1OSU

STRUCTURE OF THE RNA HEXAMER, R(UUCGCG), WITH A 5'-UU-OVERHANG EXHIBITING HOOGSTEEN-LIKE TRANS U-U BASE PAIRS


Experimental Data Snapshot

  • Method: X-RAY DIFFRACTION
  • Resolution: 1.4 Å
  • R-Value Work: 0.161 

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This is version 1.2 of the entry. See complete history

Literature

The structure of r(UUCGCG) has a 5'-UU-overhang exhibiting Hoogsteen-like trans U.U base pairs.

Wahl, M.C.Rao, S.T.Sundaralingam, M.

(1996) Nat.Struct.Mol.Biol. 3: 24-31


  • PubMed Abstract: 
  • The crystal structure of the RNA fragment, 5'-r(UUCGCG)-3', has been determined at 1.4 A resolution by a combination of single isomorphous replacement and molecular search methods. The 3'-terminal CGCG portion of the hexamer engages in Watson-Crick h ...

    The crystal structure of the RNA fragment, 5'-r(UUCGCG)-3', has been determined at 1.4 A resolution by a combination of single isomorphous replacement and molecular search methods. The 3'-terminal CGCG portion of the hexamer engages in Watson-Crick hydrogen bonding while the 5'-terminal UU-overhang forms novel Hoogsteen-like U.U self-base pairs with the overhang of an adjacent duplex. The U.U pairs display a single conventional hydrogen bond between O4 (U1) and N3 (U8) and a CH-O hydrogen bond between C5-H (U1) and O4 (U8), through the Hoogsteen face of the pyrimidine base U1. This unusual arrangement of one of the bases results in a trans U.U pair on antiparallel strands in contrast to the usual cis base pairs. The structure emphasizes the pronounced polymorphism of U.U pairs and has implications for folding of RNA molecules.


    Related Citations: 
    • Structure of an RNA Double Helix Including Uracil-Uracil Base Pairs in an Internal Loop
      Baeyens, K.J.,DeBondt, H.L.,Holbrook, S.R.
      (1995) Nat.Struct.Mol.Biol. 2: 56


    Organizational Affiliation

    Ohio State University, Department of Chemistry, Columbus 43210, USA.




Macromolecules

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Entity ID: 1
MoleculeChainsLengthOrganism
RNA (5'-R(*UP*UP*CP*GP*CP*G)-3')A6N/A
Experimental Data & Validation

Experimental Data

  • Method: X-RAY DIFFRACTION
  • Resolution: 1.4 Å
  • R-Value Work: 0.161 
  • Space Group: C 2 2 21
Unit Cell:
Length (Å)Angle (°)
a = 30.600α = 90.00
b = 34.000β = 90.00
c = 29.200γ = 90.00
Software Package:
Software NamePurpose
X-PLORrefinement

Structure Validation

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Entry History 

Deposition Data

Revision History 

  • Version 1.0: 1996-04-04
    Type: Initial release
  • Version 1.1: 2008-05-22
    Type: Version format compliance
  • Version 1.2: 2011-07-13
    Type: Version format compliance