2QHF

Mycobacterium tuberculosis Chorismate synthase in complex with NCA


X-RAY DIFFRACTION

Starting Model(s)

Initial Refinement Model(s)
TypeSourceAccession CodeDetails
experimental modelPDB 1QXO 

Crystallization

Crystalization Experiments
IDMethodpHTemperatureDetails
1VAPOR DIFFUSION, SITTING DROP42964.8 M NH4-Acetate, 0.1 M Na-Acetate, pH 4.0, VAPOR DIFFUSION, SITTING DROP, temperature 296K
Crystal Properties
Matthews coefficientSolvent content
4.8474.57

Crystal Data

Unit Cell
Length ( Å )Angle ( ˚ )
a = 132.589α = 90
b = 132.589β = 90
c = 159.565γ = 120
Symmetry
Space GroupP 64 2 2

Diffraction

Diffraction Experiment
ID #Crystal IDScattering TypeData Collection TemperatureDetectorDetector TypeDetailsCollection DateMonochromatorProtocol
11x-ray100CCDMARRESEARCH2006-12-19MSINGLE WAVELENGTH
Radiation Source
ID #SourceTypeWavelength ListSynchrotron SiteBeamline
1SYNCHROTRONMPG/DESY, HAMBURG BEAMLINE BW61.05MPG/DESY, HAMBURGBW6

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
11.652098.80.05530.398095223.2
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)
11.651.6799.30.5212.23904

Refinement

Statistics
Diffraction IDStructure Solution MethodCross Validation methodStarting modelResolution (High)Resolution (Low)Cut-off Sigma (I)Number Reflections (All)Number Reflections (Observed)Number Reflections (R-Free)Percent Reflections (Observed)R-Factor (Observed)R-WorkR-FreeR-Free Selection DetailsMean Isotropic B
X-RAY DIFFRACTIONMOLECULAR REPLACEMENTTHROUGHOUT1QXO1.6519.6529809593091497798.830.165080.163910.18649RANDOM22.497
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]
0.120.060.12-0.18
RMS Deviations
KeyRefinement Restraint Deviation
r_dihedral_angle_2_deg32.803
r_dihedral_angle_4_deg17.996
r_dihedral_angle_3_deg12.576
r_dihedral_angle_1_deg8.417
r_scangle_it7.329
r_scbond_it5.189
r_mcangle_it4.018
r_mcbond_it2.721
r_angle_refined_deg1.346
r_angle_other_deg0.836
RMS Deviations
KeyRefinement Restraint Deviation
r_dihedral_angle_2_deg32.803
r_dihedral_angle_4_deg17.996
r_dihedral_angle_3_deg12.576
r_dihedral_angle_1_deg8.417
r_scangle_it7.329
r_scbond_it5.189
r_mcangle_it4.018
r_mcbond_it2.721
r_angle_refined_deg1.346
r_angle_other_deg0.836
r_mcbond_other0.822
r_symmetry_vdw_other0.225
r_nbd_refined0.217
r_nbd_other0.207
r_symmetry_hbond_refined0.201
r_symmetry_vdw_refined0.184
r_xyhbond_nbd_refined0.168
r_nbtor_refined0.167
r_nbtor_other0.084
r_chiral_restr0.079
r_bond_refined_d0.011
r_gen_planes_refined0.005
r_bond_other_d0.002
r_gen_planes_other0.001
Non-Hydrogen Atoms Used in Refinement
Non-Hydrogen AtomsNumber
Protein Atoms2875
Nucleic Acid Atoms
Solvent Atoms473
Heterogen Atoms68

Software

Software
Software NamePurpose
REFMACrefinement
DENZOdata reduction
SCALEPACKdata scaling
MOLREPphasing