X-RAY DIFFRACTION

Starting Model(s)

Initial Refinement Model(s)
TypeSourceAccession CodeDetails
experimental modelPDB 1IZPPDB entry 1IZP

Crystallization

Crystalization Experiments
IDMethodpHTemperatureDetails
1VAPOR DIFFUSION, HANGING DROP5.89292Well solution: Combination of Hampton Index Reagents 3 and 9, Final solution: 0.1 M Bis-tris, 1.0 M ammonium sulfate, 1.5 M NaCl, pH 5.89, Drop: 2 microliter well solution + 2 microliter 10 mg/ml protein solution in water, VAPOR DIFFUSION, HANGING DROP, temperature 292K
Crystal Properties
Matthews coefficientSolvent content
2.7655.4

Crystal Data

Unit Cell
Length ( Å )Angle ( ˚ )
a = 64.167α = 90
b = 64.167β = 90
c = 63.626γ = 120
Symmetry
Space GroupP 32 2 1

Diffraction

Diffraction Experiment
ID #Crystal IDScattering TypeData Collection TemperatureDetectorDetector TypeDetailsCollection DateMonochromatorProtocol
11x-ray77CCDMARMOSAIC 300 mm CCD2006-08-15MSINGLE WAVELENGTH
Radiation Source
ID #SourceTypeWavelength ListSynchrotron SiteBeamline
1SYNCHROTRONAPS BEAMLINE 22-ID0.90020APS22-ID

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
11.055069871

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 1IZP1.052066348352398.580.193290.19250.20783RANDOM15.424
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]
-0.33-0.17-0.330.5
RMS Deviations
KeyRefinement Restraint Deviation
r_dihedral_angle_2_deg38.465
r_dihedral_angle_4_deg19.959
r_dihedral_angle_3_deg11.869
r_sphericity_bonded6.785
r_dihedral_angle_1_deg6.333
r_scangle_it3.53
r_scbond_it2.719
r_mcangle_it2.507
r_rigid_bond_restr1.833
r_mcbond_it1.804
RMS Deviations
KeyRefinement Restraint Deviation
r_dihedral_angle_2_deg38.465
r_dihedral_angle_4_deg19.959
r_dihedral_angle_3_deg11.869
r_sphericity_bonded6.785
r_dihedral_angle_1_deg6.333
r_scangle_it3.53
r_scbond_it2.719
r_mcangle_it2.507
r_rigid_bond_restr1.833
r_mcbond_it1.804
r_angle_refined_deg1.57
r_nbtor_refined0.298
r_nbd_refined0.216
r_symmetry_vdw_refined0.211
r_xyhbond_nbd_refined0.158
r_symmetry_hbond_refined0.156
r_chiral_restr0.106
r_bond_refined_d0.014
r_gen_planes_refined0.01
r_bond_other_d
r_angle_other_deg
r_gen_planes_other
r_nbd_other
r_nbtor_other
r_xyhbond_nbd_other
r_metal_ion_refined
r_metal_ion_other
r_symmetry_vdw_other
r_symmetry_hbond_other
r_symmetry_metal_ion_refined
r_symmetry_metal_ion_other
r_mcbond_other
r_sphericity_free
Non-Hydrogen Atoms Used in Refinement
Non-Hydrogen AtomsNumber
Protein Atoms984
Nucleic Acid Atoms
Solvent Atoms182
Heterogen Atoms3

Software

Software
Software NamePurpose
REFMACrefinement