| Q27765139 | A 1.3-A resolution crystal structure of the HIV-1 trans-activation response region RNA stem reveals a metal ion-dependent bulge conformation |
| Q33653378 | A chemogenetic approach to RNA function/structure analysis |
| Q27639113 | A compact RNA tertiary structure contains a buried backbone-K+ complex |
| Q37215335 | A recurrent magnesium-binding motif provides a framework for the ribosomal peptidyl transferase center |
| Q41912492 | A short fragment of 23S rRNA containing the binding sites for two ribosomal proteins, L24 and L4, is a key element for rRNA folding during early assembly |
| Q77530280 | A specific monovalent metal ion integral to the AA platform of the RNA tetraloop receptor |
| Q27625449 | A water channel in the core of the vitamin B(12) RNA aptamer |
| Q27764890 | A zipper-like duplex in DNA: the crystal structure of d(GCGAAAGCT) at 2.1 A resolution |
| Q34366723 | Accessibility of 18S rRNA in human 40S subunits and 80S ribosomes at physiological magnesium ion concentrations--implications for the study of ribosome dynamics |
| Q62763957 | All-atom MD indicates ion-dependent behavior of therapeutic DNA polymer |
| Q30306960 | An early transition state for folding of the P4-P6 RNA domain |
| Q36542678 | An optimal Mg(2+) concentration for kinetic folding of the tetrahymena ribozyme |
| Q34362691 | An unconventional origin of metal-ion rescue and inhibition in the Tetrahymena group I ribozyme reaction |
| Q34282416 | Beyond kinetic traps in RNA folding |
| Q34497381 | Bidentate RNA-magnesium clamps: on the origin of the special role of magnesium in RNA folding |
| Q35115810 | Binding of Europium(III) ions to RNA stem loops: Role of the primary hydration sphere in complex formation |
| Q34553023 | Biography of Jennifer A. Doudna |
| Q36684846 | Cation-dependent folding of 3' cap-independent translation elements facilitates interaction of a 17-nucleotide conserved sequence with eIF4G |
| Q42266431 | Characterizing riboswitch function: identification of Mg2+ binding site in T box antiterminator RNA |
| Q42412663 | Charge density of divalent metal cations determines RNA stability |
| Q37619599 | Cobalt hexammine induced tautomeric shift in Z-DNA: the structure of d(CGCGCA)*d(TGCGCG) in two crystal forms |
| Q41819265 | Comparison of interactions of diamine and Mg²⁺ with RNA tertiary structures: similar versus differential effects on the stabilities of diverse RNA folds |
| Q37686061 | Conformational entropy of the RNA phosphate backbone and its contribution to the folding free energy |
| Q27679196 | Crystal structure of 3WJ core revealing divalent ion-promoted thermostability and assembly of the Phi29 hexameric motor pRNA |
| Q24540022 | Crystal structure of a model branchpoint-U2 snRNA duplex containing bulged adenosines |
| Q34037316 | DNA-dependent divalent cation binding in the nucleosome core particle |
| Q36972871 | Deletion of the P5abc peripheral element accelerates early and late folding steps of the Tetrahymena group I ribozyme |
| Q43950191 | Design, construction, and analysis of a novel class of self-folding RNA. |
| Q27629997 | Detection of alkali metal ions in DNA crystals using state-of-the-art X-ray diffraction experiments |
| Q41950806 | Determining the Mg2+ stoichiometry for folding an RNA metal ion core |
| Q33749946 | Dissecting electrostatic screening, specific ion binding, and ligand binding in an energetic model for glycine riboswitch folding |
| Q40848247 | Distinct sites of phosphorothioate substitution interfere with folding and splicing of the Anabaena group I intron |
| Q33635820 | Divalent ion competition reveals reorganization of an RNA ion atmosphere upon folding |
| Q36425977 | Effects of Mg2+ on the free energy landscape for folding a purine riboswitch RNA. |
| Q34361485 | Effects of polyvalent cations on the folding of an rRNA three-way junction and binding of ribosomal protein S15 |
| Q41648625 | Emerging themes in RNA folding |
| Q37300652 | Energy barriers, pathways, and dynamics during folding of large, multidomain RNAs |
| Q41687485 | Enhanced RNA binding of dimerized aminoglycosides |
| Q40305001 | Entropy-driven folding of an RNA helical junction: an isothermal titration calorimetric analysis of the hammerhead ribozyme. |
| Q36420588 | Evidence for a thermodynamically distinct Mg2+ ion associated with formation of an RNA tertiary structure |
| Q80306650 | Evidence for ditopic coordination of phosphate diesters to [Mg(15-crown-5)]2+. Implications for magnesium biocoordination chemistry |
| Q28199046 | Exposing the kinetic traps in RNA folding |
| Q27679537 | Fluoride ion encapsulation by Mg2+ ions and phosphates in a fluoride riboswitch |
| Q36968465 | Folding of a universal ribozyme: the ribonuclease P RNA. |
| Q39094727 | Folding of the group I intron ribozyme from the 26S rRNA gene of Candida albicans |
| Q36228464 | Folding path of P5abc RNA involves direct coupling of secondary and tertiary structures |
| Q35035429 | Formation of a GNRA tetraloop in P5abc can disrupt an interdomain interaction in the Tetrahymena group I ribozyme |
| Q24812515 | Functional identification of catalytic metal ion binding sites within RNA. |
| Q64259209 | Further Probing of Cu-Dependent PNAzymes Acting as Artificial RNA Restriction Enzymes |
| Q34362552 | Helix P4 is a divalent metal ion binding site in the conserved core of the ribonuclease P ribozyme |
| Q52347706 | Hidden Structural Modules in a Cooperative RNA Folding Transition. |
| Q36841288 | Hinge stiffness is a barrier to RNA folding |
| Q27660714 | Identification and characterization of anion binding sites in RNA |
| Q43206276 | Identification by modification-interference of purine N-7 and ribose 2'-OH groups critical for catalysis by bacterial ribonuclease P. |
| Q39258358 | Identification of a GUAAY Pentaloop Sequence Involved in a Novel RNA Loop-Helix Interaction |
| Q47632628 | Inner-Sphere Coordination of Divalent Metal Ion with Nucleobase in Catalytic RNA. |
| Q27666944 | Insights into Metalloregulation by M-box Riboswitch RNAs via Structural Analysis of Manganese-Bound Complexes |
| Q74251949 | Interstrand disulfide cross-linking of internal sugar residues in duplex RNA |
| Q39959277 | Inverse thio effects in the hepatitis delta virus ribozyme reveal that the reaction pathway is controlled by metal ion charge density |
| Q38379384 | Ion binding to biological macromolecules |
| Q34711836 | Ion distributions around left- and right-handed DNA and RNA duplexes: a comparative study |
| Q37213759 | Kinetic and thermodynamic framework for P4-P6 RNA reveals tertiary motif modularity and modulation of the folding preferred pathway |
| Q37173101 | Kinetic barriers and the role of topology in protein and RNA folding |
| Q77456678 | Leaving group stabilization by metal ion coordination and hydrogen bond donation is an evolutionarily conserved feature of group I introns |
| Q42144239 | Low specificity of metal ion binding in the metal ion core of a folded RNA. |
| Q34363194 | Magnesium ions mediate contacts between phosphoryl oxygens at positions 2122 and 2176 of the 23S rRNA and ribosomal protein L1. |
| Q37199348 | Magnesium-dependent folding of self-splicing RNA: exploring the link between cooperativity, thermodynamics, and kinetics |
| Q42093680 | Metal ion dependence of cooperative collapse transitions in RNA |
| Q43206321 | Metal ion probing of rRNAs: evidence for evolutionarily conserved divalent cation binding pockets. |
| Q38299358 | Metal-ion binding and metal-ion induced folding of the adenine-sensing riboswitch aptamer domain |
| Q42155694 | Metal-ion rescue revisited: biochemical detection of site-bound metal ions important for RNA folding |
| Q27748294 | Metals, motifs, and recognition in the crystal structure of a 5S rRNA domain |
| Q39808443 | Microenvironment analysis and identification of magnesium binding sites in RNA |
| Q24555115 | Modelling ion binding to AA platform motifs in RNA: a continuum solvent study including conformational adaptation |
| Q41721465 | Modern methods for probing RNA structure. |
| Q39319421 | Modulation of RNA metal binding by flanking bases: 15N NMR evaluation of GC, tandem GU, and tandem GA sites |
| Q38352124 | Multiple metal-binding cores are required for metalloregulation by M-box riboswitch RNAs |
| Q36076703 | Native secondary structure formation in RNA may be a slave to tertiary folding |
| Q28487403 | Nuclear localization and in situ DNA damage by Mycobacterium tuberculosis nucleoside-diphosphate kinase |
| Q58589393 | Nucleobase carbonyl groups are poor Mg inner-sphere binders but excellent monovalent ion binders - A critical PDB survey |
| Q42837216 | Nucleobases Undergo Dynamic Rearrangements during RNA Tertiary Folding |
| Q30472826 | Peptidyl-transferase ribozymes: trans reactions, structural characterization and ribosomal RNA-like features |
| Q33928709 | Phosphorothioate modification of RNA for stereochemical and interference analyses |
| Q33299471 | Prediction of RNA pseudoknots using heuristic modeling with mapping and sequential folding |
| Q36539995 | Probing the kinetic and thermodynamic consequences of the tetraloop/tetraloop receptor monovalent ion-binding site in P4-P6 RNA by smFRET. |
| Q30304561 | Quantifying the energetic interplay of RNA tertiary and secondary structure interactions |
| Q39597487 | Quantitative studies of Mn(2+)-promoted specific and non-specific cleavages of a large RNA: Mn(2+)-GAAA ribozymes and the evolution of small ribozymes |
| Q47756940 | Quantitative tests of a reconstitution model for RNA folding thermodynamics and kinetics |
| Q35769969 | RNA and its ionic cloud: solution scattering experiments and atomically detailed simulations. |
| Q33879873 | RNA bulges as architectural and recognition motifs |
| Q46726319 | RNA catalysis |
| Q28484063 | RNA folding and catalysis mediated by iron (II) |
| Q36313074 | RNA folding causes secondary structure rearrangement |
| Q33879864 | RNA folding: beyond Watson-Crick pairs |
| Q36774903 | RNA folding: conformational statistics, folding kinetics, and ion electrostatics. |
| Q28139993 | RNA folds: insights from recent crystal structures |
| Q77530243 | RNA shows its metal |
| Q74782081 | RNA structure |
| Q41595272 | RNA structure comes of age. |
| Q58952040 | RNA switches function |
| Q50972828 | RNA with iron(II) as a cofactor catalyses electron transfer. |
| Q73958586 | Rearrangement of a stable RNA secondary structure during VS ribozyme catalysis |
| Q35011079 | Removal of covalent heterogeneity reveals simple folding behavior for P4-P6 RNA. |
| Q28205184 | Ribozyme structures and mechanisms |
| Q34019400 | Ribozyme structures and mechanisms |
| Q36697486 | Role of ion valence in the submillisecond collapse and folding of a small RNA domain |
| Q39628690 | Roles of long-range tertiary interactions in limiting dynamics of the Tetrahymena group I ribozyme |
| Q35687704 | Selecting rRNA binding sites for the ribosomal proteins L4 and L6 from randomly fragmented rRNA: application of a method called SERF |
| Q34663762 | Short unligated sticky ends enable the observation of circularised DNA by atomic force and electron microscopies |
| Q35234470 | Single-molecule transition-state analysis of RNA folding |
| Q34364582 | Specific phosphorothioate substitutions probe the active site of Bacillus subtilis ribonuclease P. |
| Q57260333 | Structural Requirement for Mg2+ Binding in the Group I Intron Core |
| Q27631000 | Structural basis of the enhanced stability of a mutant ribozyme domain and a detailed view of RNA--solvent interactions |
| Q36670098 | Structural inference of native and partially folded RNA by high-throughput contact mapping |
| Q27638009 | Structural insights into group II intron catalysis and branch-site selection |
| Q36128803 | Structural metals in the group I intron: a ribozyme with a multiple metal ion core |
| Q41457306 | Structure of stem-loop IV of Tetrahymena telomerase RNA. |
| Q35269518 | Structure-function analysis from the outside in: long-range tertiary contacts in RNA exhibit distinct catalytic roles |
| Q28769589 | Tertiary structure formation in the hairpin ribozyme monitored by fluorescence resonance energy transfer |
| Q27635370 | The 1.19 A X-ray structure of 2'-O-Me(CGCGCG)(2) duplex shows dehydrated RNA with 2-methyl-2,4-pentanediol in the minor groove |
| Q41982240 | The P15-loop of Escherichia coli RNase P RNA is an autonomous divalent metal ion binding domain. |
| Q38314751 | The P5abc peripheral element facilitates preorganization of the tetrahymena group I ribozyme for catalysis |
| Q57054050 | The Story of RNA Folding, as Told in Epochs |
| Q39698136 | The bulge region of HIV-1 TAR RNA binds metal ions in solution. |
| Q41876011 | The chemical basis of adenosine conservation throughout the Tetrahymena ribozyme |
| Q34365980 | The contribution of metal ions to the structural stability of the large ribosomal subunit |
| Q42538862 | The electrostatic characteristics of G.U wobble base pairs |
| Q42995296 | The hepatitis C virus internal ribosome entry site adopts an ion-dependent tertiary fold |
| Q73522859 | The ion core in RNA folding |
| Q74546400 | The parallel universe of RNA folding |
| Q34064701 | The rate-limiting step in the folding of a large ribozyme without kinetic traps |
| Q46758030 | The role of intramolecular hydrogen bonding on nucleobase acidification following metal coordination: possible implications of an "indirect" role of metals in acid-base catalysis of nucleic acids |
| Q35773278 | Thermodynamic examination of 1- to 5-nt purine bulge loops in RNA and DNA constructs |
| Q38677817 | Thermodynamics and kinetics of RNA tertiary structure formation in the junctionless hairpin ribozyme |
| Q34362185 | Thiophilic metal ion rescue of phosphorothioate interference within the Tetrahymena ribozyme P4-P6 domain |
| Q28315032 | Three metal ions at the active site of the Tetrahymena group I ribozyme |
| Q27627193 | Two crystal forms of helix II of Xenopus laevis 5S rRNA with a cytosine bulge |
| Q26822427 | Understanding nucleic acid-ion interactions |
| Q85194981 | Using Analytical Ultracentrifugation (AUC) to Measure Global Conformational Changes Accompanying Equilibrium Tertiary Folding of RNA Molecules |
| Q27674728 | Visualizing Group II Intron Catalysis through the Stages of Splicing |
| Q74450662 | Visualizing metal-ion-binding sites in group I introns by iron(II)-mediated Fenton reactions |