X-RAY DIFFRACTION

Starting Model(s)

Initial Refinement Model(s)
TypeSourceAccession CodeDetails
experimental modelPDB 1XBSPDB ENTRY 1XBS

Crystallization

Crystalization Experiments
IDMethodpHTemperatureDetails
1VAPOR DIFFUSION, HANGING DROP6.529818% PEG8000, 0.2 M magnesium acetate tetrahydate, 0.1 M sodium cacodylate, pH 6.5, VAPOR DIFFUSION, HANGING DROP, temperature 298K
Crystal Properties
Matthews coefficientSolvent content
1.8934.98

Crystal Data

Unit Cell
Length ( Å )Angle ( ˚ )
a = 39.325α = 90
b = 63.64β = 92.29
c = 51.148γ = 90
Symmetry
Space GroupP 1 21 1

Diffraction

Diffraction Experiment
ID #Crystal IDScattering TypeData Collection TemperatureDetectorDetector TypeDetailsCollection DateMonochromatorProtocol
11x-ray110CCDMARMOSAIC 300 mm CCD2005-12-05MSINGLE WAVELENGTH
Radiation Source
ID #SourceTypeWavelength ListSynchrotron SiteBeamline
1SYNCHROTRONAPS BEAMLINE 22-ID1.0APS22-ID

Data Collection

Overall
ID #Resolution (High)Resolution (Low)Percent Possible (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
11.32730.56797581465640122

Refinement

Statistics
Diffraction IDStructure Solution MethodCross Validation methodStarting modelResolution (High)Resolution (Low)Number Reflections (All)Number Reflections (Observed)Number Reflections (R-Free)Percent Reflections (Observed)R-Factor (Observed)R-WorkR-FreeR-Free Selection DetailsMean Isotropic B
X-RAY DIFFRACTIONMOLECULAR REPLACEMENTTHROUGHOUTPDB ENTRY 1XBS1.32730.5675640154157216492.960.13030.12790.1849RANDOM23.1496
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]
-1.20.241.32-0.14
RMS Deviations
KeyRefinement Restraint Deviation
r_sphericity_free59.449
r_dihedral_angle_2_deg36.005
r_dihedral_angle_4_deg30.328
r_sphericity_bonded18.237
r_dihedral_angle_3_deg14.179
r_dihedral_angle_1_deg5.979
r_rigid_bond_restr5.896
r_mcangle_it3.396
r_mcbond_it3.004
r_mcbond_other2.979
RMS Deviations
KeyRefinement Restraint Deviation
r_sphericity_free59.449
r_dihedral_angle_2_deg36.005
r_dihedral_angle_4_deg30.328
r_sphericity_bonded18.237
r_dihedral_angle_3_deg14.179
r_dihedral_angle_1_deg5.979
r_rigid_bond_restr5.896
r_mcangle_it3.396
r_mcbond_it3.004
r_mcbond_other2.979
r_angle_refined_deg2.189
r_angle_other_deg1.079
r_chiral_restr0.141
r_bond_refined_d0.022
r_gen_planes_refined0.012
r_gen_planes_other0.003
r_bond_other_d0.001
Non-Hydrogen Atoms Used in Refinement
Non-Hydrogen AtomsNumber
Protein Atoms2239
Nucleic Acid Atoms
Solvent Atoms382
Heterogen Atoms23

Software

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