7C85

Esterase AlinE4 mutant-S13A


X-RAY DIFFRACTION

Starting Model(s)

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

Crystallization

Crystalization Experiments
IDMethodpHTemperatureDetails
1VAPOR DIFFUSION, HANGING DROP7.5291.151M Sodium acetate, 100mM HEPES, pH 7.5, 50mM Cadmium sulfate
Crystal Properties
Matthews coefficientSolvent content
2.3447.44

Crystal Data

Unit Cell
Length ( Å )Angle ( ˚ )
a = 79.81α = 90
b = 79.81β = 90
c = 60.82γ = 90
Symmetry
Space GroupP 42 21 2

Diffraction

Diffraction Experiment
ID #Crystal IDScattering TypeData Collection TemperatureDetectorDetector TypeDetailsCollection DateMonochromatorProtocol
11x-ray80CCDADSC QUANTUM 315r2018-05-16MSINGLE WAVELENGTH
Radiation Source
ID #SourceTypeWavelength ListSynchrotron SiteBeamline
1SYNCHROTRONSSRF BEAMLINE BL17U10.97915SSRFBL17U1

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
11.7539.999.980.04912.9220382
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)
11.751.8130.104

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 REPLACEMENTNONE4JGG1.7539.920382105399.980.1240.12140.177414.497
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]
0.2990.299-0.599
RMS Deviations
KeyRefinement Restraint Deviation
r_dihedral_angle_2_deg31.918
r_dihedral_angle_4_deg24.879
r_dihedral_angle_3_deg12.794
r_dihedral_angle_1_deg5.793
r_scangle_it4.132
r_scangle_other4.13
r_lrange_it3.837
r_lrange_other3.725
r_scbond_it3.677
r_scbond_other3.674
RMS Deviations
KeyRefinement Restraint Deviation
r_dihedral_angle_2_deg31.918
r_dihedral_angle_4_deg24.879
r_dihedral_angle_3_deg12.794
r_dihedral_angle_1_deg5.793
r_scangle_it4.132
r_scangle_other4.13
r_lrange_it3.837
r_lrange_other3.725
r_scbond_it3.677
r_scbond_other3.674
r_rigid_bond_restr2.949
r_mcangle_other2.339
r_mcangle_it2.324
r_mcbond_it2.021
r_mcbond_other1.993
r_angle_refined_deg1.728
r_angle_other_deg1.541
r_symmetry_xyhbond_nbd_refined0.28
r_xyhbond_nbd_refined0.273
r_symmetry_nbd_refined0.256
r_nbd_refined0.246
r_nbd_other0.23
r_symmetry_nbd_other0.18
r_symmetry_xyhbond_nbd_other0.166
r_nbtor_refined0.164
r_chiral_restr0.095
r_symmetry_nbtor_other0.081
r_metal_ion_refined0.077
r_symmetry_metal_ion_refined0.053
r_bond_refined_d0.014
r_gen_planes_refined0.01
r_gen_planes_other0.002
r_bond_other_d0.001
Non-Hydrogen Atoms Used in Refinement
Non-Hydrogen AtomsNumber
Protein Atoms1438
Nucleic Acid Atoms
Solvent Atoms151
Heterogen Atoms10

Software

Software
Software NamePurpose
REFMACrefinement
HKL-2000data reduction
PHENIXphasing