X-RAY DIFFRACTION

Starting Model(s)

Initial Refinement Model(s)
TypeSourceAccession CodeDetails
experimental modelPDB 4C9ZPDB ENTRY 4C9Z

Crystallization

Crystalization Experiments
IDMethodpHTemperatureDetails
1CRYSTALS GREW FROM EQUAL VOLUMES OF PROTEIN SOLUTION (15 MG ML-1 IN 15 MM TRIS-HCL PH7.5, 30 MM NACL AND 10 MM DTT) AND RESERVOIR SOLUTION (100 MM HEPES PH7.0, 1.45 LI2SO4).
Crystal Properties
Matthews coefficientSolvent content
2.9959

Crystal Data

Unit Cell
Length ( Å )Angle ( ˚ )
a = 76.06α = 90
b = 104.12β = 90
c = 133.59γ = 90
Symmetry
Space GroupI 2 2 2

Diffraction

Diffraction Experiment
ID #Crystal IDScattering TypeData Collection TemperatureDetectorDetector TypeDetailsCollection DateMonochromatorProtocol
11x-ray287PIXELDECTRIS PILATUS 6M2012-12-05MSINGLE WAVELENGTH
Radiation Source
ID #SourceTypeWavelength ListSynchrotron SiteBeamline
1SYNCHROTRONDIAMOND BEAMLINE I03DiamondI03

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
11.5852.061000.0516.14.9727382
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)
11.581.671000.483.54.8

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 4C9Z1.5852.1169071366699.950.143150.140750.18907RANDOM30.821
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]
-0.23-0.730.97
RMS Deviations
KeyRefinement Restraint Deviation
r_dihedral_angle_2_deg40.065
r_sphericity_free30.633
r_dihedral_angle_4_deg22.873
r_sphericity_bonded22.131
r_dihedral_angle_3_deg15.895
r_rigid_bond_restr10.043
r_dihedral_angle_1_deg6.345
r_angle_refined_deg2.335
r_chiral_restr0.171
r_bond_refined_d0.023
RMS Deviations
KeyRefinement Restraint Deviation
r_dihedral_angle_2_deg40.065
r_sphericity_free30.633
r_dihedral_angle_4_deg22.873
r_sphericity_bonded22.131
r_dihedral_angle_3_deg15.895
r_rigid_bond_restr10.043
r_dihedral_angle_1_deg6.345
r_angle_refined_deg2.335
r_chiral_restr0.171
r_bond_refined_d0.023
r_gen_planes_refined0.012
r_bond_other_d
r_angle_other_deg
r_gen_planes_other
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_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 Atoms2975
Nucleic Acid Atoms
Solvent Atoms331
Heterogen Atoms104

Software

Software
Software NamePurpose
REFMACrefinement
iMOSFLMdata reduction
Aimlessdata scaling
PHASERphasing