X-RAY DIFFRACTION

Starting Model(s)

Initial Refinement Model(s)
TypeSourceAccession CodeDetails
experimental modelPDB 1QWDPDB entry 1QWD

Crystallization

Crystalization Experiments
IDMethodpHTemperatureDetails
1VAPOR DIFFUSION, HANGING DROP2942 M ammonium sulfate, 2.5% 2-propanol, 5% w/v n-Dodecyl-b-D-maltoside
Crystal Properties
Matthews coefficientSolvent content
2.7555.26

Crystal Data

Unit Cell
Length ( Å )Angle ( ˚ )
a = 69.256α = 90
b = 69.256β = 90
c = 80.156γ = 120
Symmetry
Space GroupP 31

Diffraction

Diffraction Experiment
ID #Crystal IDScattering TypeData Collection TemperatureDetectorDetector TypeDetailsCollection DateMonochromatorProtocol
11x-ray100CCDMARMOSAIC 225 mm CCD2017-08-17MSINGLE WAVELENGTH
Radiation Source
ID #SourceTypeWavelength ListSynchrotron SiteBeamline
1SYNCHROTRONAPS BEAMLINE 21-ID-F0.97872APS21-ID-F

Data Collection

Overall
ID #Resolution (High)Resolution (Low)Percent Possible (Observed)Rrim I (All)Rpim I (All)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
11.8633.3299.80.0770.0369.14.13605535.517
Highest Resolution Shell
ID #Resolution (High)Resolution (Low)Percent Possible (All)Percent Possible (Observed)Rrim I (All)Rpim I (All)Mean I Over Sigma (Observed)RedundancyNumber Unique Reflections (All)
11.861.8998.70.4690.22623.9

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 REPLACEMENTTHROUGHOUTPDB entry 1QWD1.8633.3234256176399.740.18230.18030.2224RANDOM38.022
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]
0.280.140.28-0.92
RMS Deviations
KeyRefinement Restraint Deviation
r_dihedral_angle_2_deg29.036
r_dihedral_angle_4_deg15.007
r_dihedral_angle_3_deg12.056
r_dihedral_angle_1_deg7.523
r_mcangle_it3.803
r_mcbond_it3.048
r_mcbond_other3.048
r_angle_other_deg2.304
r_angle_refined_deg1.638
r_chiral_restr0.08
RMS Deviations
KeyRefinement Restraint Deviation
r_dihedral_angle_2_deg29.036
r_dihedral_angle_4_deg15.007
r_dihedral_angle_3_deg12.056
r_dihedral_angle_1_deg7.523
r_mcangle_it3.803
r_mcbond_it3.048
r_mcbond_other3.048
r_angle_other_deg2.304
r_angle_refined_deg1.638
r_chiral_restr0.08
r_bond_other_d0.034
r_gen_planes_other0.016
r_bond_refined_d0.01
r_gen_planes_refined0.01
Non-Hydrogen Atoms Used in Refinement
Non-Hydrogen AtomsNumber
Protein Atoms2528
Nucleic Acid Atoms
Solvent Atoms169
Heterogen Atoms138

Software

Software
Software NamePurpose
REFMACrefinement
MOLREPphasing
xia2data scaling
PDB_EXTRACTdata extraction
xia2data reduction