2F6L

X-ray structure of Chorismate Mutase from Mycobacterium Tuberculosis


X-RAY DIFFRACTION

Crystallization

Crystalization Experiments
IDMethodpHTemperatureDetails
1VAPOR DIFFUSION, HANGING DROP6.5303Reservoir solution: 0.10 M MES pH 6.5, 30% Polyethylene glycol 8K. Protein solution: 50mM Tris pH 7.5, 1mM EDTA, 1mM DTT, 200mM sodium chloride. Protein concentration was 8.3 mg/ml., VAPOR DIFFUSION, HANGING DROP, temperature 303K
Crystal Properties
Matthews coefficientSolvent content
2.5551.69

Crystal Data

Unit Cell
Length ( Å )Angle ( ˚ )
a = 42.89α = 90
b = 72.93β = 103.85
c = 62.06γ = 90
Symmetry
Space GroupP 1 21 1

Diffraction

Diffraction Experiment
ID #Crystal IDScattering TypeData Collection TemperatureDetectorDetector TypeDetailsCollection DateMonochromatorProtocol
11x-ray100CCDMARRESEARCH2001-10-16MSINGLE WAVELENGTH
Radiation Source
ID #SourceTypeWavelength ListSynchrotron SiteBeamline
1SYNCHROTRONAPS BEAMLINE 17-ID1.0APS17-ID

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
11.72398.60.06715.37.3540279
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)
11.71.7597.70.382.37.5

Refinement

Statistics
Diffraction IDStructure Solution MethodCross Validation methodStarting modelResolution (High)Resolution (Low)Number Reflections (Observed)Number Reflections (R-Free)Percent Reflections (Observed)R-Factor (All)R-WorkR-FreeR-Free Selection DetailsMean Isotropic B
X-RAY DIFFRACTIONMOLECULAR REPLACEMENTTHROUGHOUTPartially refined structure of chorismate mutase from Yersinia pestis1.72039117195195.820.1840.1820.222RANDOM21.181
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]
0.56-0.23-0.11-0.56
RMS Deviations
KeyRefinement Restraint Deviation
r_dihedral_angle_2_deg35.248
r_dihedral_angle_4_deg23.012
r_dihedral_angle_3_deg15.095
r_dihedral_angle_1_deg5.256
r_scangle_it4.202
r_scbond_it2.698
r_mcangle_it1.805
r_angle_refined_deg1.705
r_mcbond_it1.157
r_nbtor_refined0.302
RMS Deviations
KeyRefinement Restraint Deviation
r_dihedral_angle_2_deg35.248
r_dihedral_angle_4_deg23.012
r_dihedral_angle_3_deg15.095
r_dihedral_angle_1_deg5.256
r_scangle_it4.202
r_scbond_it2.698
r_mcangle_it1.805
r_angle_refined_deg1.705
r_mcbond_it1.157
r_nbtor_refined0.302
r_nbd_refined0.216
r_symmetry_vdw_refined0.181
r_xyhbond_nbd_refined0.147
r_symmetry_hbond_refined0.147
r_chiral_restr0.117
r_bond_refined_d0.019
r_gen_planes_refined0.008
Non-Hydrogen Atoms Used in Refinement
Non-Hydrogen AtomsNumber
Protein Atoms2592
Nucleic Acid Atoms
Solvent Atoms363
Heterogen Atoms

Software

Software
Software NamePurpose
PHASERphasing
REFMACrefinement
PDB_EXTRACTdata extraction
X-GENdata reduction
X-GENdata scaling