X-RAY DIFFRACTION

Starting Model(s)

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

Crystallization

Crystalization Experiments
IDMethodpHTemperatureDetails
1VAPOR DIFFUSION, HANGING DROP7.629640-43% MPD_P1K_P3350, 100 mM Mops/Na-Hepes, 100 mM Divalents
Crystal Properties
Matthews coefficientSolvent content
2.0941.03

Crystal Data

Unit Cell
Length ( Å )Angle ( ˚ )
a = 143.192α = 90
b = 55.514β = 100.65
c = 51.114γ = 90
Symmetry
Space GroupC 1 2 1

Diffraction

Diffraction Experiment
ID #Crystal IDScattering TypeData Collection TemperatureDetectorDetector TypeDetailsCollection DateMonochromatorProtocol
11x-ray100IMAGE PLATERIGAKU RAXIS IV++2012-03-13MSINGLE 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 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
11.5531.3484.80.04313.33.3148610
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)
11.551.6172.70.3262.52.564152

Refinement

Statistics
Diffraction IDStructure Solution MethodCross Validation methodStarting modelResolution (High)Resolution (Low)Number Reflections (Observed)Number Reflections (R-Free)Percent Reflections (Observed)R-Factor (Observed)R-WorkR-FreeR-Free Selection DetailsMean Isotropic B
X-RAY DIFFRACTIONMOLECULAR REPLACEMENTTHROUGHOUT1KZN1.5531.3446160244584.790.18280.18080.2197RANDOM24.962
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]
-0.85-0.780.340.76
RMS Deviations
KeyRefinement Restraint Deviation
r_dihedral_angle_2_deg39.399
r_dihedral_angle_4_deg17.95
r_dihedral_angle_3_deg13.994
r_dihedral_angle_1_deg5.788
r_mcangle_it2.719
r_angle_refined_deg2.426
r_mcbond_it1.912
r_mcbond_other1.892
r_angle_other_deg1.193
r_chiral_restr0.161
RMS Deviations
KeyRefinement Restraint Deviation
r_dihedral_angle_2_deg39.399
r_dihedral_angle_4_deg17.95
r_dihedral_angle_3_deg13.994
r_dihedral_angle_1_deg5.788
r_mcangle_it2.719
r_angle_refined_deg2.426
r_mcbond_it1.912
r_mcbond_other1.892
r_angle_other_deg1.193
r_chiral_restr0.161
r_bond_refined_d0.027
r_gen_planes_refined0.013
r_bond_other_d0.002
r_gen_planes_other0.002
Non-Hydrogen Atoms Used in Refinement
Non-Hydrogen AtomsNumber
Protein Atoms3058
Nucleic Acid Atoms
Solvent Atoms309
Heterogen Atoms74

Software

Software
Software NamePurpose
REFMACrefinement
d*TREKdata scaling
MOLREPphasing
PDB_EXTRACTdata extraction
d*TREKdata reduction