X-RAY DIFFRACTION

Starting Model(s)

Initial Refinement Model(s)
TypeSourceAccession CodeDetails
experimental modelPDB 2QP8 

Crystallization

Crystalization Experiments
IDMethodpHTemperatureDetails
1VAPOR DIFFUSION, SITTING DROP5293100mM Sodium citrate, 200mM Ammonium sulfate, 14%(v/v) PEG 10000
Crystal Properties
Matthews coefficientSolvent content
3.2662.24

Crystal Data

Unit Cell
Length ( Å )Angle ( ˚ )
a = 82.285α = 90
b = 103.661β = 102.73
c = 102γ = 90
Symmetry
Space GroupP 1 21 1

Diffraction

Diffraction Experiment
ID #Crystal IDScattering TypeData Collection TemperatureDetectorDetector TypeDetailsCollection DateMonochromatorProtocol
11x-ray100CCDRAYONIX MX300HEhorizontal focusing mirror2013-05-10MSINGLE WAVELENGTH
Radiation Source
ID #SourceTypeWavelength ListSynchrotron SiteBeamline
1SYNCHROTRONSPRING-8 BEAMLINE BL44XU0.90000SPring-8BL44XU

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
12.85501000.0976.64.138857
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)
12.852.91000.6694.11932

Refinement

Statistics
Diffraction IDStructure Solution MethodCross Validation methodStarting modelResolution (High)Resolution (Low)Number Reflections (Observed)Number Reflections (R-Free)Percent Reflections (Observed)R-WorkR-FreeR-Free Selection DetailsMean Isotropic B
X-RAY DIFFRACTIONMOLECULAR REPLACEMENTTHROUGHOUT2QP82.8549.7238827195099.10.20760.2384RANDOM55.86
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]
0.03-0.010.01
RMS Deviations
KeyRefinement Restraint Deviation
r_dihedral_angle_2_deg33.658
r_dihedral_angle_4_deg19.129
r_dihedral_angle_3_deg15.592
r_dihedral_angle_1_deg7.982
r_mcangle_it6.598
r_mcbond_it4.072
r_mcbond_other4.072
r_angle_refined_deg1.665
r_angle_other_deg0.978
r_chiral_restr0.084
RMS Deviations
KeyRefinement Restraint Deviation
r_dihedral_angle_2_deg33.658
r_dihedral_angle_4_deg19.129
r_dihedral_angle_3_deg15.592
r_dihedral_angle_1_deg7.982
r_mcangle_it6.598
r_mcbond_it4.072
r_mcbond_other4.072
r_angle_refined_deg1.665
r_angle_other_deg0.978
r_chiral_restr0.084
r_bond_refined_d0.013
r_gen_planes_refined0.006
r_bond_other_d0.003
r_gen_planes_other0.001
Non-Hydrogen Atoms Used in Refinement
Non-Hydrogen AtomsNumber
Protein Atoms9304
Nucleic Acid Atoms
Solvent Atoms49
Heterogen Atoms73

Software

Software
Software NamePurpose
SCALEPACKdata reduction
HKL-2000data collection
REFMACrefinement
PDB_EXTRACTdata extraction
MOLREPmodel building
HKLdata reduction
SCALEPACKdata scaling
MOLREPphasing