X-RAY DIFFRACTION

Starting Model(s)

Initial Refinement Model(s)
TypeSourceAccession CodeDetails
experimental modelPDB 4MSV 

Crystallization

Crystalization Experiments
IDMethodpHTemperatureDetails
1VAPOR DIFFUSION, SITTING DROP6.52900.2M Ammonium Sulfate, 0.1M Bis-Tris:HCl, pH6.5, 20% (W/V) PEG3350, 0.01M Zinc Chloride
Crystal Properties
Matthews coefficientSolvent content
2.0138.71

Crystal Data

Unit Cell
Length ( Å )Angle ( ˚ )
a = 52.69α = 90
b = 52.69β = 90
c = 87.385γ = 120
Symmetry
Space GroupP 3 2 1

Diffraction

Diffraction Experiment
ID #Crystal IDScattering TypeData Collection TemperatureDetectorDetector TypeDetailsCollection DateMonochromatorProtocol
11x-ray77CCDRAYONIX MX225HE2016-02-10MSINGLE WAVELENGTH
Radiation Source
ID #SourceTypeWavelength ListSynchrotron SiteBeamline
1SYNCHROTRONAPS BEAMLINE 31-ID0.97931APS31-ID

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
125099.40.1913.39.49993
Highest Resolution Shell
ID #Resolution (High)Resolution (Low)Percent Possible (All)Percent Possible (Observed)R Merge I (Observed)CC (Half)Mean I Over Sigma (Observed)RedundancyNumber Unique Reflections (All)
122.0399.40.9420.8343.18.6

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 REPLACEMENTTHROUGHOUT4MSV250941452199.210.167750.165120.21602RANDOM25.706
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]
-0.95-0.48-0.953.1
RMS Deviations
KeyRefinement Restraint Deviation
r_dihedral_angle_2_deg34.002
r_dihedral_angle_3_deg15.198
r_dihedral_angle_4_deg8.23
r_long_range_B_refined8.19
r_long_range_B_other8.113
r_dihedral_angle_1_deg7.341
r_scangle_other6.291
r_mcangle_it4.278
r_mcangle_other4.276
r_scbond_it3.953
RMS Deviations
KeyRefinement Restraint Deviation
r_dihedral_angle_2_deg34.002
r_dihedral_angle_3_deg15.198
r_dihedral_angle_4_deg8.23
r_long_range_B_refined8.19
r_long_range_B_other8.113
r_dihedral_angle_1_deg7.341
r_scangle_other6.291
r_mcangle_it4.278
r_mcangle_other4.276
r_scbond_it3.953
r_scbond_other3.921
r_mcbond_it2.685
r_mcbond_other2.678
r_angle_refined_deg1.999
r_angle_other_deg1.111
r_chiral_restr0.128
r_bond_refined_d0.019
r_gen_planes_refined0.01
r_bond_other_d0.006
r_gen_planes_other0.001
r_nbd_refined
r_nbd_other
r_nbtor_refined
r_nbtor_other
r_xyhbond_nbd_refined
r_xyhbond_nbd_other
r_metal_ion_refined
r_metal_ion_other
r_symmetry_vdw_refined
r_symmetry_vdw_other
r_symmetry_hbond_refined
r_symmetry_hbond_other
r_symmetry_metal_ion_refined
r_symmetry_metal_ion_other
r_scangle_it
r_rigid_bond_restr
r_sphericity_free
r_sphericity_bonded
Non-Hydrogen Atoms Used in Refinement
Non-Hydrogen AtomsNumber
Protein Atoms1176
Nucleic Acid Atoms
Solvent Atoms61
Heterogen Atoms6

Software

Software
Software NamePurpose
REFMACrefinement
MOSFLMdata reduction
HKL-3000data scaling
MOLREPphasing