X-RAY DIFFRACTION

Starting Model(s)

Initial Refinement Model(s)
TypeSourceAccession CodeDetails
experimental modelPDB 2ASDPDB ENTRY 2ASD

Crystallization

Crystalization Experiments
IDMethodpHTemperatureDetails
1VAPOR DIFFUSION, HANGING DROP7293PEG 4000, HEPES-sodium, calcium acetate, pH 7.0, VAPOR DIFFUSION, HANGING DROP, temperature 293.0K
Crystal Properties
Matthews coefficientSolvent content
3.159.5

Crystal Data

Unit Cell
Length ( Å )Angle ( ˚ )
a = 52.584α = 90
b = 101.758β = 94.72
c = 112.286γ = 90
Symmetry
Space GroupP 1 21 1

Diffraction

Diffraction Experiment
ID #Crystal IDScattering TypeData Collection TemperatureDetectorDetector TypeDetailsCollection DateMonochromatorProtocol
11x-ray100IMAGE PLATERIGAKU RAXIS IVConfocat2003-06-06MSINGLE WAVELENGTH
Radiation Source
ID #SourceTypeWavelength ListSynchrotron SiteBeamline
1ROTATING ANODERIGAKU RUH3R1.54180

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
12.82595.20.1253.22807828078
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)
12.82.8786.90.5492.3

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 (All)R-Factor (Observed)R-WorkR-FreeR-Free Selection DetailsMean Isotropic B
X-RAY DIFFRACTIONMOLECULAR REPLACEMENTTHROUGHOUTPDB ENTRY 2ASD2.8202637426374141795.660.227050.227050.224150.27851RANDOM9.903
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]
-0.260.982.82-2.4
RMS Deviations
KeyRefinement Restraint Deviation
r_dihedral_angle_2_deg33.72
r_dihedral_angle_3_deg18.978
r_dihedral_angle_4_deg16.033
r_dihedral_angle_1_deg5.62
r_scangle_it1.415
r_angle_refined_deg1.362
r_scbond_it0.758
r_mcangle_it0.6
r_mcbond_it0.326
r_nbtor_refined0.309
RMS Deviations
KeyRefinement Restraint Deviation
r_dihedral_angle_2_deg33.72
r_dihedral_angle_3_deg18.978
r_dihedral_angle_4_deg16.033
r_dihedral_angle_1_deg5.62
r_scangle_it1.415
r_angle_refined_deg1.362
r_scbond_it0.758
r_mcangle_it0.6
r_mcbond_it0.326
r_nbtor_refined0.309
r_nbd_refined0.215
r_symmetry_vdw_refined0.204
r_metal_ion_refined0.185
r_xyhbond_nbd_refined0.173
r_symmetry_hbond_refined0.172
r_chiral_restr0.078
r_bond_refined_d0.009
r_gen_planes_refined0.003
Non-Hydrogen Atoms Used in Refinement
Non-Hydrogen AtomsNumber
Protein Atoms5478
Nucleic Acid Atoms1257
Solvent Atoms147
Heterogen Atoms64

Software

Software
Software NamePurpose
REFMACrefinement
HKL-2000data reduction
SCALEPACKdata scaling
AMoREphasing