6E7L

Structure of a dimerized UUCG motif

  • Classification: RNA
  • Organism(s): synthetic construct

  • Deposited: 2018-07-26 Released: 2019-07-31 
  • Deposition Author(s): Montemayor, E.J., Butcher, S.E.
  • Funding Organization(s): National Institutes of Health/National Institute of General Medical Sciences; National Institutes of Health/National Institute of Arthritis and Musculoskeletal and Skin Diseases 

Experimental Data Snapshot

  • Method: X-RAY DIFFRACTION
  • Resolution: 2.59 Å
  • R-Value Free: 0.210 
  • R-Value Work: 0.176 

wwPDB Validation 3D Report Full Report


This is version 1.2 of the entry. See complete history

Literature

Structure of an RNA helix with pyrimidine mismatches and cross-strand stacking.

Montemayor, E.J.Virta, J.M.Hagler, L.D.Zimmerman, S.C.Butcher, S.E.

(2019) Acta Crystallogr.,Sect.F 75: 652-656

  • DOI: 10.1107/S2053230X19012172

  • PubMed Abstract: 
  • The structure of a 22-base-pair RNA helix with mismatched pyrimidine base pairs is reported. The helix contains two symmetry-related CUG sequences: a triplet-repeat motif implicated in myotonic dystrophy type 1. The CUG repeat contains a U-U mismatch ...

    The structure of a 22-base-pair RNA helix with mismatched pyrimidine base pairs is reported. The helix contains two symmetry-related CUG sequences: a triplet-repeat motif implicated in myotonic dystrophy type 1. The CUG repeat contains a U-U mismatch sandwiched between Watson-Crick pairs. Additionally, the center of the helix contains a dimerized UUCG motif with tandem pyrimidine (U-C/C-U) mismatches flanked by U-G wobble pairs. This region of the structure is significantly different from previously observed structures that share the same sequence and neighboring base pairs. The tandem pyrimidine mismatches are unusual and display sheared, cross-strand stacking geometries that locally constrict the helical width, a type of stacking previously associated with purines in internal loops. Thus, pyrimidine-rich regions of RNA have a high degree of structural diversity.


    Related Citations: 
    • Structure of an RNA helix with pyrimidine mismatches and cross-strand stacking
      Montemayor, E.J.,Virta, J.M.,Hagler, L.D.,Zimmerman, S.C.,Butcher, S.E.
      (2019) Acta Crystallogr.,Sect.F 75: 657


    Organizational Affiliation

    Department of Chemistry, University of Illinois Urbana-Champaign, Urbana, IL 61801, USA.,Department of Biochemistry, University of Wisconsin-Madison, Madison, WI 53706, USA.




Macromolecules

Find similar proteins by: Sequence  |  Structure

Entity ID: 1
MoleculeChainsLengthOrganism
RNA (5'-R(*GP*GP*GP*CP*UP*GP*CP*AP*CP*UP*UP*CP*GP*GP*UP*GP*CP*UP*GP*CP*CP*C)-3')A22synthetic construct
Experimental Data & Validation

Experimental Data

Unit Cell:
Length (Å)Angle (°)
a = 42.041α = 90.00
b = 42.041β = 90.00
c = 77.860γ = 90.00
Software Package:
Software NamePurpose
XDSdata reduction
PHENIXrefinement
Aimlessdata scaling
PHASERphasing

Structure Validation

View Full Validation Report or Ramachandran Plots



Entry History & Funding Information

Deposition Data


Funding OrganizationLocationGrant Number
National Institutes of Health/National Institute of General Medical SciencesUnited StatesR35 GM118131
National Institutes of Health/National Institute of Arthritis and Musculoskeletal and Skin DiseasesUnited StatesR01 AR069645
National Institutes of Health/National Institute of General Medical SciencesUnited StatesP41 GM103403

Revision History 

  • Version 1.0: 2019-07-31
    Type: Initial release
  • Version 1.1: 2019-10-16
    Type: Data collection, Database references
  • Version 1.2: 2019-11-13
    Type: Database references