X-RAY DIFFRACTION

Starting Model(s)

Initial Refinement Model(s)
TypeSourceAccession CodeDetails
experimental modelPDB 1TLDPDB entry 1TLD with solvent removed

Crystallization

Crystalization Experiments
IDMethodpHTemperatureDetails
1VAPOR DIFFUSION, HANGING DROP6298ammonium sulfate, bis-tris propane, calcium chloride, benzamidine, pH 6.0, VAPOR DIFFUSION, HANGING DROP, temperature 298K
Crystal Properties
Matthews coefficientSolvent content
2.8155

Crystal Data

Unit Cell
Length ( Å )Angle ( ˚ )
a = 61.948α = 90
b = 63.72β = 90
c = 69.008γ = 90
Symmetry
Space GroupP 21 21 21

Diffraction

Diffraction Experiment
ID #Crystal IDScattering TypeData Collection TemperatureDetectorDetector TypeDetailsCollection DateMonochromatorProtocol
11x-ray100CCDADSC QUANTUM 42003-10-05MSINGLE WAVELENGTH
Radiation Source
ID #SourceTypeWavelength ListSynchrotron SiteBeamline
1SYNCHROTRONALS BEAMLINE 8.3.11.00000ALS8.3.1

Data Collection

Overall
ID #Resolution (High)Resolution (Low)Percent Possible (Observed)R Merge I (Observed)R Sym 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
11.1546.6399.270.0460.0469.33.38694286942-3
Highest Resolution Shell
ID #Resolution (High)Resolution (Low)Percent Possible (All)Percent Possible (Observed)R Merge I (Observed)R-Sym I (Observed)Mean I Over Sigma (Observed)RedundancyNumber Unique Reflections (All)
11.151.210.6580.6581.11.4

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 1TLD with solvent removed1.1546.638694186941435193.560.120.120.1190.138RANDOM13.438
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]
-0.43-0.080.51
RMS Deviations
KeyRefinement Restraint Deviation
r_dihedral_angle_2_deg39.272
r_sphericity_free17.293
r_dihedral_angle_3_deg11.513
r_dihedral_angle_4_deg11.124
r_sphericity_bonded8.462
r_rigid_bond_restr6.874
r_scangle_it6.635
r_dihedral_angle_1_deg6.593
r_scbond_it5.451
r_mcangle_it4.173
RMS Deviations
KeyRefinement Restraint Deviation
r_dihedral_angle_2_deg39.272
r_sphericity_free17.293
r_dihedral_angle_3_deg11.513
r_dihedral_angle_4_deg11.124
r_sphericity_bonded8.462
r_rigid_bond_restr6.874
r_scangle_it6.635
r_dihedral_angle_1_deg6.593
r_scbond_it5.451
r_mcangle_it4.173
r_mcbond_it3.212
r_angle_other_deg2.687
r_mcbond_other2.391
r_angle_refined_deg1.851
r_symmetry_vdw_other0.377
r_nbd_refined0.373
r_nbd_other0.263
r_symmetry_vdw_refined0.225
r_xyhbond_nbd_refined0.212
r_symmetry_hbond_refined0.201
r_chiral_restr0.151
r_metal_ion_refined0.121
r_nbtor_other0.099
r_bond_refined_d0.018
r_gen_planes_refined0.009
r_bond_other_d0.004
r_gen_planes_other0.002
Non-Hydrogen Atoms Used in Refinement
Non-Hydrogen AtomsNumber
Protein Atoms1652
Nucleic Acid Atoms
Solvent Atoms390
Heterogen Atoms1

Software

Software
Software NamePurpose
MOSFLMdata reduction
SCALAdata scaling
TRUNCATEdata reduction
EPMRphasing
REFMACrefinement
CCP4data scaling
TRUNCATEdata scaling