4M6F

Dimer of the G-Segment Invertase bound to a DNA substrate


Experimental Data Snapshot

  • Method: X-RAY DIFFRACTION
  • Resolution: 4.99 Å
  • R-Value Free: 0.288 
  • R-Value Work: 0.229 

wwPDB Validation 3D Report Full Report


This is version 1.1 of the entry. See complete history

Literature

Exploiting large non-isomorphous differences for phase determination of a G-segment invertase-DNA complex.

Ritacco, C.J.Steitz, T.A.Wang, J.

(2014) Acta Crystallogr.,Sect.D 70: 685-693

  • DOI: 10.1107/S1399004713032392

  • PubMed Abstract: 
  • Crystals of the G-segment invertase in complex with a 37-base-pair asymmetric DNA duplex substrate had an unusually high solvent content of 88% and diffracted to a maximal resolution of about 5.0 Å. These crystals exhibited a high degree of non-isomo ...

    Crystals of the G-segment invertase in complex with a 37-base-pair asymmetric DNA duplex substrate had an unusually high solvent content of 88% and diffracted to a maximal resolution of about 5.0 Å. These crystals exhibited a high degree of non-isomorphism and anisotropy, which presented a serious challenge for structure determination by isomorphous replacement. Here, a procedure of cross-crystal averaging is described that uses large non-isomorphous crystallographic data with a priori information of an approximate molecular boundary as determined from a minimal amount of experimental phase information. Using this procedure, high-quality experimental phases were obtained that have enabled it to be shown that the conformation of the bound substrate DNA duplex significantly differs from those of substrates bound in other serine recombinase-DNA complexes.


    Organizational Affiliation

    Department of Molecular Biophysics and Biochemistry, Yale University, New Haven, CT 06520, USA.




Macromolecules

Find similar proteins by: Sequence  |  Structure


Entity ID: 1
MoleculeChainsSequence LengthOrganismDetails
DNA-invertase
A
193Escherichia phage MuMutation(s): 0 
Gene Names: gin
EC: 3.1.22.-, 6.5.1.-
Find proteins for P03015 (Escherichia phage Mu)
Go to UniProtKB:  P03015
Entity ID: 2
MoleculeChainsLengthOrganism
gix site analogB17N/A
Entity ID: 3
MoleculeChainsLengthOrganism
gix site analogC18N/A
Experimental Data & Validation

Experimental Data

  • Method: X-RAY DIFFRACTION
  • Resolution: 4.99 Å
  • R-Value Free: 0.288 
  • R-Value Work: 0.229 
  • Space Group: P 64 2 2
Unit Cell:
Length (Å)Angle (°)
a = 119.800α = 90.00
b = 119.800β = 90.00
c = 343.400γ = 120.00
Software Package:
Software NamePurpose
XDSdata scaling
CBASSdata collection
CNSrefinement
XDSdata reduction
SHELXSphasing

Structure Validation

View Full Validation Report or Ramachandran Plots



Entry History 

Deposition Data

Revision History 

  • Version 1.0: 2014-03-12
    Type: Initial release
  • Version 1.1: 2014-04-02
    Type: Database references