2R4T

Crystal Structure of Wild-type E.coli GS in Complex with ADP and Glucose(wtGSc)


X-RAY DIFFRACTION

Starting Model(s)

Initial Refinement Model(s)
TypeSourceAccession CodeDetails
experimental modelPDB 2QZS 

Crystallization

Crystalization Experiments
IDMethodpHTemperatureDetails
1VAPOR DIFFUSION, HANGING DROP7.627740%(w/v) PEG 4000, 0.2 M Na tartrate and 0.1 M HEPPSO (pH 7.6), VAPOR DIFFUSION, HANGING DROP, temperature 277K
Crystal Properties
Matthews coefficientSolvent content
5.778.3

Crystal Data

Unit Cell
Length ( Å )Angle ( ˚ )
a = 126.827α = 90
b = 126.827β = 90
c = 151.869γ = 90
Symmetry
Space GroupI 41

Diffraction

Diffraction Experiment
ID #Crystal IDScattering TypeData Collection TemperatureDetectorDetector TypeDetailsCollection DateMonochromatorProtocol
11x-ray100CCDMARMOSAIC 225 mm CCD2006-07-24MSINGLE WAVELENGTH
Radiation Source
ID #SourceTypeWavelength ListSynchrotron SiteBeamline
1SYNCHROTRONAPS BEAMLINE 5ID-B1.0APS5ID-B

Data Collection

Overall
ID #Resolution (High)Resolution (Low)Percent Possible (Observed)R Merge I (Observed)Net I Over Average Sigma (I)RedundancyNumber Reflections (All)Number Reflections (Observed)Observed Criterion Sigma (F)Observed Criterion Sigma (I)B (Isotropic) From Wilson Plot
12.25897.1399.90.05211.85.1560774.541.1
Highest Resolution Shell
ID #Resolution (High)Resolution (Low)Percent Possible (All)Percent Possible (Observed)R Merge I (Observed)Mean I Over Sigma (Observed)RedundancyNumber Unique Reflections (All)
2.2582.3499.80.2874.54.95555

Refinement

Statistics
Diffraction IDStructure Solution MethodCross Validation methodStarting modelResolution (High)Resolution (Low)Cut-off Sigma (I)Number Reflections (Observed)Number Reflections (R-Free)Percent Reflections (Observed)R-Factor (All)R-Factor (Observed)R-WorkR-FreeR-Free Selection DetailsMean Isotropic B
X-RAY DIFFRACTIONMOLECULAR REPLACEMENTTHROUGHOUT2QZS2.25897.134.556062284599.810.1820.16310.1630.179RANDOM37.998
Temperature Factor Modeling
Anisotropic B[1][1]Anisotropic B[1][2]Anisotropic B[1][3]Anisotropic B[2][2]Anisotropic B[2][3]Anisotropic B[3][3]
1.131.13-2.25
RMS Deviations
KeyRefinement Restraint Deviation
r_dihedral_angle_2_deg31.092
r_dihedral_angle_4_deg21.528
r_dihedral_angle_3_deg17.588
r_dihedral_angle_1_deg5.728
r_mcangle_it1.331
r_angle_refined_deg1.253
r_scangle_it1.09
r_mcbond_it0.786
r_scbond_it0.772
r_nbtor_refined0.325
RMS Deviations
KeyRefinement Restraint Deviation
r_dihedral_angle_2_deg31.092
r_dihedral_angle_4_deg21.528
r_dihedral_angle_3_deg17.588
r_dihedral_angle_1_deg5.728
r_mcangle_it1.331
r_angle_refined_deg1.253
r_scangle_it1.09
r_mcbond_it0.786
r_scbond_it0.772
r_nbtor_refined0.325
r_nbd_refined0.233
r_symmetry_vdw_refined0.206
r_xyhbond_nbd_refined0.191
r_symmetry_hbond_refined0.181
r_chiral_restr0.104
r_bond_refined_d0.008
r_gen_planes_refined0.004
Non-Hydrogen Atoms Used in Refinement
Non-Hydrogen AtomsNumber
Protein Atoms3738
Nucleic Acid Atoms
Solvent Atoms335
Heterogen Atoms150

Software

Software
Software NamePurpose
d*TREKdata scaling
DENZOdata reduction
SCALEPACKdata scaling
MOLREPphasing
REFMACrefinement
PDB_EXTRACTdata extraction
HKL-2000data collection