X-RAY DIFFRACTION

Starting Model(s)

Initial Refinement Model(s)
TypeSourceAccession CodeDetails
experimental modelPDB 2O0CPDB ENTRY 2O0C

Crystallization

Crystalization Experiments
IDMethodpHTemperatureDetails
1VAPOR DIFFUSION, SITTING DROP72951.8M sodium malonate, pH 7.0, VAPOR DIFFUSION, SITTING DROP, temperature 295K
Crystal Properties
Matthews coefficientSolvent content
3.7667.32

Crystal Data

Unit Cell
Length ( Å )Angle ( ˚ )
a = 122.573α = 90
b = 122.573β = 90
c = 122.573γ = 90
Symmetry
Space GroupP 21 3

Diffraction

Diffraction Experiment
ID #Crystal IDScattering TypeData Collection TemperatureDetectorDetector TypeDetailsCollection DateMonochromatorProtocol
11x-ray100CCDRIGAKU SATURN 944+mirrors2011-12-02MSINGLE WAVELENGTH
Radiation Source
ID #SourceTypeWavelength ListSynchrotron SiteBeamline
1ROTATING ANODERIGAKU MICROMAX-007 HF1.5418

Data Collection

Overall
ID #Resolution (High)Resolution (Low)Percent Possible (Observed)R Sym 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
12.886.799.250.06920.76.914582144721129.7
Highest Resolution Shell
ID #Resolution (High)Resolution (Low)Percent Possible (All)Percent Possible (Observed)Mean I Over Sigma (Observed)RedundancyNumber Unique Reflections (All)
12.82.9399.1

Refinement

Statistics
Diffraction IDStructure Solution MethodCross Validation methodStarting modelResolution (High)Resolution (Low)Cut-off Sigma (F)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 2O0C2.886.692.3145821447280799.250.16570.1650.16280.21763RANDOM29.702
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]
RMS Deviations
KeyRefinement Restraint Deviation
r_dihedral_angle_2_deg22.68
r_dihedral_angle_4_deg11.844
r_dihedral_angle_3_deg10.399
r_dihedral_angle_1_deg2.122
r_angle_refined_deg0.889
r_angle_other_deg0.601
r_scangle_it0.512
r_mcangle_it0.324
r_scbond_it0.286
r_mcbond_it0.173
RMS Deviations
KeyRefinement Restraint Deviation
r_dihedral_angle_2_deg22.68
r_dihedral_angle_4_deg11.844
r_dihedral_angle_3_deg10.399
r_dihedral_angle_1_deg2.122
r_angle_refined_deg0.889
r_angle_other_deg0.601
r_scangle_it0.512
r_mcangle_it0.324
r_scbond_it0.286
r_mcbond_it0.173
r_chiral_restr0.062
r_mcbond_other0.014
r_gen_planes_refined0.011
r_bond_refined_d0.003
r_gen_planes_other0.001
r_bond_other_d
Non-Hydrogen Atoms Used in Refinement
Non-Hydrogen AtomsNumber
Protein Atoms2866
Nucleic Acid Atoms
Solvent Atoms35
Heterogen Atoms104

Software

Software
Software NamePurpose
HKL-2000data collection
MOLREPphasing
REFMACrefinement
HKL-2000data reduction
HKL-2000data scaling