1VA6

Crystal structure of Gamma-glutamylcysteine synthetase from Escherichia Coli B complexed with Transition-state analogue


X-RAY DIFFRACTION

Crystallization

Crystalization Experiments
IDMethodpHTemperatureDetails
1VAPOR DIFFUSION, SITTING DROP7.5293PEG 2000MME, MgCl2, Tris-HCl buffer, pH 7.5, VAPOR DIFFUSION, SITTING DROP, temperature 293K
Crystal Properties
Matthews coefficientSolvent content
2.7855.39

Crystal Data

Unit Cell
Length ( Å )Angle ( ˚ )
a = 70.468α = 90
b = 97.36β = 109.63
c = 102.185γ = 90
Symmetry
Space GroupP 1 21 1

Diffraction

Diffraction Experiment
ID #Crystal IDScattering TypeData Collection TemperatureDetectorDetector TypeDetailsCollection DateMonochromatorProtocol
11x-ray100CCDMARRESEARCH2003-02-02MSINGLE WAVELENGTH
Radiation Source
ID #SourceTypeWavelength ListSynchrotron SiteBeamline
1SYNCHROTRONSPRING-8 BEAMLINE BL41XU1.000SPring-8BL41XU

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
12.148.897.20.08414.84.87364473622
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)
2.12.1596.30.3793.54.8

Refinement

Statistics
Diffraction IDStructure Solution MethodCross Validation methodStarting modelResolution (High)Resolution (Low)Number Reflections (Observed)Number Reflections (R-Free)Percent Reflections (Observed)R-Factor (Observed)R-WorkR-FreeR-Free Selection DetailsMean Isotropic B
X-RAY DIFFRACTIONMOLECULAR REPLACEMENTTHROUGHOUT1V4G2.14069912370297.020.20.20.225RANDOM27.31
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]
-2.5-2.320.640.3
RMS Deviations
KeyRefinement Restraint Deviation
r_dihedral_angle_1_deg5.009
r_mcangle_it4.422
r_scangle_it4.374
r_angle_other_deg3.658
r_scbond_it3.096
r_mcbond_it3.073
r_angle_refined_deg1.344
r_symmetry_vdw_other0.351
r_nbd_other0.29
r_nbd_refined0.215
RMS Deviations
KeyRefinement Restraint Deviation
r_dihedral_angle_1_deg5.009
r_mcangle_it4.422
r_scangle_it4.374
r_angle_other_deg3.658
r_scbond_it3.096
r_mcbond_it3.073
r_angle_refined_deg1.344
r_symmetry_vdw_other0.351
r_nbd_other0.29
r_nbd_refined0.215
r_symmetry_hbond_refined0.199
r_xyhbond_nbd_refined0.198
r_symmetry_vdw_refined0.196
r_metal_ion_refined0.15
r_nbtor_other0.116
r_chiral_restr0.082
r_bond_refined_d0.018
r_gen_planes_other0.008
r_gen_planes_refined0.006
r_bond_other_d
r_dihedral_angle_2_deg
r_dihedral_angle_3_deg
r_dihedral_angle_4_deg
r_nbtor_refined
r_xyhbond_nbd_other
r_metal_ion_other
r_symmetry_hbond_other
r_mcbond_other
r_rigid_bond_restr
r_sphericity_free
r_sphericity_bonded
Non-Hydrogen Atoms Used in Refinement
Non-Hydrogen AtomsNumber
Protein Atoms7998
Nucleic Acid Atoms
Solvent Atoms346
Heterogen Atoms142

Software

Software
Software NamePurpose
REFMACrefinement
MOSFLMdata reduction
CCP4data scaling
MOLREPphasing