X-RAY DIFFRACTION

Starting Model(s)

Initial Refinement Model(s)
TypeSourceAccession CodeDetails
experimental modelPDB 1R2BMolecular replacement search model = pdb entry 1R2B

Crystallization

Crystalization Experiments
IDMethodpHTemperatureDetails
1VAPOR DIFFUSION, SITTING DROP8.529320 % PEG3350, 200 mM MgCl2, 0.1M Tris buffer, pH 8.5, VAPOR DIFFUSION, SITTING DROP, temperature 293K
Crystal Properties
Matthews coefficientSolvent content
2.3748.07

Crystal Data

Unit Cell
Length ( Å )Angle ( ˚ )
a = 83.44α = 90
b = 53.664β = 106.15
c = 123.891γ = 90
Symmetry
Space GroupC 1 2 1

Diffraction

Diffraction Experiment
ID #Crystal IDScattering TypeData Collection TemperatureDetectorDetector TypeDetailsCollection DateMonochromatorProtocol
11x-ray100CCDMARMOSAIC 225 mm CCD2006-08-16MSINGLE WAVELENGTH
Radiation Source
ID #SourceTypeWavelength ListSynchrotron SiteBeamline
1SYNCHROTRONSLS BEAMLINE X10SA0.978SLSX10SA

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
12.455099.33.719702
Highest Resolution Shell
ID #Resolution (High)Resolution (Low)Percent Possible (All)Percent Possible (Observed)Mean I Over Sigma (Observed)RedundancyNumber Unique Reflections (All)
12.452.5499.4

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 REPLACEMENTTHROUGHOUTMolecular replacement search model = pdb entry 1R2B2.4433.31869218692101098.810.248410.248410.24670.2777RANDOM54.379
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]
2.55-3.41-0.86-3.59
RMS Deviations
KeyRefinement Restraint Deviation
r_dihedral_angle_2_deg32.393
r_dihedral_angle_3_deg15.665
r_dihedral_angle_4_deg14.506
r_dihedral_angle_1_deg5.944
r_scangle_it2.133
r_scbond_it1.471
r_angle_refined_deg1.453
r_angle_other_deg1.098
r_mcangle_it0.932
r_mcbond_it0.57
RMS Deviations
KeyRefinement Restraint Deviation
r_dihedral_angle_2_deg32.393
r_dihedral_angle_3_deg15.665
r_dihedral_angle_4_deg14.506
r_dihedral_angle_1_deg5.944
r_scangle_it2.133
r_scbond_it1.471
r_angle_refined_deg1.453
r_angle_other_deg1.098
r_mcangle_it0.932
r_mcbond_it0.57
r_symmetry_vdw_refined0.216
r_nbd_refined0.213
r_symmetry_vdw_other0.193
r_nbd_other0.188
r_nbtor_refined0.178
r_xyhbond_nbd_refined0.175
r_symmetry_hbond_refined0.169
r_mcbond_other0.137
r_chiral_restr0.087
r_nbtor_other0.087
r_bond_refined_d0.014
r_gen_planes_refined0.005
r_bond_other_d0.003
r_gen_planes_other0.002
r_xyhbond_nbd_other
r_metal_ion_refined
r_metal_ion_other
r_symmetry_hbond_other
r_symmetry_metal_ion_refined
r_symmetry_metal_ion_other
r_rigid_bond_restr
r_sphericity_free
r_sphericity_bonded
Non-Hydrogen Atoms Used in Refinement
Non-Hydrogen AtomsNumber
Protein Atoms3382
Nucleic Acid Atoms
Solvent Atoms33
Heterogen Atoms

Software

Software
Software NamePurpose
REFMACrefinement
HKL-2000data collection
HKL-2000data reduction
HKL-2000data scaling
PHASERphasing