1H41

Pseudomonas cellulosa E292A alpha-D-glucuronidase mutant complexed with aldotriuronic acid


X-RAY DIFFRACTION

Starting Model(s)

Initial Refinement Model(s)
TypeSourceAccession CodeDetails
experimental modelPDB 1GQIPDB ENTRY 1GQI

Crystallization

Crystalization Experiments
IDMethodpHTemperatureDetails
1815% PEG3350, 250MM MGCL2, 5MM TRIS-HCL PH8.0, 20% GLYCEROL, pH 8.00
Crystal Properties
Matthews coefficientSolvent content
2.448.5

Crystal Data

Unit Cell
Length ( Å )Angle ( ˚ )
a = 69.412α = 115.09
b = 74.393β = 93.04
c = 87.462γ = 109.44
Symmetry
Space GroupP 1

Diffraction

Diffraction Experiment
ID #Crystal IDScattering TypeData Collection TemperatureDetectorDetector TypeDetailsCollection DateMonochromatorProtocol
11x-ray100CCDADSC CCD2001-12-15MSINGLE WAVELENGTH
Radiation Source
ID #SourceTypeWavelength ListSynchrotron SiteBeamline
1SYNCHROTRONESRF BEAMLINE ID14-4ESRFID14-4

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
11.52091.20.04120.062.7212953
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)
11.51.5352.90.2154.232.5

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 1GQI1.520211429167991.20.1180.1180.153RANDOM12.76
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]
1.03-0.05-0.45-0.71-0.48-0.8
RMS Deviations
KeyRefinement Restraint Deviation
r_dihedral_angle_2_deg33.375
r_dihedral_angle_4_deg19.95
r_dihedral_angle_3_deg12.645
r_dihedral_angle_1_deg5.897
r_scangle_it3.955
r_scbond_it2.744
r_angle_other_deg2.205
r_mcangle_it1.968
r_mcbond_it1.363
r_symmetry_vdw_other0.33
RMS Deviations
KeyRefinement Restraint Deviation
r_dihedral_angle_2_deg33.375
r_dihedral_angle_4_deg19.95
r_dihedral_angle_3_deg12.645
r_dihedral_angle_1_deg5.897
r_scangle_it3.955
r_scbond_it2.744
r_angle_other_deg2.205
r_mcangle_it1.968
r_mcbond_it1.363
r_symmetry_vdw_other0.33
r_nbd_other0.263
r_nbd_refined0.229
r_symmetry_vdw_refined0.139
r_symmetry_hbond_refined0.139
r_chiral_restr0.124
r_xyhbond_nbd_refined0.12
r_nbtor_other0.107
r_metal_ion_refined0.069
r_gen_planes_refined0.009
r_gen_planes_other0.004
r_bond_other_d0.003
r_bond_refined_d
r_angle_refined_deg
r_nbtor_refined
r_xyhbond_nbd_other
r_metal_ion_other
r_symmetry_hbond_other
r_symmetry_metal_ion_refined
r_symmetry_metal_ion_other
r_mcbond_other
r_mcangle_other
r_scbond_other
r_scangle_other
r_long_range_B_refined
r_long_range_B_other
r_rigid_bond_restr
r_sphericity_free
r_sphericity_bonded
Non-Hydrogen Atoms Used in Refinement
Non-Hydrogen AtomsNumber
Protein Atoms11233
Nucleic Acid Atoms
Solvent Atoms1667
Heterogen Atoms150

Software

Software
Software NamePurpose
REFMACrefinement
DENZOdata reduction
SCALEPACKdata scaling