X-RAY DIFFRACTION

Starting Model(s)

Initial Refinement Model(s)
TypeSourceAccession CodeDetails
experimental modelPDB 3KSNPDB entry 3KSN

Crystallization

Crystalization Experiments
IDMethodpHTemperatureDetails
1VAPOR DIFFUSION, HANGING DROP7295PEG 3350 20% w/v NH4 dihydrogen Phosphate 0.2M, protein at 34 mg/mL, cryo- 20% glycerol+paratone, pH 7, VAPOR DIFFUSION, HANGING DROP, temperature 295K
Crystal Properties
Matthews coefficientSolvent content
2.0941.28

Crystal Data

Unit Cell
Length ( Å )Angle ( ˚ )
a = 67.201α = 94.3
b = 67.13β = 94.01
c = 132.563γ = 120.01
Symmetry
Space GroupP 1

Diffraction

Diffraction Experiment
ID #Crystal IDScattering TypeData Collection TemperatureDetectorDetector TypeDetailsCollection DateMonochromatorProtocol
11x-ray100CCDMARMOSAIC 300 mm CCDBe-Lenses2013-02-09MSINGLE WAVELENGTH
Radiation Source
ID #SourceTypeWavelength ListSynchrotron SiteBeamline
1SYNCHROTRONAPS BEAMLINE 21-ID-G0.97856APS21-ID-G

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
11.73094.80.09114.224.1207123207123-323.3
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)
11.71.7395.40.5982.74.110516

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 (Observed)R-WorkR-FreeR-Free Selection DetailsMean Isotropic B
X-RAY DIFFRACTIONMOLECULAR REPLACEMENTTHROUGHOUTPDB entry 3KSN1.729.091965431965431049093.770.205390.203550.23956RANDOM22.516
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]
-12.08-0.360.27-10.36-0.3722.43
RMS Deviations
KeyRefinement Restraint Deviation
r_dihedral_angle_2_deg27.931
r_dihedral_angle_4_deg11.736
r_dihedral_angle_3_deg8.712
r_scangle_it4.335
r_scbond_it2.995
r_dihedral_angle_1_deg2.637
r_mcangle_it1.863
r_angle_refined_deg1.657
r_mcbond_it1.173
r_angle_other_deg0.841
RMS Deviations
KeyRefinement Restraint Deviation
r_dihedral_angle_2_deg27.931
r_dihedral_angle_4_deg11.736
r_dihedral_angle_3_deg8.712
r_scangle_it4.335
r_scbond_it2.995
r_dihedral_angle_1_deg2.637
r_mcangle_it1.863
r_angle_refined_deg1.657
r_mcbond_it1.173
r_angle_other_deg0.841
r_mcbond_other0.405
r_chiral_restr0.094
r_bond_refined_d0.012
r_gen_planes_refined0.007
r_bond_other_d0.002
r_gen_planes_other0.002
Non-Hydrogen Atoms Used in Refinement
Non-Hydrogen AtomsNumber
Protein Atoms16593
Nucleic Acid Atoms
Solvent Atoms1497
Heterogen Atoms61

Software

Software
Software NamePurpose
Blu-Icedata collection
BALBESphasing
REFMACrefinement
HKL-2000data reduction
HKL-2000data scaling