3WHO

X-ray-Crystallographic Structure of an RNase Po1 Exhibiting Anti-tumor Activity


Experimental Data Snapshot

  • Method: X-RAY DIFFRACTION
  • Resolution: 1.85 Å
  • R-Value Free: 0.250 
  • R-Value Work: 0.203 
  • R-Value Observed: 0.205 

wwPDB Validation   3D Report Full Report


This is version 2.1 of the entry. See complete history


Literature

X-ray crystallographic structure of RNase Po1 that exhibits anti-tumor activity.

Kobayashi, H.Katsutani, T.Hara, Y.Motoyoshi, N.Itagaki, T.Akita, F.Higashiura, A.Yamada, Y.Inokuchi, N.Suzuki, M.

(2014) Biol Pharm Bull 37: 968-978

  • DOI: https://doi.org/10.1248/bpb.b13-00929
  • Primary Citation of Related Structures:  
    3WHO

  • PubMed Abstract: 

    RNase Po1 is a guanylic acid-specific ribonuclease member of the RNase T1 family from Pleurotus ostreatus. We previously reported that RNase Po1 inhibits the proliferation of human tumor cells, yet RNase T1 and other T1 family RNases are non-toxic. We determined the three-dimensional X-ray structure of RNase Po1 and compared it with that of RNase T1. The catalytic sites are conserved. However, there are three disulfide bonds, one more than in RNase T1. One of the additional disulfide bond is in the catalytic and binding site of RNase Po1, and makes RNase Po1 more stable than RNase T1. A comparison of the electrostatic potential of the molecular surfaces of these two proteins shows that RNase T1 is anionic whereas RNase Po1 is cationic, so RNase Po1 might bind to the plasma membrane electrostatically. We suggest that the structural stability and cationic character of RNase Po1 are critical to the anti-cancer properties of the protein.


  • Organizational Affiliation

    School of Pharmacy, Nihon University.


Macromolecules
Find similar proteins by:  (by identity cutoff)  |  3D Structure
Entity ID: 1
MoleculeChains Sequence LengthOrganismDetailsImage
Guanyl-specific ribonuclease Po1
A, B, C
101Pleurotus ostreatusMutation(s): 1 
EC: 4.6.1.24
UniProt
Find proteins for P81762 (Pleurotus ostreatus)
Explore P81762 
Go to UniProtKB:  P81762
Entity Groups  
Sequence Clusters30% Identity50% Identity70% Identity90% Identity95% Identity100% Identity
UniProt GroupP81762
Sequence Annotations
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  • Reference Sequence
Experimental Data & Validation

Experimental Data

  • Method: X-RAY DIFFRACTION
  • Resolution: 1.85 Å
  • R-Value Free: 0.250 
  • R-Value Work: 0.203 
  • R-Value Observed: 0.205 
  • Space Group: P 31
Unit Cell:
Length ( Å )Angle ( ˚ )
a = 75.557α = 90
b = 75.557β = 90
c = 34.803γ = 120
Software Package:
Software NamePurpose
ADSCdata collection
MOLREPphasing
PHENIXrefinement
XDSdata reduction
SCALAdata scaling

Structure Validation

View Full Validation Report



Entry History & Funding Information

Deposition Data


Funding OrganizationLocationGrant Number
Not funded--

Revision History  (Full details and data files)

  • Version 1.0: 2014-07-02
    Type: Initial release
  • Version 1.1: 2019-10-09
    Changes: Data collection, Database references
  • Version 2.0: 2023-10-11
    Type: Coordinate replacement
    Reason: Sequence discrepancy
    Changes: Advisory, Atomic model, Author supporting evidence, Data collection, Database references, Derived calculations, Other, Polymer sequence, Refinement description, Source and taxonomy, Structure summary
  • Version 2.1: 2024-11-13
    Changes: Structure summary