4PER

Structure of Gallus gallus ribonuclease inhibitor complexed with Gallus gallus ribonuclease I


Experimental Data Snapshot

  • Method: X-RAY DIFFRACTION
  • Resolution: 1.92 Å
  • R-Value Free: 0.254 
  • R-Value Work: 0.202 
  • R-Value Observed: 0.205 

wwPDB Validation   3D Report Full Report


This is version 1.4 of the entry. See complete history


Literature

Functional evolution of ribonuclease inhibitor: insights from birds and reptiles.

Lomax, J.E.Bianchetti, C.M.Chang, A.Phillips, G.N.Fox, B.G.Raines, R.T.

(2014) J Mol Biol 426: 3041-3056

  • DOI: 10.1016/j.jmb.2014.06.007
  • Primary Citation of Related Structures:  
    3TSR, 4PEQ, 4PER

  • PubMed Abstract: 
  • Ribonuclease inhibitor (RI) is a conserved protein of the mammalian cytosol. RI binds with high affinity to diverse secretory ribonucleases (RNases) and inhibits their enzymatic activity. Although secretory RNases are found in all vertebrates, the existence of a non-mammalian RI has been uncertain ...

    Ribonuclease inhibitor (RI) is a conserved protein of the mammalian cytosol. RI binds with high affinity to diverse secretory ribonucleases (RNases) and inhibits their enzymatic activity. Although secretory RNases are found in all vertebrates, the existence of a non-mammalian RI has been uncertain. Here, we report on the identification and characterization of RI homologs from chicken and anole lizard. These proteins bind to RNases from multiple species but exhibit much greater affinity for their cognate RNases than for mammalian RNases. To reveal the basis for this differential affinity, we determined the crystal structure of mouse, bovine, and chicken RI·RNase complexes to a resolution of 2.20, 2.21, and 1.92Å, respectively. A combination of structural, computational, and bioinformatic analyses enabled the identification of two residues that appear to contribute to the differential affinity for RNases. We also found marked differences in oxidative instability between mammalian and non-mammalian RIs, indicating evolution toward greater oxygen sensitivity in RIs from mammalian species. Taken together, our results illuminate the structural and functional evolution of RI, along with its dynamic role in vertebrate biology.


    Organizational Affiliation

    Department of Biochemistry, University of Wisconsin-Madison, Madison, WI 53706, USA; Department of Chemistry, University of Wisconsin-Madison, Madison, WI 53706, USA. Electronic address: rtraines@wisc.edu.



Macromolecules
Find similar proteins by:  (by identity cutoff)  |  Structure
Entity ID: 1
MoleculeChainsSequence LengthOrganismDetailsImage
Ribonuclease InhibitorA460Gallus gallusMutation(s): 0 
Gene Names: RNH1RCJMB04_22k18
Find proteins for Q5ZIY8 (Gallus gallus)
Explore Q5ZIY8 
Go to UniProtKB:  Q5ZIY8
Protein Feature View
Expand
  • Reference Sequence
Find similar proteins by:  (by identity cutoff)  |  Structure
Entity ID: 2
MoleculeChainsSequence LengthOrganismDetailsImage
AngiogeninB113Gallus gallusMutation(s): 0 
Gene Names: ANGRNaseA
EC: 3.1.27
Find proteins for P27043 (Gallus gallus)
Explore P27043 
Go to UniProtKB:  P27043
Protein Feature View
Expand
  • Reference Sequence
Experimental Data & Validation

Experimental Data

  • Method: X-RAY DIFFRACTION
  • Resolution: 1.92 Å
  • R-Value Free: 0.254 
  • R-Value Work: 0.202 
  • R-Value Observed: 0.205 
  • Space Group: P 21 21 21
Unit Cell:
Length ( Å )Angle ( ˚ )
a = 52.662α = 90
b = 84.538β = 90
c = 121.661γ = 90
Software Package:
Software NamePurpose
PDB_EXTRACTdata extraction
PHASERphasing
PHENIXrefinement

Structure Validation

View Full Validation Report



Entry History 

Deposition Data

Revision History  (Full details and data files)

  • Version 1.0: 2014-06-25
    Type: Initial release
  • Version 1.1: 2014-07-02
    Changes: Database references
  • Version 1.2: 2014-09-24
    Changes: Structure summary
  • Version 1.3: 2014-10-01
    Changes: Database references
  • Version 1.4: 2017-11-22
    Changes: Database references, Derived calculations, Other, Refinement description, Source and taxonomy