4ZB2

A native form of glucose isomerase collected at room temperature.


X-RAY DIFFRACTION

Starting Model(s)

Initial Refinement Model(s)
TypeSourceAccession CodeDetails
experimental modelPDB 1MNZ 

Crystallization

Crystalization Experiments
IDMethodpHTemperatureDetails
1VAPOR DIFFUSION, SITTING DROP72930.1M Hepes, 10% PEG 400, 0.05 M Manganese Chloride, 20% Glucose
Crystal Properties
Matthews coefficientSolvent content
2.7955.88

Crystal Data

Unit Cell
Length ( Å )Angle ( ˚ )
a = 94.074α = 90
b = 99.225β = 90
c = 103.034γ = 90
Symmetry
Space GroupI 2 2 2

Diffraction

Diffraction Experiment
ID #Crystal IDScattering TypeData Collection TemperatureDetectorDetector TypeDetailsCollection DateMonochromatorProtocol
11x-ray293PIXELDECTRIS PILATUS 6M2015-02-09MSINGLE WAVELENGTH
Radiation Source
ID #SourceTypeWavelength ListSynchrotron SiteBeamline
1SYNCHROTRONDIAMOND BEAMLINE I020.9795DiamondI02

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
1269.4799.80.051184.532817
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)
122.199.70.08612.94.6

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 REPLACEMENTTHROUGHOUT1MNZ269.4731116170199.640.107690.105850.13985RANDOM18.462
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]
0.050.48-0.53
RMS Deviations
KeyRefinement Restraint Deviation
r_dihedral_angle_2_deg33.538
r_dihedral_angle_4_deg18.218
r_dihedral_angle_3_deg12.667
r_long_range_B_refined7.482
r_long_range_B_other7.481
r_scangle_other5.541
r_dihedral_angle_1_deg5.391
r_scbond_it3.548
r_scbond_other3.541
r_mcangle_other2.929
RMS Deviations
KeyRefinement Restraint Deviation
r_dihedral_angle_2_deg33.538
r_dihedral_angle_4_deg18.218
r_dihedral_angle_3_deg12.667
r_long_range_B_refined7.482
r_long_range_B_other7.481
r_scangle_other5.541
r_dihedral_angle_1_deg5.391
r_scbond_it3.548
r_scbond_other3.541
r_mcangle_other2.929
r_mcangle_it2.922
r_angle_refined_deg2.109
r_mcbond_other2.009
r_mcbond_it2.008
r_angle_other_deg1.144
r_chiral_restr0.136
r_bond_refined_d0.022
r_gen_planes_refined0.012
r_bond_other_d0.002
r_gen_planes_other0.002
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
r_rigid_bond_restr
r_sphericity_free
r_sphericity_bonded
Non-Hydrogen Atoms Used in Refinement
Non-Hydrogen AtomsNumber
Protein Atoms3045
Nucleic Acid Atoms
Solvent Atoms301
Heterogen Atoms26

Software

Software
Software NamePurpose
REFMACrefinement
xia2data reduction
xia2data scaling
MOLREPphasing