X-RAY DIFFRACTION

Starting Model(s)

Initial Refinement Model(s)
TypeSourceAccession CodeDetails
experimental modelPDB 1ZNCPDB ID 1ZNC

Crystallization

Crystalization Experiments
IDMethodpHTemperatureDetails
1VAPOR DIFFUSION, HANGING DROP4.6277100 mM Na acetate, 200 mM AmSO4 and 16% PEG 3350
Crystal Properties
Matthews coefficientSolvent content
2.551.3

Crystal Data

Unit Cell
Length ( Å )Angle ( ˚ )
a = 64.784α = 90
b = 123.98β = 90
c = 151.336γ = 90
Symmetry
Space GroupP 21 21 21

Diffraction

Diffraction Experiment
ID #Crystal IDScattering TypeData Collection TemperatureDetectorDetector TypeDetailsCollection DateMonochromatorProtocol
11x-ray100IMAGE PLATERIGAKU RAXIS IV++2015-05-20MSINGLE WAVELENGTH
Radiation Source
ID #SourceTypeWavelength ListSynchrotron SiteBeamline
1ROTATING ANODERIGAKU MICROMAX-007 HF1.5418

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
12.14094.50.1088.13.368006-0.6
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)
12.12.1493.40.4641.92.7

Refinement

Statistics
Diffraction IDStructure Solution MethodCross Validation methodStarting modelResolution (High)Resolution (Low)Cut-off Sigma (F)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 ID 1ZNC2.140-0.664559341394.40.1720.170.22RANDOM29.55
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]
RMS Deviations
KeyRefinement Restraint Deviation
r_dihedral_angle_2_deg35.206
r_dihedral_angle_4_deg16.265
r_dihedral_angle_3_deg15.995
r_long_range_B_refined7.574
r_long_range_B_other7.261
r_dihedral_angle_1_deg7.128
r_scangle_other4.531
r_mcangle_it2.956
r_mcangle_other2.956
r_scbond_it2.797
RMS Deviations
KeyRefinement Restraint Deviation
r_dihedral_angle_2_deg35.206
r_dihedral_angle_4_deg16.265
r_dihedral_angle_3_deg15.995
r_long_range_B_refined7.574
r_long_range_B_other7.261
r_dihedral_angle_1_deg7.128
r_scangle_other4.531
r_mcangle_it2.956
r_mcangle_other2.956
r_scbond_it2.797
r_scbond_other2.797
r_mcbond_it1.876
r_mcbond_other1.875
r_angle_refined_deg1.83
r_angle_other_deg1.074
r_chiral_restr0.208
r_bond_refined_d0.013
r_gen_planes_refined0.007
r_bond_other_d0.003
r_gen_planes_other0.002
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 Atoms8360
Nucleic Acid Atoms
Solvent Atoms915
Heterogen Atoms140

Software

Software
Software NamePurpose
REFMACrefinement
HKL-2000data reduction
HKL-2000data scaling
MOLREPphasing