5Q28

PanDDA analysis group deposition -- Crystal Structure of DCLRE1A in complex with FMOPL000186a


X-RAY DIFFRACTION

Crystallization

Crystalization Experiments
IDMethodpHTemperatureDetails
1VAPOR DIFFUSION, SITTING DROP629830% PEG1000, 0.1 M MIB buffer
Crystal Properties
Matthews coefficientSolvent content
2.1943.75

Crystal Data

Unit Cell
Length ( Å )Angle ( ˚ )
a = 51.85α = 90
b = 57.087β = 90
c = 115.02γ = 90
Symmetry
Space GroupP 21 21 21

Diffraction

Diffraction Experiment
ID #Crystal IDScattering TypeData Collection TemperatureDetectorDetector TypeDetailsCollection DateMonochromatorProtocol
11x-rayPIXELDECTRIS PILATUS 6M2017-04-12MSINGLE WAVELENGTH
Radiation Source
ID #SourceTypeWavelength ListSynchrotron SiteBeamline
1SYNCHROTRONDIAMOND BEAMLINE I04-10.92DiamondI04-1

Data Collection

Overall
ID #Resolution (High)Resolution (Low)Percent Possible (Observed)R Merge I (Observed)Rrim I (All)Rpim I (All)CC (Half)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
11.5257.5199.80.1060.1150.0450.9977.46.453305
Highest Resolution Shell
ID #Resolution (High)Resolution (Low)Percent Possible (All)Percent Possible (Observed)R Merge I (Observed)Rrim I (All)Rpim I (All)CC (Half)Mean I Over Sigma (Observed)RedundancyNumber Unique Reflections (All)
11.521.5699.41.5771.7150.6670.3046.63876

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 DIFFRACTIONFOURIER SYNTHESISTHROUGHOUT5aho1.5257.5150058253298.310.18020.17720.239RANDOM28.683
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]
0.120.66-0.78
RMS Deviations
KeyRefinement Restraint Deviation
r_sphericity_free41.365
r_dihedral_angle_2_deg34.643
r_dihedral_angle_4_deg15.598
r_sphericity_bonded15.291
r_dihedral_angle_3_deg12.789
r_dihedral_angle_1_deg6.296
r_mcangle_it4.768
r_mcbond_it3.661
r_mcbond_other3.661
r_rigid_bond_restr1.626
RMS Deviations
KeyRefinement Restraint Deviation
r_sphericity_free41.365
r_dihedral_angle_2_deg34.643
r_dihedral_angle_4_deg15.598
r_sphericity_bonded15.291
r_dihedral_angle_3_deg12.789
r_dihedral_angle_1_deg6.296
r_mcangle_it4.768
r_mcbond_it3.661
r_mcbond_other3.661
r_rigid_bond_restr1.626
r_angle_refined_deg1.451
r_angle_other_deg0.963
r_chiral_restr0.087
r_bond_refined_d0.013
r_gen_planes_refined0.006
r_bond_other_d0.002
r_gen_planes_other0.002
Non-Hydrogen Atoms Used in Refinement
Non-Hydrogen AtomsNumber
Protein Atoms2692
Nucleic Acid Atoms
Solvent Atoms302
Heterogen Atoms25

Software

Software
Software NamePurpose
REFMACrefinement
Aimlessdata scaling
PDB_EXTRACTdata extraction
XDSdata reduction
REFMACphasing