1K3F

Uridine Phosphorylase from E. coli, Refined in the Monoclinic Crystal Lattice


Experimental Data Snapshot

  • Method: X-RAY DIFFRACTION
  • Resolution: 2.50 Å
  • R-Value Work: 0.186 

Starting Model: experimental
View more details

wwPDB Validation   3D Report Full Report


This is version 1.4 of the entry. See complete history


Literature

Atomic structure at 2.5 A resolution of uridine phosphorylase from E. coli as refined in the monoclinic crystal lattice.

Morgunova, E.Yu.Mikhailov, A.M.Popov, A.N.Blagova, E.V.Smirnova, E.A.Vainshtein, B.K.Mao, C.Armstrong, S.R.Ealick, S.E.Komissarov, A.A.Linkova, E.V.Burlakova, A.A.Mironov, A.S.Debabov, V.G.

(1995) FEBS Lett 367: 183-187

  • DOI: https://doi.org/10.1016/0014-5793(95)00489-v
  • Primary Citation of Related Structures:  
    1K3F

  • PubMed Abstract: 

    Uridine phosphorylase from E. coli (Upase) has been crystallized using vapor diffusion technique in a new monoclinic crystal form. The structure was determined by the molecular replacement method at 2.5 A resolution. The coordinates of the trigonal crystal form were used as a starting model and the refinement by the program XPLOR led to the R-factor of 18.6%. The amino acid fold of the protein was found to be the same as that in the trigonal crystals. The positions of flexible regions were refined. The conclusion about the involvement in the active site is in good agreement with the results of the biochemical experiments.


  • Organizational Affiliation

    Institute of Crystallography of Russian Academy of Sciences, Moscow.


Macromolecules
Find similar proteins by:  (by identity cutoff)  |  3D Structure
Entity ID: 1
MoleculeChains Sequence LengthOrganismDetailsImage
uridine phosphorylase
A, B, C, D, E
A, B, C, D, E, F
253Escherichia coliMutation(s): 0 
EC: 2.4.2.3
UniProt
Find proteins for P12758 (Escherichia coli (strain K12))
Explore P12758 
Go to UniProtKB:  P12758
Entity Groups  
Sequence Clusters30% Identity50% Identity70% Identity90% Identity95% Identity100% Identity
UniProt GroupP12758
Sequence Annotations
Expand
  • Reference Sequence
Experimental Data & Validation

Experimental Data

  • Method: X-RAY DIFFRACTION
  • Resolution: 2.50 Å
  • R-Value Work: 0.186 
  • Space Group: P 1 21 1
Unit Cell:
Length ( Å )Angle ( ˚ )
a = 92.6α = 90
b = 98.8β = 120.2
c = 93.7γ = 90
Software Package:
Software NamePurpose
AMoREphasing
X-PLORrefinement

Structure Validation

View Full Validation Report



Entry History 

Revision History  (Full details and data files)

  • Version 1.0: 2001-10-10
    Type: Initial release
  • Version 1.1: 2008-04-27
    Changes: Version format compliance
  • Version 1.2: 2011-07-13
    Changes: Version format compliance
  • Version 1.3: 2024-02-07
    Changes: Data collection, Database references, Refinement description
  • Version 1.4: 2024-04-03
    Changes: Refinement description