4BAT

Structure of a putative epoxide hydrolase t131d mutant from Pseudomonas aeruginosa.


X-RAY DIFFRACTION

Starting Model(s)

Initial Refinement Model(s)
TypeSourceAccession CodeDetails
experimental modelPDB 4B9APDB ENTRY 4B9A

Crystallization

Crystalization Experiments
IDMethodpHTemperatureDetails
18.50.1 M LI2SO4, 1.25 M (NH4)2SO4, 0.1 M TRISCL PH 8.5
Crystal Properties
Matthews coefficientSolvent content
3.6766.5

Crystal Data

Unit Cell
Length ( Å )Angle ( ˚ )
a = 83.88α = 90
b = 83.88β = 90
c = 140.72γ = 90
Symmetry
Space GroupP 41 21 2

Diffraction

Diffraction Experiment
ID #Crystal IDScattering TypeData Collection TemperatureDetectorDetector TypeDetailsCollection DateMonochromatorProtocol
11x-ray100CCDMARRESEARCH2012-02-03MSINGLE WAVELENGTH
Radiation Source
ID #SourceTypeWavelength ListSynchrotron SiteBeamline
1SYNCHROTRONBESSY BEAMLINE 14.1BESSY14.1

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
11.372.061000.1310.87.712344228.5
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)
11.31.371000.952.17.5

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 4B9A1.323.37117206619399.970.122690.121630.14268RANDOM14.608
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]
0.110.11-0.23
RMS Deviations
KeyRefinement Restraint Deviation
r_sphericity_free42.664
r_dihedral_angle_2_deg30.062
r_dihedral_angle_4_deg18.947
r_dihedral_angle_3_deg11.359
r_sphericity_bonded11.285
r_dihedral_angle_1_deg5.186
r_rigid_bond_restr3.692
r_angle_refined_deg1.659
r_angle_other_deg0.999
r_symmetry_vdw_refined0.293
RMS Deviations
KeyRefinement Restraint Deviation
r_sphericity_free42.664
r_dihedral_angle_2_deg30.062
r_dihedral_angle_4_deg18.947
r_dihedral_angle_3_deg11.359
r_sphericity_bonded11.285
r_dihedral_angle_1_deg5.186
r_rigid_bond_restr3.692
r_angle_refined_deg1.659
r_angle_other_deg0.999
r_symmetry_vdw_refined0.293
r_nbd_refined0.275
r_xyhbond_nbd_refined0.235
r_nbd_other0.233
r_nbtor_refined0.187
r_symmetry_vdw_other0.163
r_xyhbond_nbd_other0.159
r_symmetry_hbond_refined0.123
r_nbtor_other0.109
r_chiral_restr0.107
r_bond_refined_d0.014
r_gen_planes_refined0.01
r_bond_other_d0.001
r_gen_planes_other0.001
r_metal_ion_refined
r_metal_ion_other
r_symmetry_hbond_other
r_symmetry_metal_ion_refined
r_symmetry_metal_ion_other
r_mcbond_it
r_mcbond_other
r_mcangle_it
r_mcangle_other
r_scbond_it
r_scbond_other
r_scangle_it
r_scangle_other
r_long_range_B_refined
r_long_range_B_other
Non-Hydrogen Atoms Used in Refinement
Non-Hydrogen AtomsNumber
Protein Atoms2335
Nucleic Acid Atoms
Solvent Atoms462
Heterogen Atoms53

Software

Software
Software NamePurpose
REFMACrefinement
MOSFLMdata reduction
SCALAdata scaling
PHASERphasing