X-RAY DIFFRACTION

Starting Model(s)

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

Crystallization

Crystalization Experiments
IDMethodpHTemperatureDetails
1VAPOR DIFFUSION, HANGING DROP277Na Citrate 0.46M
Crystal Properties
Matthews coefficientSolvent content
4.2771.16

Crystal Data

Unit Cell
Length ( Å )Angle ( ˚ )
a = 148.122α = 90
b = 266.778β = 90
c = 268.092γ = 90
Symmetry
Space GroupP 21 21 21

Diffraction

Diffraction Experiment
ID #Crystal IDScattering TypeData Collection TemperatureDetectorDetector TypeDetailsCollection DateMonochromatorProtocol
11x-ray100PIXELDECTRIS PILATUS 6M-F2017-06-12MSINGLE WAVELENGTH
Radiation Source
ID #SourceTypeWavelength ListSynchrotron SiteBeamline
1SYNCHROTRONSLS BEAMLINE X06SA0.99996SLSX06SA

Data Collection

Overall
ID #Resolution (High)Resolution (Low)Percent Possible (Observed)R Sym 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
13.144.499.90.1813.88.36191919
Highest Resolution Shell
ID #Resolution (High)Resolution (Low)Percent Possible (All)Percent Possible (Observed)CC (Half)Mean I Over Sigma (Observed)RedundancyNumber Unique Reflections (All)
13.13.399.80.662.448

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 REPLACEMENTTHROUGHOUT1ORV3.144.4182267959399.890.2490.247230.28287RANDOM100.625
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]
4.114.24-8.35
RMS Deviations
KeyRefinement Restraint Deviation
r_dihedral_angle_2_deg34.235
r_dihedral_angle_3_deg14.861
r_dihedral_angle_4_deg13.602
r_dihedral_angle_1_deg6.328
r_long_range_B_refined5.228
r_long_range_B_other5.227
r_mcangle_it3.267
r_mcangle_other3.267
r_scangle_other2.385
r_mcbond_it1.782
RMS Deviations
KeyRefinement Restraint Deviation
r_dihedral_angle_2_deg34.235
r_dihedral_angle_3_deg14.861
r_dihedral_angle_4_deg13.602
r_dihedral_angle_1_deg6.328
r_long_range_B_refined5.228
r_long_range_B_other5.227
r_mcangle_it3.267
r_mcangle_other3.267
r_scangle_other2.385
r_mcbond_it1.782
r_mcbond_other1.782
r_scbond_it1.192
r_scbond_other1.192
r_angle_refined_deg1.106
r_angle_other_deg0.86
r_chiral_restr0.066
r_bond_refined_d0.007
r_bond_other_d0.006
r_gen_planes_refined0.004
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 Atoms39873
Nucleic Acid Atoms
Solvent Atoms125
Heterogen Atoms

Software

Software
Software NamePurpose
REFMACrefinement
XDSdata reduction
XSCALEdata scaling
PHASERphasing