X-RAY DIFFRACTION

Starting Model(s)

Initial Refinement Model(s)
TypeSourceAccession CodeDetails
experimental modelPDB 2VZ7 

Crystallization

Crystalization Experiments
IDMethodpHTemperatureDetails
1VAPOR DIFFUSION, HANGING DROP5.6291PEG 8000, ammonium sulfate, cacodylate
Crystal Properties
Matthews coefficientSolvent content
2.1341.92

Crystal Data

Unit Cell
Length ( Å )Angle ( ˚ )
a = 60.42α = 90
b = 60.42β = 90
c = 190.82γ = 120
Symmetry
Space GroupP 31 2 1

Diffraction

Diffraction Experiment
ID #Crystal IDScattering TypeData Collection TemperatureDetectorDetector TypeDetailsCollection DateMonochromatorProtocol
11x-ray100CCDADSC QUANTUM 315r2012-05-17MSINGLE WAVELENGTH
Radiation Source
ID #SourceTypeWavelength ListSynchrotron SiteBeamline
1SYNCHROTRONESRF BEAMLINE ID14-40.9393ESRFID14-4

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
11.8535.399.40.068.685.58352922
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)
11.851.951000.273.775.77

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 REPLACEMENTTHROUGHOUT2VZ71.8535.333523176799.290.174670.172210.21876RANDOM30.084
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]
-0.16-0.08-0.160.51
RMS Deviations
KeyRefinement Restraint Deviation
r_dihedral_angle_2_deg30.747
r_dihedral_angle_4_deg19.286
r_dihedral_angle_3_deg14.268
r_long_range_B_refined6.621
r_long_range_B_other6.62
r_dihedral_angle_1_deg6.001
r_scangle_other5.132
r_mcangle_other3.716
r_mcangle_it3.714
r_scbond_other3.44
RMS Deviations
KeyRefinement Restraint Deviation
r_dihedral_angle_2_deg30.747
r_dihedral_angle_4_deg19.286
r_dihedral_angle_3_deg14.268
r_long_range_B_refined6.621
r_long_range_B_other6.62
r_dihedral_angle_1_deg6.001
r_scangle_other5.132
r_mcangle_other3.716
r_mcangle_it3.714
r_scbond_other3.44
r_scbond_it3.439
r_mcbond_it2.804
r_mcbond_other2.804
r_angle_refined_deg2
r_angle_other_deg0.963
r_chiral_restr0.127
r_bond_refined_d0.02
r_gen_planes_refined0.011
r_gen_planes_other0.005
r_bond_other_d0.001
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 Atoms2995
Nucleic Acid Atoms
Solvent Atoms244
Heterogen Atoms44

Software

Software
Software NamePurpose
REFMACrefinement
iMOSFLMdata reduction
SCALAdata scaling
MOLREPphasing