X-RAY DIFFRACTION

Starting Model(s)

Initial Refinement Model(s)
TypeSourceAccession CodeDetails
experimental modelPDB 4NQ2 

Crystallization

Crystalization Experiments
IDMethodpHTemperatureDetails
1VAPOR DIFFUSION, SITTING DROP2930.2M magnesium formate dihydrate, 25% PEG 3350
Crystal Properties
Matthews coefficientSolvent content
2.0439.58

Crystal Data

Unit Cell
Length ( Å )Angle ( ˚ )
a = 101.501α = 90
b = 79.21β = 130.13
c = 67.66γ = 90
Symmetry
Space GroupC 1 2 1

Diffraction

Diffraction Experiment
ID #Crystal IDScattering TypeData Collection TemperatureDetectorDetector TypeDetailsCollection DateMonochromatorProtocol
11x-ray100CCDADSC QUANTUM 315r2017-05-19MSINGLE WAVELENGTH
Radiation Source
ID #SourceTypeWavelength ListSynchrotron SiteBeamline
1SYNCHROTRONAichiSR BEAMLINE BL2S11.12AichiSRBL2S1

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
11.4955.4399.30.07915.37.166587
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)
11.491.5799.50.3196.9

Refinement

Statistics
Diffraction IDStructure Solution MethodCross Validation methodStarting modelResolution (High)Resolution (Low)Number Reflections (Observed)Number Reflections (R-Free)Percent Reflections (Observed)R-Factor (All)R-WorkR-FreeMean Isotropic B
X-RAY DIFFRACTIONMOLECULAR REPLACEMENTTHROUGHOUT4nq21.4951.48766585346899.730.1470.14560.169112.17
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]
0.4160.025-0.4760.007
RMS Deviations
KeyRefinement Restraint Deviation
r_dihedral_angle_2_deg30.668
r_dihedral_angle_4_deg19.898
r_dihedral_angle_3_deg12.264
r_dihedral_angle_1_deg7.423
r_lrange_it4.945
r_lrange_other4.827
r_scangle_it3.297
r_scangle_other3.297
r_scbond_it2.273
r_scbond_other2.272
RMS Deviations
KeyRefinement Restraint Deviation
r_dihedral_angle_2_deg30.668
r_dihedral_angle_4_deg19.898
r_dihedral_angle_3_deg12.264
r_dihedral_angle_1_deg7.423
r_lrange_it4.945
r_lrange_other4.827
r_scangle_it3.297
r_scangle_other3.297
r_scbond_it2.273
r_scbond_other2.272
r_dihedral_angle_other_3_deg2.073
r_mcangle_it1.849
r_mcangle_other1.848
r_angle_refined_deg1.599
r_angle_other_deg1.428
r_mcbond_it1.258
r_mcbond_other1.257
r_nbd_other0.26
r_symmetry_nbd_refined0.214
r_nbd_refined0.202
r_symmetry_nbd_other0.202
r_symmetry_xyhbond_nbd_refined0.178
r_nbtor_refined0.165
r_xyhbond_nbd_refined0.157
r_metal_ion_refined0.114
r_symmetry_nbtor_other0.08
r_chiral_restr0.068
r_bond_refined_d0.008
r_gen_planes_refined0.006
r_bond_other_d
r_gen_planes_other
Non-Hydrogen Atoms Used in Refinement
Non-Hydrogen AtomsNumber
Protein Atoms3492
Nucleic Acid Atoms
Solvent Atoms637
Heterogen Atoms64

Software

Software
Software NamePurpose
REFMACrefinement
iMOSFLMdata reduction
SCALAdata scaling
MOLREPphasing