Literature DB >> 2479753

Crystallographic structure of an RNA helix: [U(UA)6A]2.

A C Dock-Bregeon1, B Chevrier, A Podjarny, J Johnson, J S de Bear, G R Gough, P T Gilham, D Moras.   

Abstract

The crystallographic structure of the synthetic oligoribonucleotide, U(UA)6A, has been solved at 2.25 A resolution. The crystallographic refinement permitted the identification of 91 solvent molecules, with a final agreement factor of 13%. The molecule is a dimer of 14 base-pairs and shows the typical features of an A-type helix. However, the presence of two kinks causes a divergence from a straight helix. The observed deformation, which is stabilized by a few hydrogen bonds in the crystal packing, could be due to the relatively high (35 degrees C) temperature of crystallization. The complete analysis of the structure is presented. It includes the stacking geometries, the backbone conformation and the solvation.

Entities:  

Mesh:

Substances:

Year:  1989        PMID: 2479753     DOI: 10.1016/0022-2836(89)90010-7

Source DB:  PubMed          Journal:  J Mol Biol        ISSN: 0022-2836            Impact factor:   5.469


  39 in total

1.  B-form to A-form conversion by a 3'-terminal ribose: crystal structure of the chimera d(CCACTAGTG)r(G).

Authors:  M C Wahl; M Sundaralingam
Journal:  Nucleic Acids Res       Date:  2000-11-01       Impact factor: 16.971

2.  NMR structure of the chimeric hybrid duplex r(gcaguggc).r(gcca)d(CTGC) comprising the tRNA-DNA junction formed during initiation of HIV-1 reverse transcription.

Authors:  T Szyperski; M Götte; M Billeter; E Perola; L Cellai; H Heumann; K Wüthrich
Journal:  J Biomol NMR       Date:  1999-04       Impact factor: 2.835

3.  Polarizable force field for RNA based on the classical drude oscillator.

Authors:  Justin A Lemkul; Alexander D MacKerell
Journal:  J Comput Chem       Date:  2018-12-15       Impact factor: 3.376

4.  Detection of multiple conformations of the E-domain of 5S rRNA from Escherichia coli in solution and in crystals by NMR spectroscopy.

Authors:  M Grüne; J P Fürste; S Klussmann; V A Erdmann; L R Brown
Journal:  Nucleic Acids Res       Date:  1996-07-01       Impact factor: 16.971

5.  Double-stranded RNA under force and torque: similarities to and striking differences from double-stranded DNA.

Authors:  Jan Lipfert; Gary M Skinner; Johannes M Keegstra; Toivo Hensgens; Tessa Jager; David Dulin; Mariana Köber; Zhongbo Yu; Serge P Donkers; Fang-Chieh Chou; Rhiju Das; Nynke H Dekker
Journal:  Proc Natl Acad Sci U S A       Date:  2014-10-13       Impact factor: 11.205

6.  Antisense oligonucleotide-stimulated transcriptional pausing reveals RNA exit channel specificity of RNA polymerase and mechanistic contributions of NusA and RfaH.

Authors:  Kellie E Kolb; Pyae P Hein; Robert Landick
Journal:  J Biol Chem       Date:  2013-11-25       Impact factor: 5.157

7.  DNA polymerase activity on synthetic N3'→P5' phosphoramidate DNA templates.

Authors:  Victor S Lelyveld; Derek K O'Flaherty; Lijun Zhou; Enver Cagri Izgu; Jack W Szostak
Journal:  Nucleic Acids Res       Date:  2019-09-26       Impact factor: 16.971

8.  Modeling large RNAs and ribonucleoprotein particles using molecular mechanics techniques.

Authors:  A Malhotra; R K Tan; S C Harvey
Journal:  Biophys J       Date:  1994-06       Impact factor: 4.033

9.  On the use of phasing experiments to measure helical repeat and bulge loop-associated twist in RNA.

Authors:  R S Tang; D E Draper
Journal:  Nucleic Acids Res       Date:  1994-03-11       Impact factor: 16.971

10.  Different conformational families of pyrimidine.purine.pyrimidine triple helices depending on backbone composition.

Authors:  H Han; P B Dervan
Journal:  Nucleic Acids Res       Date:  1994-07-25       Impact factor: 16.971

View more

北京卡尤迪生物科技股份有限公司 © 2022-2023.