X-RAY DIFFRACTION

Starting Model(s)

Initial Refinement Model(s)
TypeSourceAccession CodeDetails
experimental modelPDB 3K9M 

Crystallization

Crystalization Experiments
IDMethodpHTemperatureDetails
1VAPOR DIFFUSION, SITTING DROP32930.1M citric acid, 21% PEG6000, pH 3.0, VAPOR DIFFUSION, SITTING DROP, temperature 293K
Crystal Properties
Matthews coefficientSolvent content
1.9737.59

Crystal Data

Unit Cell
Length ( Å )Angle ( ˚ )
a = 153.682α = 90
b = 29.976β = 126.25
c = 119.198γ = 90
Symmetry
Space GroupC 1 2 1

Diffraction

Diffraction Experiment
ID #Crystal IDScattering TypeData Collection TemperatureDetectorDetector TypeDetailsCollection DateMonochromatorProtocol
11x-ray100PIXELPSI PILATUS 6MCollimating and focusing, Pt-coated mirrors2010-04-05MSINGLE WAVELENGTH
Radiation Source
ID #SourceTypeWavelength ListSynchrotron SiteBeamline
1SYNCHROTRONELETTRA BEAMLINE 5.2R1.00ELETTRA5.2R

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
12.13092.50.0964.3259662596611
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)
12.12.1496.20.314.24.1

Refinement

Statistics
Diffraction IDStructure Solution 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 REPLACEMENT3K9M2.1129.12250822508113486.220.1980.1830.1830.244random22.877
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]
0.160.64-0.160.75
RMS Deviations
KeyRefinement Restraint Deviation
r_dihedral_angle_2_deg32.742
r_dihedral_angle_4_deg19.054
r_dihedral_angle_3_deg17.607
r_scangle_it4.526
r_mcangle_it4.452
r_dihedral_angle_1_deg3.049
r_scbond_it2.848
r_mcbond_it2.734
r_angle_refined_deg1.986
r_chiral_restr0.18
RMS Deviations
KeyRefinement Restraint Deviation
r_dihedral_angle_2_deg32.742
r_dihedral_angle_4_deg19.054
r_dihedral_angle_3_deg17.607
r_scangle_it4.526
r_mcangle_it4.452
r_dihedral_angle_1_deg3.049
r_scbond_it2.848
r_mcbond_it2.734
r_angle_refined_deg1.986
r_chiral_restr0.18
r_bond_refined_d0.022
r_gen_planes_refined0.018
Non-Hydrogen Atoms Used in Refinement
Non-Hydrogen AtomsNumber
Protein Atoms3938
Nucleic Acid Atoms
Solvent Atoms284
Heterogen Atoms28

Software

Software
Software NamePurpose
REFMACrefinement
PDB_EXTRACTdata extraction
MAR345dtbdata collection
HKL-2000data reduction
HKL-2000data scaling
PHASERphasing