X-RAY DIFFRACTION

Starting Model(s)

Initial Refinement Model(s)
TypeSourceAccession CodeDetails
experimental modelPDB 1RRMPDB entry 1RRM

Crystallization

Crystalization Experiments
IDMethodpHTemperatureDetails
1VAPOR DIFFUSION, SITTING DROP29512% PEG3350, 200 mM ammonium chloride
Crystal Properties
Matthews coefficientSolvent content
2.3347.12

Crystal Data

Unit Cell
Length ( Å )Angle ( ˚ )
a = 69.697α = 90
b = 63.769β = 111.15
c = 91.674γ = 90
Symmetry
Space GroupP 1 21 1

Diffraction

Diffraction Experiment
ID #Crystal IDScattering TypeData Collection TemperatureDetectorDetector TypeDetailsCollection DateMonochromatorProtocol
11x-ray100PIXELDECTRIS PILATUS 6MK-B focusing mirrors2014-06-04MSINGLE WAVELENGTH
Radiation Source
ID #SourceTypeWavelength ListSynchrotron SiteBeamline
1SYNCHROTRONSSRL BEAMLINE BL12-20.7749SSRLBL12-2

Data Collection

Overall
ID #Resolution (High)Resolution (Low)Percent Possible (Observed)R Sym I (Observed)Rrim I (All)Rpim I (All)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
10.90985.591.80.0620.0770.0448.82.7491073491073
Highest Resolution Shell
ID #Resolution (High)Resolution (Low)Percent Possible (All)Percent Possible (Observed)R Merge I (Observed)R-Sym I (Observed)Rpim I (All)Mean I Over Sigma (Observed)RedundancyNumber Unique Reflections (All)
10.910.9674.62.252.251.6690.32.558038

Refinement

Statistics
Diffraction IDStructure Solution MethodCross Validation methodStarting modelResolution (High)Resolution (Low)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 1RRM0.9185.54666462437891.640.129990.129080.14747RANDOM14.369
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]
0.660.4-0.33-0.49
RMS Deviations
KeyRefinement Restraint Deviation
r_sphericity_free41.85
r_sphericity_bonded17.426
r_long_range_B_refined8.883
r_long_range_B_other8.882
r_scangle_other7.581
r_rigid_bond_restr6.66
r_scbond_it6.281
r_scbond_other6.281
r_angle_refined_deg2.037
r_mcangle_other2.021
RMS Deviations
KeyRefinement Restraint Deviation
r_sphericity_free41.85
r_sphericity_bonded17.426
r_long_range_B_refined8.883
r_long_range_B_other8.882
r_scangle_other7.581
r_rigid_bond_restr6.66
r_scbond_it6.281
r_scbond_other6.281
r_angle_refined_deg2.037
r_mcangle_other2.021
r_mcangle_it2.017
r_mcbond_it1.685
r_mcbond_other1.668
r_angle_other_deg1.344
r_chiral_restr0.138
r_bond_refined_d0.021
r_gen_planes_refined0.012
r_gen_planes_other0.006
r_bond_other_d0.002
r_dihedral_angle_1_deg
r_dihedral_angle_2_deg
r_dihedral_angle_3_deg
r_dihedral_angle_4_deg
r_nbd_refined
r_nbd_other
r_nbtor_refined
r_nbtor_other
r_xyhbond_nbd_refined
r_xyhbond_nbd_other
r_metal_ion_refined
r_metal_ion_other
r_symmetry_vdw_refined
r_symmetry_vdw_other
r_symmetry_hbond_refined
r_symmetry_hbond_other
r_symmetry_metal_ion_refined
r_symmetry_metal_ion_other
r_scangle_it
Non-Hydrogen Atoms Used in Refinement
Non-Hydrogen AtomsNumber
Protein Atoms5711
Nucleic Acid Atoms
Solvent Atoms1167
Heterogen Atoms112

Software

Software
Software NamePurpose
REFMACrefinement
SCALAdata scaling
MOLREPphasing
PDB_EXTRACTdata extraction
XDSdata reduction