X-RAY DIFFRACTION

Starting Model(s)

Initial Refinement Model(s)
TypeSourceAccession CodeDetails
experimental modelPDB 3ZR1 

Crystallization

Crystalization Experiments
IDMethodpHTemperatureDetails
1VAPOR DIFFUSION, SITTING DROP293.150.2 M ammonium nitrate, 34% PEG 3350 and 0.01 M copper (II) chloride dihydrate
Crystal Properties
Matthews coefficientSolvent content
2.8456.66

Crystal Data

Unit Cell
Length ( Å )Angle ( ˚ )
a = 58.532α = 90
b = 139.245β = 107.53
c = 58.718γ = 90
Symmetry
Space GroupP 1 21 1

Diffraction

Diffraction Experiment
ID #Crystal IDScattering TypeData Collection TemperatureDetectorDetector TypeDetailsCollection DateMonochromatorProtocol
11x-ray100PIXELDECTRIS PILATUS 6M2015-07-23MSINGLE WAVELENGTH
Radiation Source
ID #SourceTypeWavelength ListSynchrotron SiteBeamline
1SYNCHROTRONBESSY BEAMLINE 14.10.918409BESSY14.1

Data Collection

Overall
ID #Resolution (High)Resolution (Low)Percent Possible (Observed)R Merge 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
12.147.2999.70.12883.851831
Highest Resolution Shell
ID #Resolution (High)Resolution (Low)Percent Possible (All)Percent Possible (Observed)R Merge I (Observed)Mean I Over Sigma (Observed)RedundancyNumber Unique Reflections (All)
12.12.1697.50.5162.23.2

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 REPLACEMENTTHROUGHOUT3ZR12.147.2949154264599.680.202830.200870.23867RANDOM23.907
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]
-0.43-0.891.7-0.59
RMS Deviations
KeyRefinement Restraint Deviation
r_dihedral_angle_2_deg31.48
r_dihedral_angle_3_deg14.158
r_dihedral_angle_4_deg14.074
r_dihedral_angle_1_deg7.403
r_long_range_B_other5.25
r_long_range_B_refined5.248
r_scangle_other3.103
r_mcangle_it2.36
r_mcangle_other2.36
r_scbond_it1.862
RMS Deviations
KeyRefinement Restraint Deviation
r_dihedral_angle_2_deg31.48
r_dihedral_angle_3_deg14.158
r_dihedral_angle_4_deg14.074
r_dihedral_angle_1_deg7.403
r_long_range_B_other5.25
r_long_range_B_refined5.248
r_scangle_other3.103
r_mcangle_it2.36
r_mcangle_other2.36
r_scbond_it1.862
r_scbond_other1.862
r_angle_refined_deg1.639
r_mcbond_it1.414
r_mcbond_other1.413
r_angle_other_deg0.751
r_chiral_restr0.114
r_bond_refined_d0.011
r_gen_planes_refined0.006
r_bond_other_d0.001
r_gen_planes_other0.001
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
r_rigid_bond_restr
r_sphericity_free
r_sphericity_bonded
Non-Hydrogen Atoms Used in Refinement
Non-Hydrogen AtomsNumber
Protein Atoms4990
Nucleic Acid Atoms
Solvent Atoms408
Heterogen Atoms152

Software

Software
Software NamePurpose
REFMACrefinement
XDSdata reduction
Aimlessdata scaling
PHASERphasing