X-RAY DIFFRACTION

Starting Model(s)

Initial Refinement Model(s)
TypeSourceAccession CodeDetails
experimental modelPDB 2OC3PDB entry 2OC3

Crystallization

Crystalization Experiments
IDMethodpHTemperatureDetails
1VAPOR DIFFUSION, SITTING DROP7.9293100 mM Bicine pH 7.9, 25% PEG 10000, VAPOR DIFFUSION, SITTING DROP, temperature 293K
Crystal Properties
Matthews coefficientSolvent content
2.3647.9

Crystal Data

Unit Cell
Length ( Å )Angle ( ˚ )
a = 60.961α = 90
b = 48.442β = 102.84
c = 119.805γ = 90
Symmetry
Space GroupP 1 21 1

Diffraction

Diffraction Experiment
ID #Crystal IDScattering TypeData Collection TemperatureDetectorDetector TypeDetailsCollection DateMonochromatorProtocol
11x-ray100CCDMARMOSAIC 225 mm CCD2007-03-03MSINGLE WAVELENGTH
Radiation Source
ID #SourceTypeWavelength ListSynchrotron SiteBeamline
1SYNCHROTRONSLS BEAMLINE X10SA0.97900SLSX10SA

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
11.959.441000.080.0813.13.7541785417824.7
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)
11.921000.3890.3893.33.6

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 2OC31.959.445140851408276199.960.166270.166270.163520.21725RANDOM30.663
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]
-0.140.410.5-0.17
RMS Deviations
KeyRefinement Restraint Deviation
r_dihedral_angle_2_deg33.784
r_dihedral_angle_4_deg14.162
r_dihedral_angle_3_deg14.027
r_scangle_it9.561
r_scbond_it8.346
r_dihedral_angle_1_deg6.145
r_mcangle_it5.956
r_mcbond_it5.098
r_mcbond_other2.414
r_angle_refined_deg1.518
RMS Deviations
KeyRefinement Restraint Deviation
r_dihedral_angle_2_deg33.784
r_dihedral_angle_4_deg14.162
r_dihedral_angle_3_deg14.027
r_scangle_it9.561
r_scbond_it8.346
r_dihedral_angle_1_deg6.145
r_mcangle_it5.956
r_mcbond_it5.098
r_mcbond_other2.414
r_angle_refined_deg1.518
r_angle_other_deg0.941
r_symmetry_vdw_other0.284
r_nbd_refined0.213
r_nbd_other0.206
r_nbtor_refined0.188
r_xyhbond_nbd_refined0.169
r_symmetry_hbond_refined0.142
r_chiral_restr0.094
r_nbtor_other0.087
r_symmetry_vdw_refined0.079
r_xyhbond_nbd_other0.024
r_bond_refined_d0.018
r_gen_planes_refined0.007
r_bond_other_d0.001
r_gen_planes_other0.001
Non-Hydrogen Atoms Used in Refinement
Non-Hydrogen AtomsNumber
Protein Atoms4830
Nucleic Acid Atoms
Solvent Atoms369
Heterogen Atoms17

Software

Software
Software NamePurpose
REFMACrefinement
MAR345data collection
MOSFLMdata reduction
CCP4data scaling
PHASERphasing