2O0B

Mycobacterium tuberculosis epsp synthase in complex with S3P (partially photolyzed)


X-RAY DIFFRACTION

Starting Model(s)

Initial Refinement Model(s)
TypeSourceAccession CodeDetails
otherPDB ENTRY 1g6lt

Crystallization

Crystalization Experiments
IDMethodpHTemperatureDetails
1VAPOR DIFFUSION, SITTING DROP7.22930.2M Ammonium sulfate ; 30%PEG 6000; 5mM S3P, pH 7.2, VAPOR DIFFUSION, SITTING DROP, temperature 293K
Crystal Properties
Matthews coefficientSolvent content
2.0339.35

Crystal Data

Unit Cell
Length ( Å )Angle ( ˚ )
a = 40.592α = 90
b = 72.794β = 90
c = 127.679γ = 90
Symmetry
Space GroupP 21 21 21

Diffraction

Diffraction Experiment
ID #Crystal IDScattering TypeData Collection TemperatureDetectorDetector TypeDetailsCollection DateMonochromatorProtocol
11x-ray100CCDMAR CCD 165 mmAu-coated planar; toroidal mirrors2004-11-08MSINGLE 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
11.151598.50.106195.5135040133042211.3
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)
1.151.7693.80.497225362

Refinement

Statistics
Diffraction IDStructure Solution MethodCross Validation methodStarting modelResolution (High)Resolution (Low)Number Reflections (All)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 REPLACEMENTTHROUGHOUTPDB ENTRY 1g6lt1.1510.89129100126181666197.770.12710.128430.127080.15352RANDOM11.287
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]
-0.20.070.13
RMS Deviations
KeyRefinement Restraint Deviation
r_dihedral_angle_2_deg29.828
r_dihedral_angle_4_deg16.798
r_dihedral_angle_3_deg12.277
r_dihedral_angle_1_deg5.695
r_scangle_it5.034
r_sphericity_bonded4.987
r_scbond_it3.728
r_mcangle_it2.797
r_rigid_bond_restr2.363
r_mcbond_it2.332
RMS Deviations
KeyRefinement Restraint Deviation
r_dihedral_angle_2_deg29.828
r_dihedral_angle_4_deg16.798
r_dihedral_angle_3_deg12.277
r_dihedral_angle_1_deg5.695
r_scangle_it5.034
r_sphericity_bonded4.987
r_scbond_it3.728
r_mcangle_it2.797
r_rigid_bond_restr2.363
r_mcbond_it2.332
r_angle_refined_deg1.997
r_angle_other_deg1.705
r_mcbond_other1.233
r_symmetry_vdw_other0.314
r_xyhbond_nbd_refined0.247
r_nbd_refined0.24
r_symmetry_hbond_refined0.231
r_nbd_other0.199
r_symmetry_vdw_refined0.186
r_nbtor_refined0.173
r_chiral_restr0.136
r_nbtor_other0.094
r_xyhbond_nbd_other0.034
r_bond_refined_d0.022
r_gen_planes_refined0.01
r_bond_other_d0.002
r_gen_planes_other0.001
Non-Hydrogen Atoms Used in Refinement
Non-Hydrogen AtomsNumber
Protein Atoms3301
Nucleic Acid Atoms
Solvent Atoms622
Heterogen Atoms36

Software

Software
Software NamePurpose
REFMACrefinement
MAR345data collection
DENZOdata reduction
SCALEPACKdata scaling
MOLREPphasing