1RTA

CRYSTAL STRUCTURE DISPOSITION OF THYMIDYLIC ACID TETRAMER IN COMPLEX WITH RIBONUCLEASE A


Experimental Data Snapshot

  • Method: X-RAY DIFFRACTION
  • Resolution: 2.50 Å
  • R-Value Work: 0.235 
  • R-Value Observed: 0.235 

wwPDB Validation 3D Report Full Report


This is version 1.2 of the entry. See complete history


Literature

Crystal structure disposition of thymidylic acid tetramer in complex with ribonuclease A.

Birdsall, D.L.McPherson, A.

(1992) J Biol Chem 267: 22230-22236

  • Primary Citation of Related Structures:  
    1RTB, 1RTA

  • PubMed Abstract: 
  • The crystal structure of ribonuclease A with bound thymidylic acid tetramer is reported at 2.5-A resolution. The diffusion of the tetramer into native orthorhombic crystals of the ribonuclease allows for the formation of a structurally stable complex ...

    The crystal structure of ribonuclease A with bound thymidylic acid tetramer is reported at 2.5-A resolution. The diffusion of the tetramer into native orthorhombic crystals of the ribonuclease allows for the formation of a structurally stable complex where the single-stranded nucleic acid enters and leaves the enzyme's catalytic region in a persistent 5'-3' direction. The binding of the tetramer to the enzyme's surface is facilitated and mediated by electrostatic interactions between basic protein residues and nucleotide phosphates. Two pyrimidine nucleotides are bound to the enzyme's active site in a manner similar to that observed for other complexes between ribonuclease A and nucleic acid oligomers.


    Related Citations: 
    • Comparison of Two Independently Refined Models of Ribonuclease A
      Wlodawer, A., Borkakoti, N., Moss, D.S., Howlin, B.
      (1986) Acta Crystallogr B 42: 379
    • Nuclear Magnetic Resonance and Neutron Diffraction Studies of the Complex of Ribonuclease A with Uridine Vanadate, a Transition-State Analogue
      Borah, B., Chen, C.-W., Egan, W., Miller, M., Wlodawer, A., Cohen, J.S.
      (1985) Biochemistry 24: 2058
    • Active Site of RNase: Neutron Diffraction Study of a Complex with Uridine Vanadate, a Transition-State Analog
      Wlodawer, A., Miller, M., Sjolin, L.
      (1983) Proc Natl Acad Sci U S A 80: 3628
    • Structure of Ribonuclease A: Results of Joint Neutron and X-Ray Refinement at 2.0 Angstroms Resolution
      Wlodawer, A., Sjolin, L.
      (1983) Biochemistry 22: 2720
    • The Refined Crystal Structure of Ribonuclease A at 2.0 Angstroms Resolution
      Wlodawer, A., Bott, R., Sjolin, L.
      (1982) J Biol Chem 257: 1325
    • Hydrogen Exchange in RNase A: Neutron Diffraction Study
      Wlodawer, A., Sjolin, L.
      (1982) Proc Natl Acad Sci U S A 79: 1418
    • Structure of Ribonuclease A: X-Ray and Neutron Refinement
      Wlodawer, A., Bott, R., Sjolin, L.
      (1981) Acta Crystallogr A 37: 13
    • Joint Refinement of Macromolecular Structures with X-Ray and Neutron Single- Crystal Diffraction Data
      Wlodawer, A., Hendrickson, W.A.
      (1981) Acta Crystallogr A 37: 8
    • Orientation of Histidine Residues in RNase A: Neutron Diffraction Study
      Wlodawer, A., Sjolin, L.
      (1981) Proc Natl Acad Sci U S A 78: 2853
    • Studies of Ribonuclease A by X-Ray and Neutron Diffraction
      Wlodawer, A.
      (1980) Acta Crystallogr B 36: 1826

    Organizational Affiliation

    Division of Biomedical Sciences, Lawrence Livermore National Laboratory, University of California, Livermore 94550.



Macromolecules

Find similar proteins by:  (by identity cutoff)  |  Structure
Entity ID: 2
MoleculeChainsSequence LengthOrganismDetailsImage
PROTEIN (RIBONUCLEASE A (E.C.3.1.27.5))E124Bos taurusMutation(s): 0 
Gene Names: RNASE1RNS1
EC: 3.1.27.5 (PDB Primary Data), 4.6.1.18 (UniProt)
Find proteins for P61823 (Bos taurus)
Explore P61823 
Go to UniProtKB:  P61823
Protein Feature View
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  • Reference Sequence
  • Find similar nucleic acids by:  Sequence   |   Structure
  • Entity ID: 1
    MoleculeChainsLengthOrganismImage
    DNA (5'-D(*TP*TP*TP*T)-3')C4N/A
    Experimental Data & Validation

    Experimental Data

    • Method: X-RAY DIFFRACTION
    • Resolution: 2.50 Å
    • R-Value Work: 0.235 
    • R-Value Observed: 0.235 
    • Space Group: P 21 21 21
    Unit Cell:
    Length ( Å )Angle ( ˚ )
    a = 44.9α = 90
    b = 75β = 90
    c = 43.6γ = 90
    Software Package:
    Software NamePurpose
    X-PLORrefinement
    CORELSrefinement

    Structure Validation

    View Full Validation Report



    Entry History 

    Deposition Data

    Revision History 

    • Version 1.0: 1993-10-31
      Type: Initial release
    • Version 1.1: 2008-05-22
      Changes: Version format compliance
    • Version 1.2: 2011-07-13
      Changes: Version format compliance