5EHT

Indirect contributions of mutations underlie optimization of new enzyme function


X-RAY DIFFRACTION

Crystallization

Crystalization Experiments
IDMethodpHTemperatureDetails
1VAPOR DIFFUSION, HANGING DROP8.529125% (w/v) PEG 4 K, 20% (v/v) glycerol, 80 mM Tris-HCl, pH 8.5, 160 mM MgCl2
Crystal Properties
Matthews coefficientSolvent content
2.1442.42

Crystal Data

Unit Cell
Length ( Å )Angle ( ˚ )
a = 54.638α = 90
b = 55.735β = 90
c = 79.878γ = 90
Symmetry
Space GroupP 21 21 21

Diffraction

Diffraction Experiment
ID #Crystal IDScattering TypeData Collection TemperatureDetectorDetector TypeDetailsCollection DateMonochromatorProtocol
11x-ray100CCDADSC QUANTUM 315r2015-02-10MSINGLE WAVELENGTH
Radiation Source
ID #SourceTypeWavelength ListSynchrotron SiteBeamline
1SYNCHROTRONAUSTRALIAN SYNCHROTRON BEAMLINE MX21.0332Australian SynchrotronMX2

Data Collection

Overall
ID #Resolution (High)Resolution (Low)Percent Possible (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
11.2932.4999.4720.7813.461760

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 5EH91.2932.4958628313299.470.127960.125810.16805RANDOM22.115
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]
-0.741.24-0.5
RMS Deviations
KeyRefinement Restraint Deviation
r_sphericity_free72.304
r_dihedral_angle_2_deg30.809
r_dihedral_angle_4_deg23.563
r_sphericity_bonded20.871
r_dihedral_angle_3_deg12.204
r_long_range_B_refined8.875
r_long_range_B_other8.875
r_dihedral_angle_1_deg7.308
r_rigid_bond_restr6.451
r_scangle_other6.062
RMS Deviations
KeyRefinement Restraint Deviation
r_sphericity_free72.304
r_dihedral_angle_2_deg30.809
r_dihedral_angle_4_deg23.563
r_sphericity_bonded20.871
r_dihedral_angle_3_deg12.204
r_long_range_B_refined8.875
r_long_range_B_other8.875
r_dihedral_angle_1_deg7.308
r_rigid_bond_restr6.451
r_scangle_other6.062
r_scbond_other5.492
r_scbond_it5.485
r_mcangle_it3.791
r_mcangle_other3.791
r_mcbond_it3.22
r_mcbond_other3.215
r_angle_refined_deg2.203
r_angle_other_deg1.292
r_chiral_restr0.143
r_bond_refined_d0.026
r_gen_planes_refined0.014
r_gen_planes_other0.014
r_bond_other_d0.002
r_nbd_refined
r_nbd_other
r_nbtor_refined
r_nbtor_other
r_xyhbond_nbd_refined
r_xyhbond_nbd_other
r_metal_ion_refined
r_metal_ion_other
r_symmetry_vdw_refined
r_symmetry_vdw_other
r_symmetry_hbond_refined
r_symmetry_hbond_other
r_symmetry_metal_ion_refined
r_symmetry_metal_ion_other
r_scangle_it
Non-Hydrogen Atoms Used in Refinement
Non-Hydrogen AtomsNumber
Protein Atoms2002
Nucleic Acid Atoms
Solvent Atoms247
Heterogen Atoms38

Software

Software
Software NamePurpose
REFMACrefinement
XDSdata reduction
Aimlessdata scaling
MOLREPphasing