6UQZ

Crystal structure of ChoE D285N mutant in complex with acetate and thiocholine


X-RAY DIFFRACTION

Starting Model(s)

Initial Refinement Model(s)
TypeSourceAccession CodeDetails
experimental modelPDB 6UQVPDB entry 6UQV

Crystallization

Crystalization Experiments
IDMethodpHTemperatureDetails
1MICROBATCH6.527715% PEG20000, 0.1 M MES, pH 6.5
Crystal Properties
Matthews coefficientSolvent content
2.3748.01

Crystal Data

Unit Cell
Length ( Å )Angle ( ˚ )
a = 45.616α = 90
b = 81.629β = 99.92
c = 81.383γ = 90
Symmetry
Space GroupP 1 21 1

Diffraction

Diffraction Experiment
ID #Crystal IDScattering TypeData Collection TemperatureDetectorDetector TypeDetailsCollection DateMonochromatorProtocol
11x-ray100PIXELDECTRIS PILATUS3 S 6M2019-08-08MSINGLE WAVELENGTH
Radiation Source
ID #SourceTypeWavelength ListSynchrotron SiteBeamline
1SYNCHROTRONAPS BEAMLINE 31-ID0.97931APS31-ID

Data Collection

Overall
ID #Resolution (High)Resolution (Low)Percent Possible (Observed)R Sym 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
11.4380.1796.40.0470.0560.0313.33.4104293
Highest Resolution Shell
ID #Resolution (High)Resolution (Low)Percent Possible (All)Percent Possible (Observed)R Merge I (Observed)R-Sym I (Observed)Rrim I (All)Rpim I (All)Mean I Over Sigma (Observed)RedundancyNumber Unique Reflections (All)
11.431.5187.30.530.530.6430.3571.53.1

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 REPLACEMENTTHROUGHOUTPDB entry 6UQV1.4380.1799062518996.260.17230.1710.1975RANDOM20.865
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]
1.960.56-1.55-0.58
RMS Deviations
KeyRefinement Restraint Deviation
r_dihedral_angle_2_deg26.882
r_dihedral_angle_4_deg20.252
r_dihedral_angle_3_deg12.912
r_dihedral_angle_1_deg6.265
r_angle_refined_deg1.809
r_angle_other_deg0.615
r_chiral_restr0.094
r_bond_refined_d0.014
r_gen_planes_refined0.01
r_bond_other_d0.001
RMS Deviations
KeyRefinement Restraint Deviation
r_dihedral_angle_2_deg26.882
r_dihedral_angle_4_deg20.252
r_dihedral_angle_3_deg12.912
r_dihedral_angle_1_deg6.265
r_angle_refined_deg1.809
r_angle_other_deg0.615
r_chiral_restr0.094
r_bond_refined_d0.014
r_gen_planes_refined0.01
r_bond_other_d0.001
r_gen_planes_other0.001
Non-Hydrogen Atoms Used in Refinement
Non-Hydrogen AtomsNumber
Protein Atoms4458
Nucleic Acid Atoms
Solvent Atoms650
Heterogen Atoms22

Software

Software
Software NamePurpose
SCALAdata scaling
REFMACrefinement
PDB_EXTRACTdata extraction
MOSFLMdata reduction
MOLREPphasing