Literature DB >> 15547133

RNA kink turns to the left and to the right.

Scott A Strobel1, Peter L Adams, Mary R Stahley, Jimin Wang.   

Abstract

A helix-loop-helix within the group I intron has most of the canonical sequence elements of a kink turn (K-turn), yet it bends in the opposite direction. The reverse K-turn kinks toward the major rather than the minor grooves of the flanking helices. This suggests that there are two distinct subclasses of tertiary structures that a K-turn secondary structure can adopt. The final structure may be specified by external factors, such as protein binding or the tertiary structural context, rather than the intrinsic conformation of the RNA.

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Year:  2004        PMID: 15547133      PMCID: PMC1370673          DOI: 10.1261/rna.7141504

Source DB:  PubMed          Journal:  RNA        ISSN: 1355-8382            Impact factor:   4.942


  14 in total

1.  The complete atomic structure of the large ribosomal subunit at 2.4 A resolution.

Authors:  N Ban; P Nissen; J Hansen; P B Moore; T A Steitz
Journal:  Science       Date:  2000-08-11       Impact factor: 47.728

2.  Crystal structure of the 30 S ribosomal subunit from Thermus thermophilus: structure of the proteins and their interactions with 16 S RNA.

Authors:  Ditlev E Brodersen; William M Clemons; Andrew P Carter; Brian T Wimberly; V Ramakrishnan
Journal:  J Mol Biol       Date:  2002-02-22       Impact factor: 5.469

3.  RNA structure comparison, motif search and discovery using a reduced representation of RNA conformational space.

Authors:  Carlos M Duarte; Leven M Wadley; Anna Marie Pyle
Journal:  Nucleic Acids Res       Date:  2003-08-15       Impact factor: 16.971

4.  Crystal structure of the ribosomal RNA domain essential for binding elongation factors.

Authors:  C C Correll; A Munishkin; Y L Chan; Z Ren; I G Wool; T A Steitz
Journal:  Proc Natl Acad Sci U S A       Date:  1998-11-10       Impact factor: 11.205

5.  The conformation of the sarcin/ricin loop from 28S ribosomal RNA.

Authors:  A A Szewczak; P B Moore; Y L Chang; I G Wool
Journal:  Proc Natl Acad Sci U S A       Date:  1993-10-15       Impact factor: 11.205

6.  The kink-turn: a new RNA secondary structure motif.

Authors:  D J Klein; T M Schmeing; P B Moore; T A Steitz
Journal:  EMBO J       Date:  2001-08-01       Impact factor: 11.598

7.  Biochemical characterization of the kink-turn RNA motif.

Authors:  Shigeyoshi Matsumura; Yoshiya Ikawa; Tan Inoue
Journal:  Nucleic Acids Res       Date:  2003-10-01       Impact factor: 16.971

8.  Crystal structure of a self-splicing group I intron with both exons.

Authors:  Peter L Adams; Mary R Stahley; Anne B Kosek; Jimin Wang; Scott A Strobel
Journal:  Nature       Date:  2004-06-02       Impact factor: 49.962

9.  The kink-turn motif in RNA is dimorphic, and metal ion-dependent.

Authors:  Terry A Goody; Sonya E Melcher; David G Norman; David M J Lilley
Journal:  RNA       Date:  2004-02       Impact factor: 4.942

10.  Frequent use of the same tertiary motif by self-folding RNAs.

Authors:  M Costa; F Michel
Journal:  EMBO J       Date:  1995-03-15       Impact factor: 11.598

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  25 in total

1.  Crystal structure of a group I intron splicing intermediate.

Authors:  Peter L Adams; Mary R Stahley; Michelle L Gill; Anne B Kosek; Jimin Wang; Scott A Strobel
Journal:  RNA       Date:  2004-12       Impact factor: 4.942

Review 2.  K-turn motifs in spatial RNA coding.

Authors:  Henri Tiedge
Journal:  RNA Biol       Date:  2006-10-31       Impact factor: 4.652

3.  An alternating sheared AA pair and elements of stability for a single sheared purine-purine pair flanked by sheared GA pairs in RNA.

Authors:  Gang Chen; Scott D Kennedy; Jing Qiao; Thomas R Krugh; Douglas H Turner
Journal:  Biochemistry       Date:  2006-06-06       Impact factor: 3.162

Review 4.  The building blocks and motifs of RNA architecture.

Authors:  Neocles B Leontis; Aurelie Lescoute; Eric Westhof
Journal:  Curr Opin Struct Biol       Date:  2006-05-19       Impact factor: 6.809

5.  Evaluating and learning from RNA pseudotorsional space: quantitative validation of a reduced representation for RNA structure.

Authors:  Leven M Wadley; Kevin S Keating; Carlos M Duarte; Anna Marie Pyle
Journal:  J Mol Biol       Date:  2007-06-27       Impact factor: 5.469

6.  Tertiary interactions determine the accuracy of RNA folding.

Authors:  Seema Chauhan; Sarah A Woodson
Journal:  J Am Chem Soc       Date:  2008-01-08       Impact factor: 15.419

7.  Using sequence signatures and kink-turn motifs in knowledge-based statistical potentials for RNA structure prediction.

Authors:  Cigdem Sevim Bayrak; Namhee Kim; Tamar Schlick
Journal:  Nucleic Acids Res       Date:  2017-05-19       Impact factor: 16.971

8.  Plasticity of the RNA kink turn structural motif.

Authors:  Alexandra H Antonioli; Jesse C Cochrane; Sarah V Lipchock; Scott A Strobel
Journal:  RNA       Date:  2010-02-09       Impact factor: 4.942

9.  Selective stabilization of natively folded RNA structure by DNA constraints.

Authors:  Joseph P Gerdt; Chandrasekhar V Miduturu; Scott K Silverman
Journal:  J Am Chem Soc       Date:  2008-10-15       Impact factor: 15.419

10.  RNAMotifScan: automatic identification of RNA structural motifs using secondary structural alignment.

Authors:  Cuncong Zhong; Haixu Tang; Shaojie Zhang
Journal:  Nucleic Acids Res       Date:  2010-08-08       Impact factor: 16.971

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