X-RAY DIFFRACTION

Starting Model(s)

Initial Refinement Model(s)
TypeSourceAccession CodeDetails
experimental modelPDB 4A01 

Crystallization

Crystalization Experiments
IDMethodpHTemperatureDetails
1VAPOR DIFFUSION, HANGING DROP6.2293100mM sodium/potassium phosphate (pH 6.2), 200mM NaCl, and 37%(w/v) PEG600
Crystal Properties
Matthews coefficientSolvent content
3.9969.15

Crystal Data

Unit Cell
Length ( Å )Angle ( ˚ )
a = 225.703α = 90
b = 81.637β = 92.87
c = 264.845γ = 90
Symmetry
Space GroupC 1 2 1

Diffraction

Diffraction Experiment
ID #Crystal IDScattering TypeData Collection TemperatureDetectorDetector TypeDetailsCollection DateMonochromatorProtocol
11x-ray110CCDRAYONIX MX300HE2013-03-15MSINGLE WAVELENGTH
Radiation Source
ID #SourceTypeWavelength ListSynchrotron SiteBeamline
1SYNCHROTRONNSRRC BEAMLINE BL15A11NSRRCBL15A1

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
13.53092.20.1687.53.554540
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)
13.53.6285.11.1751.113.5

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 REPLACEMENTTHROUGHOUT4A013.53054540302791.110.229790.22560.30378RANDOM119.6
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]
9.453.380.43-10.17
RMS Deviations
KeyRefinement Restraint Deviation
r_dihedral_angle_2_deg39.435
r_dihedral_angle_3_deg20.433
r_dihedral_angle_4_deg19.27
r_long_range_B_refined14.155
r_long_range_B_other14.154
r_mcangle_it9.733
r_mcangle_other9.733
r_scangle_other9.307
r_dihedral_angle_1_deg7.976
r_mcbond_it6.002
RMS Deviations
KeyRefinement Restraint Deviation
r_dihedral_angle_2_deg39.435
r_dihedral_angle_3_deg20.433
r_dihedral_angle_4_deg19.27
r_long_range_B_refined14.155
r_long_range_B_other14.154
r_mcangle_it9.733
r_mcangle_other9.733
r_scangle_other9.307
r_dihedral_angle_1_deg7.976
r_mcbond_it6.002
r_mcbond_other6.001
r_scbond_it5.498
r_scbond_other5.491
r_angle_refined_deg1.476
r_angle_other_deg1.055
r_chiral_restr0.079
r_bond_refined_d0.01
r_bond_other_d0.006
r_gen_planes_refined0.006
r_gen_planes_other0.002
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 Atoms21385
Nucleic Acid Atoms
Solvent Atoms
Heterogen Atoms28

Software

Software
Software NamePurpose
REFMACrefinement
PDB_EXTRACTdata extraction
HKL-2000data processing
HKL-2000data scaling
MOLREPphasing
HKL-2000data reduction