X-RAY DIFFRACTION

Starting Model(s)

Initial Refinement Model(s)
TypeSourceAccession CodeDetails
otherin house model

Crystallization

Crystalization Experiments
IDMethodpHTemperatureDetails
1VAPOR DIFFUSION, HANGING DROP292Grid of PEG 3350 vs. MgCl2 with a buffer of Bis-TRIS at pH 6-6.5
Crystal Properties
Matthews coefficientSolvent content
1.9938.23

Crystal Data

Unit Cell
Length ( Å )Angle ( ˚ )
a = 53.089α = 86.05
b = 59.134β = 74.92
c = 94.18γ = 63.34
Symmetry
Space GroupP 1

Diffraction

Diffraction Experiment
ID #Crystal IDScattering TypeData Collection TemperatureDetectorDetector TypeDetailsCollection DateMonochromatorProtocol
11x-ray93CCDRAYONIX MX-3002015-05-07MSINGLE WAVELENGTH
Radiation Source
ID #SourceTypeWavelength ListSynchrotron SiteBeamline
1SYNCHROTRONCLSI BEAMLINE 08ID-10.97949CLSI08ID-1

Data Collection

Overall
ID #Resolution (High)Resolution (Low)Percent Possible (Observed)R Merge I (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
12.113094.90.050.0670.0459.4251361
Highest Resolution Shell
ID #Resolution (High)Resolution (Low)Percent Possible (All)Percent Possible (Observed)R Merge I (Observed)Rrim I (All)Rpim I (All)CC (Half)Mean I Over Sigma (Observed)RedundancyNumber Unique Reflections (All)
12.152.1990.90.6230.8510.5760.5291.8

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 REPLACEMENTTHROUGHOUTin house model2.129.4748761259889.240.248370.24750.26503RANDOM62.522
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]
40.14-3.737.61-58.1611.1918.02
RMS Deviations
KeyRefinement Restraint Deviation
r_dihedral_angle_2_deg34.364
r_dihedral_angle_4_deg17.687
r_dihedral_angle_3_deg13.893
r_dihedral_angle_1_deg4.836
r_long_range_B_refined3.854
r_long_range_B_other3.854
r_mcangle_it1.68
r_mcangle_other1.68
r_scangle_other1.677
r_angle_refined_deg1.158
RMS Deviations
KeyRefinement Restraint Deviation
r_dihedral_angle_2_deg34.364
r_dihedral_angle_4_deg17.687
r_dihedral_angle_3_deg13.893
r_dihedral_angle_1_deg4.836
r_long_range_B_refined3.854
r_long_range_B_other3.854
r_mcangle_it1.68
r_mcangle_other1.68
r_scangle_other1.677
r_angle_refined_deg1.158
r_scbond_it1.061
r_scbond_other1.06
r_mcbond_it1.029
r_mcbond_other1.029
r_angle_other_deg0.906
r_chiral_restr0.069
r_bond_refined_d0.007
r_gen_planes_refined0.004
r_bond_other_d0.002
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 Atoms6963
Nucleic Acid Atoms
Solvent Atoms45
Heterogen Atoms195

Software

Software
Software NamePurpose
REFMACrefinement
SCALEPACKdata scaling
PDB_EXTRACTdata extraction
HKL-2000data reduction
PHASERphasing