X-RAY DIFFRACTION

Starting Model(s)

Initial Refinement Model(s)
TypeSourceAccession CodeDetails
experimental modelPDB 7XQA 

Crystallization

Crystalization Experiments
IDMethodpHTemperatureDetails
1VAPOR DIFFUSION, HANGING DROP8.52930.1 M Tris-HCl pH8.5, 0.2 M KBr, 8 % PEG 550 MME and 8 % PEG 20000
Crystal Properties
Matthews coefficientSolvent content
3.3763.46

Crystal Data

Unit Cell
Length ( Å )Angle ( ˚ )
a = 103.42α = 90.075
b = 107.933β = 90.011
c = 133.424γ = 96.303
Symmetry
Space GroupP 1

Diffraction

Diffraction Experiment
ID #Crystal IDScattering TypeData Collection TemperatureDetectorDetector TypeDetailsCollection DateMonochromatorProtocol
11x-ray110CCDRAYONIX MX300HE2022-02-25MSINGLE WAVELENGTH
Radiation Source
ID #SourceTypeWavelength ListSynchrotron SiteBeamline
1SYNCHROTRONNSRRC BEAMLINE BL15A11NSRRCBL15A1

Data Collection

Overall
ID #Resolution (High)Resolution (Low)Percent Possible (Observed)R Merge 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
12.43098.50.060.0690.033254.4220494
Highest Resolution Shell
ID #Resolution (High)Resolution (Low)Percent Possible (All)Percent Possible (Observed)R Merge I (Observed)Rrim I (All)Rpim I (All)Mean I Over Sigma (Observed)RedundancyNumber Unique Reflections (All)
12.42.4997.70.6420.7290.3462.74.3

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 REPLACEMENTFREE R-VALUE7XQA2.428.6192127381067094.7530.2010.20040.220443.163
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]
-0.3380.017-0.0630.4820.018-0.159
RMS Deviations
KeyRefinement Restraint Deviation
r_dihedral_angle_2_deg29.295
r_dihedral_angle_3_deg17.207
r_dihedral_angle_4_deg15.469
r_lrange_other8.851
r_lrange_it8.849
r_dihedral_angle_1_deg6.65
r_scangle_it6.645
r_scangle_other6.645
r_mcangle_it5.341
r_mcangle_other5.341
RMS Deviations
KeyRefinement Restraint Deviation
r_dihedral_angle_2_deg29.295
r_dihedral_angle_3_deg17.207
r_dihedral_angle_4_deg15.469
r_lrange_other8.851
r_lrange_it8.849
r_dihedral_angle_1_deg6.65
r_scangle_it6.645
r_scangle_other6.645
r_mcangle_it5.341
r_mcangle_other5.341
r_scbond_it4.232
r_scbond_other4.232
r_mcbond_it3.515
r_mcbond_other3.515
r_angle_refined_deg1.476
r_angle_other_deg1.267
r_nbd_other0.261
r_symmetry_nbd_refined0.217
r_nbd_refined0.193
r_symmetry_xyhbond_nbd_other0.192
r_symmetry_nbd_other0.179
r_nbtor_refined0.155
r_symmetry_xyhbond_nbd_refined0.142
r_xyhbond_nbd_refined0.141
r_symmetry_nbtor_other0.078
r_ncsr_local_group_60.076
r_ncsr_local_group_240.072
r_ncsr_local_group_120.068
r_chiral_restr0.067
r_ncsr_local_group_20.066
r_ncsr_local_group_260.066
r_ncsr_local_group_150.065
r_ncsr_local_group_30.061
r_ncsr_local_group_210.06
r_ncsr_local_group_70.059
r_ncsr_local_group_80.059
r_ncsr_local_group_280.059
r_ncsr_local_group_90.058
r_ncsr_local_group_100.058
r_ncsr_local_group_160.058
r_ncsr_local_group_140.057
r_ncsr_local_group_190.057
r_ncsr_local_group_200.057
r_ncsr_local_group_50.056
r_ncsr_local_group_180.056
r_ncsr_local_group_130.055
r_ncsr_local_group_250.055
r_ncsr_local_group_270.055
r_ncsr_local_group_10.054
r_ncsr_local_group_230.053
r_ncsr_local_group_170.038
r_ncsr_local_group_40.035
r_ncsr_local_group_110.031
r_ncsr_local_group_220.022
r_bond_refined_d0.008
r_gen_planes_refined0.006
r_bond_other_d0.001
r_gen_planes_other0.001
Non-Hydrogen Atoms Used in Refinement
Non-Hydrogen AtomsNumber
Protein Atoms29152
Nucleic Acid Atoms
Solvent Atoms555
Heterogen Atoms664

Software

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