2USH

5'-NUCLEOTIDASE FROM E. COLI


Experimental Data Snapshot

  • Method: X-RAY DIFFRACTION
  • Resolution: 2.22 Å
  • R-Value Free: 0.254 
  • R-Value Work: 0.198 
  • R-Value Observed: 0.198 

wwPDB Validation   3D Report Full Report


This is version 1.2 of the entry. See complete history


Literature

X-ray structure of the Escherichia coli periplasmic 5'-nucleotidase containing a dimetal catalytic site.

Knofel, T.Strater, N.

(1999) Nat Struct Biol 6: 448-453

  • DOI: 10.1038/8253
  • Primary Citation of Related Structures:  
    1USH, 2USH

  • PubMed Abstract: 
  • The crystal structure of 5'-nucleotidase (5'-NT) from E. coli, also known as UDP-sugar hydrolase, has been determined at 1.7 A resolution. Two zinc ions are present in the active site, which is located in a cleft between two domains. The dimetal center and a catalytic Asp-His dyad are the main players in the catalytic mechanism ...

    The crystal structure of 5'-nucleotidase (5'-NT) from E. coli, also known as UDP-sugar hydrolase, has been determined at 1.7 A resolution. Two zinc ions are present in the active site, which is located in a cleft between two domains. The dimetal center and a catalytic Asp-His dyad are the main players in the catalytic mechanism. Structure-based sequence comparisons show that the structure also provides a model for animal 5'-NTs, which together with other ectonucleotidases terminate the action of nucleotides as extracellular signaling substances in the nervous system.


    Related Citations: 
    • Nucleotide Sequence and Transcriptional Analysis of the E. Coli Usha Gene, Encoding Periplasmic Udp-Sugar Hydrolase (5'-Nucleotidase): Regulation of the Usha Gene, and the Signal Sequence of its Encoded Protein Product
      Burns, D.M., Beacham, I.R.
      (1986) Nucleic Acids Res 14: 4325

    Organizational Affiliation

    Institut für Kristallographie, Abteilung Saenger, Freie Universität Berlin, Germany.



Macromolecules
Find similar proteins by:  (by identity cutoff)  |  3D Structure
Entity ID: 1
MoleculeChainsSequence LengthOrganismDetailsImage
5'-NUCLEOTIDASEA, B550Escherichia coli K-12Mutation(s): 0 
Gene Names: ushAb0480JW0469
EC: 3.1.3.5 (PDB Primary Data), 3.6.1.45 (UniProt)
UniProt
Find proteins for P07024 (Escherichia coli (strain K12))
Explore P07024 
Go to UniProtKB:  P07024
Entity Groups  
Sequence Clusters30% Identity50% Identity70% Identity90% Identity95% Identity100% Identity
UniProt GroupP07024
Protein Feature View
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  • Reference Sequence
Experimental Data & Validation

Experimental Data

  • Method: X-RAY DIFFRACTION
  • Resolution: 2.22 Å
  • R-Value Free: 0.254 
  • R-Value Work: 0.198 
  • R-Value Observed: 0.198 
  • Space Group: P 21 21 21
Unit Cell:
Length ( Å )Angle ( ˚ )
a = 93.21α = 90
b = 116.29β = 90
c = 132.77γ = 90
Software Package:
Software NamePurpose
DENZOdata reduction
SCALEPACKdata scaling
DMmodel building
MLPHAREphasing
SHARPphasing
X-PLORrefinement
DMphasing

Structure Validation

View Full Validation Report




Entry History 

Deposition Data

Revision History  (Full details and data files)

  • Version 1.0: 1999-06-15
    Type: Initial release
  • Version 1.1: 2008-03-03
    Changes: Version format compliance
  • Version 1.2: 2011-07-13
    Changes: Derived calculations, Source and taxonomy, Version format compliance