell (2006) 1.73
Signal sequence-independent membrane targeting of ribosomes containing short nascent peptides within the exit tunnel. Nat Struct Mol Biol (2008) 1.70
Catalytic strategies of self-cleaving ribozymes. Acc Chem Res (2008) 1.67
Kinetic checkpoint at a late step in translation initiation. Mol Cell (2008) 1.62
Ribosome clearance by FusB-type proteins mediates resistance to the antibiotic fusidic acid. Proc Natl Acad Sci U S A (2012) 1.62
The signal recognition particle binds to protein L23 at the peptide exit of the Escherichia coli ribosome. RNA (2003) 1.59
Peptide bond formation does not involve acid-base catalysis by ribosomal residues. Nat Struct Mol Biol (2006) 1.58
Exclusive interaction of the 15.5 kD protein with the terminal box C/D motif of a methylation guide snoRNP. Chem Biol (2002) 1.58
Coupling of GTP hydrolysis by elongation factor G to translocation and factor recycling on the ribosome. Biochemistry (2002) 1.54
Distinct functions of elongation factor G in ribosome recycling and translocation. RNA (2009) 1.54
Kinetic mechanism of elongation factor Ts-catalyzed nucleotide exchange in elongation factor Tu. Biochemistry (2002) 1.52
Crystal structure of a group I intron splicing intermediate. RNA (2004) 1.52
Spontaneous reverse movement of mRNA-bound tRNA through the ribosome. Nat Struct Mol Biol (2007) 1.51
Competencies: a cure for pre-med curriculum. Science (2011) 1.47
Streptomycin interferes with conformational coupling between codon recognition and GTPase activation on the ribosome. Nat Struct Mol Biol (2004) 1.44
Transient kinetics, fluorescence, and FRET in studies of initiation of translation in bacteria. Methods Enzymol (2007) 1.43
Purine bases at position 37 of tRNA stabilize codon-anticodon interaction in the ribosomal A site by stacking and Mg2+-dependent interactions. RNA (2004) 1.43
The nucleotide-binding site of bacterial translation initiation factor 2 (IF2) as a metabolic sensor. Proc Natl Acad Sci U S A (2006) 1.43
Structural basis of cooperative ligand binding by the glycine riboswitch. Chem Biol (2011) 1.43
Modulation of the rate of peptidyl transfer on the ribosome by the nature of substrates. J Biol Chem (2008) 1.42
Energy barriers and driving forces in tRNA translocation through the ribosome. Nat Struct Mol Biol (2013) 1.41
Kinetic analysis of interaction of eukaryotic release factor 3 with guanine nucleotides. J Biol Chem (2006) 1.37
The ribosomal peptidyl transferase. Mol Cell (2007) 1.36
The Cryo-EM structure of a complete 30S translation initiation complex from Escherichia coli. PLoS Biol (2011) 1.35
Structural and biochemical determinants of ligand binding by the c-di-GMP riboswitch . Biochemistry (2010) 1.35
Chemical basis of glycine riboswitch cooperativity. RNA (2007) 1.32
Evolutionary optimization of speed and accuracy of decoding on the ribosome. Philos Trans R Soc Lond B Biol Sci (2011) 1.30
Delayed release of inorganic phosphate from elongation factor Tu following GTP hydrolysis on the ribosome. Biochemistry (2006) 1.30
How ribosomes make peptide bonds. Trends Biochem Sci (2006) 1.30
Trigger factor binds to ribosome-signal-recognition particle (SRP) complexes and is excluded by binding of the SRP receptor. Proc Natl Acad Sci U S A (2004) 1.28
Structural basis of differential ligand recognition by two classes of bis-(3'-5')-cyclic dimeric guanosine monophosphate-binding riboswitches. Proc Natl Acad Sci U S A (2011) 1.28
Structural and chemical basis for glucosamine 6-phosphate binding and activation of the glmS ribozyme. Biochemistry (2009) 1.25
Ionization of a critical adenosine residue in the neurospora Varkud Satellite ribozyme active site. Biochemistry (2003) 1.24
IBI series winner. Student-directed discovery of the plant microbiome and its products. Science (2012) 1.24
The ribosome-bound initiation factor 2 recruits initiator tRNA to the 30S initiation complex. EMBO Rep (2010) 1.24
Essential mechanisms in the catalysis of peptide bond formation on the ribosome. J Biol Chem (2005) 1.23
tRNA tKUUU, tQUUG, and tEUUC wobble position modifications fine-tune protein translation by promoting ribosome A-site binding. Proc Natl Acad Sci U S A (2013) 1.23
Eukaryotic resistance to fluoride toxicity mediated by a widespread family of fluoride export proteins. Proc Natl Acad Sci U S A (2013) 1.22
The crystal structure of unmodified tRNAPhe from Escherichia coli. Nucleic Acids Res (2010) 1.22
RNA splicing: group I intron crystal structures reveal the basis of splice site selection and metal ion catalysis. Curr Opin Struct Biol (2006) 1.20
Molecular basis for RNA kink-turn recognition by the h15.5K small RNP protein. RNA (2005) 1.17
Structural and functional investigation of a putative archaeal selenocysteine synthase. Biochemistry (2005) 1.15
Codon reading by tRNAAla with modified uridine in the wobble position. Mol Cell (2007) 1.15
Interaction of helix D of elongation factor Tu with helices 4 and 5 of protein L7/12 on the ribosome. J Mol Biol (2004) 1.14
Optimization of speed and accuracy of decoding in translation. EMBO J (2010) 1.13
Real-time assembly landscape of bacterial 30S translation initiation complex. Nat Struct Mol Biol (2012) 1.13
Thermodynamic and kinetic framework of selenocysteyl-tRNASec recognition by elongation factor SelB. J Biol Chem (2009) 1.11
Conservation of bacterial protein synthesis machinery: initiation and elongation in Mycobacterium smegmatis. Biochemistry (2008) 1.10
Conformations of the signal recognition particle protein Ffh from Escherichia coli as determined by FRET. J Mol Biol (2005) 1.09
Kinetic isotope effect analysis of the ribosomal peptidyl transferase reaction. Biochemistry (2005) 1.09
Kinetic control of translation initiation in bacteria. Crit Rev Biochem Mol Biol (2012) 1.09
Differential analogue binding by two classes of c-di-GMP riboswitches. J Am Chem Soc (2011) 1.07
Uncovering the enzymatic pKa of the ribosomal peptidyl transferase reaction utilizing a fluorinated puromycin derivative. Biochemistry (2005) 1.06
Mechanism of peptide bond formation on the ribosome. Q Rev Biophys (2006) 1.06
Dynamic switch of the signal recognition particle from scanning to targeting. Nat Struct Mol Biol (2012) 1.05
Identification of an active site ligand for a group I ribozyme catalytic metal ion. Biochemistry (2002) 1.05
Identification of a tertiary interaction important for cooperative ligand binding by the glycine riboswitch. RNA (2010) 1.04
Kinetics of the interactions between yeast elongation factors 1A and 1Balpha, guanine nucleotides, and aminoacyl-tRNA. J Biol Chem (2007) 1.04
Biodegradation of polyester polyurethane by endophytic fungi. Appl Environ Microbiol (2011) 1.04
The 2'-OH group of the peptidyl-tRNA stabilizes an active conformation of the ribosomal PTC. EMBO J (2011) 1.04
Bioactive endophytes warrant intensified exploration and conservation. PLoS One (2008) 1.03
Participation of the tRNA A76 hydroxyl groups throughout translation. Biochemistry (2006) 1.01
Structural metals in the group I intron: a ribozyme with a multiple metal ion core. J Mol Biol (2007) 1.00