1PZS

Crystal Structure of a Cu-Zn Superoxide Dismutase from Mycobacterium tuberculosis at 1.63 resolution


X-RAY DIFFRACTION

Crystallization

Crystalization Experiments
IDMethodpHTemperatureDetails
1VAPOR DIFFUSION, HANGING DROP7293PEG 4000, Ammonium sulfate, zinc chloride, pH 7.0, VAPOR DIFFUSION, HANGING DROP, temperature 20K
Crystal Properties
Matthews coefficientSolvent content
2.0339.29

Crystal Data

Unit Cell
Length ( Å )Angle ( ˚ )
a = 70.04α = 90
b = 58.42β = 126.99
c = 51.39γ = 90
Symmetry
Space GroupC 1 2 1

Diffraction

Diffraction Experiment
ID #Crystal IDScattering TypeData Collection TemperatureDetectorDetector TypeDetailsCollection DateMonochromatorProtocol
11x-ray100CCDMARRESEARCH2002-11-15MSINGLE WAVELENGTH
Radiation Source
ID #SourceTypeWavelength ListSynchrotron SiteBeamline
1SYNCHROTRONESRF BEAMLINE ID130.9755ESRFID13

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
11.63427.95960.06713.543.62202482024821.844
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)
11.6341.887.90.2735.173.274640

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 1JCV.pdb1.6327.952024819233101398.20.152330.152330.150290.19027RANDOM13.359
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]
0.821.19-0.521.14
RMS Deviations
KeyRefinement Restraint Deviation
r_dihedral_angle_1_deg6.233
r_scangle_it3.475
r_scbond_it2.123
r_angle_other_deg1.858
r_mcangle_it1.484
r_angle_refined_deg1.356
r_mcbond_it0.831
r_symmetry_vdw_other0.328
r_nbd_other0.253
r_nbd_refined0.192
RMS Deviations
KeyRefinement Restraint Deviation
r_dihedral_angle_1_deg6.233
r_scangle_it3.475
r_scbond_it2.123
r_angle_other_deg1.858
r_mcangle_it1.484
r_angle_refined_deg1.356
r_mcbond_it0.831
r_symmetry_vdw_other0.328
r_nbd_other0.253
r_nbd_refined0.192
r_xyhbond_nbd_refined0.154
r_symmetry_vdw_refined0.132
r_symmetry_hbond_refined0.119
r_chiral_restr0.084
r_nbtor_other0.084
r_bond_refined_d0.01
r_bond_other_d0.005
r_gen_planes_refined0.005
r_gen_planes_other0.003
Non-Hydrogen Atoms Used in Refinement
Non-Hydrogen AtomsNumber
Protein Atoms1204
Nucleic Acid Atoms
Solvent Atoms252
Heterogen Atoms1

Software

Software
Software NamePurpose
REFMACrefinement
MAR345data collection
XDSdata scaling
MOLREPphasing