X-RAY DIFFRACTION

Starting Model(s)

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

Crystallization

Crystalization Experiments
IDMethodpHTemperatureDetails
1MICROBATCH8.2293PEG 1500, dGTP, SPG buffer, sodium chloride, magnesium chloride, TCEP
Crystal Properties
Matthews coefficientSolvent content
2.0339.46

Crystal Data

Unit Cell
Length ( Å )Angle ( ˚ )
a = 80.926α = 90
b = 140.105β = 114.18
c = 97.193γ = 90
Symmetry
Space GroupP 1 21 1

Diffraction

Diffraction Experiment
ID #Crystal IDScattering TypeData Collection TemperatureDetectorDetector TypeDetailsCollection DateMonochromatorProtocol
11x-ray100PIXELDECTRIS EIGER X 16M2020-12-12MSINGLE WAVELENGTH
Radiation Source
ID #SourceTypeWavelength ListSynchrotron SiteBeamline
1SYNCHROTRONAPS BEAMLINE 24-ID-E0.979APS24-ID-E

Data Collection

Overall
ID #Resolution (High)Resolution (Low)Percent Possible (Observed)R Merge I (Observed)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
11.95098.90.0710.99617.33.3153730
Highest Resolution Shell
ID #Resolution (High)Resolution (Low)Percent Possible (All)Percent Possible (Observed)R Merge I (Observed)CC (Half)Mean I Over Sigma (Observed)RedundancyNumber Unique Reflections (All)
11.91.9398.81.3110.2973.3

Refinement

Statistics
Diffraction IDStructure Solution MethodCross Validation methodStarting modelResolution (High)Resolution (Low)Number Reflections (Observed)Number Reflections (R-Free)Percent Reflections (Observed)R-Factor (Observed)R-WorkR-FreeR-Free Selection DetailsMean Isotropic B
X-RAY DIFFRACTIONMOLECULAR REPLACEMENTTHROUGHOUT4BZB1.939.38145958773898.850.17920.17750.2116RANDOM46.08
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]
0.790.090.73-1.14
RMS Deviations
KeyRefinement Restraint Deviation
r_dihedral_angle_2_deg37.137
r_dihedral_angle_3_deg17.969
r_dihedral_angle_4_deg17.877
r_dihedral_angle_1_deg5.943
r_angle_refined_deg1.698
r_angle_other_deg1.389
r_chiral_restr0.085
r_bond_refined_d0.012
r_gen_planes_refined0.009
r_bond_other_d0.001
RMS Deviations
KeyRefinement Restraint Deviation
r_dihedral_angle_2_deg37.137
r_dihedral_angle_3_deg17.969
r_dihedral_angle_4_deg17.877
r_dihedral_angle_1_deg5.943
r_angle_refined_deg1.698
r_angle_other_deg1.389
r_chiral_restr0.085
r_bond_refined_d0.012
r_gen_planes_refined0.009
r_bond_other_d0.001
r_gen_planes_other0.001
Non-Hydrogen Atoms Used in Refinement
Non-Hydrogen AtomsNumber
Protein Atoms15712
Nucleic Acid Atoms
Solvent Atoms611
Heterogen Atoms252

Software

Software
Software NamePurpose
REFMACrefinement
PHASERphasing
PDB_EXTRACTdata extraction
HKL-2000data reduction
HKL-2000data scaling