X-RAY DIFFRACTION

Starting Model(s)

Initial Refinement Model(s)
TypeSourceAccession CodeDetails
experimental modelPDB 4JHP 

Crystallization

Crystalization Experiments
IDMethodpHTemperatureDetails
1VAPOR DIFFUSION2910.1M TRIS PH 9.0, 0.1M NAOAC PH 5.1, 8% PEG8000, 15% 2-PROPANOL, VAPOR DIFFUSION, TEMPERATURE 291K
Crystal Properties
Matthews coefficientSolvent content
1.9938.17

Crystal Data

Unit Cell
Length ( Å )Angle ( ˚ )
a = 27.662α = 90
b = 56.534β = 90
c = 89.101γ = 90
Symmetry
Space GroupP 21 21 21

Diffraction

Diffraction Experiment
ID #Crystal IDScattering TypeData Collection TemperatureDetectorDetector TypeDetailsCollection DateMonochromatorProtocol
11x-ray100PIXELPSI PILATUS 6M2012-07-29MSINGLE WAVELENGTH
Radiation Source
ID #SourceTypeWavelength ListSynchrotron SiteBeamline
1SYNCHROTRONESRF BEAMLINE ID290.979080ESRFID29

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
11.8147.7499.610.45.313356
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)
11.811.9199.80.6492.35.4

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 REPLACEMENTTHROUGHOUT4JHP1.8147.741265565499.460.184460.183030.21368RANDOM26.089
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]
1.84-2.070.22
RMS Deviations
KeyRefinement Restraint Deviation
r_dihedral_angle_2_deg38.902
r_sphericity_free19.787
r_dihedral_angle_4_deg16.622
r_dihedral_angle_3_deg13.446
r_sphericity_bonded6.212
r_dihedral_angle_1_deg6.137
r_long_range_B_refined2.194
r_long_range_B_other1.988
r_rigid_bond_restr1.538
r_scangle_other1.495
RMS Deviations
KeyRefinement Restraint Deviation
r_dihedral_angle_2_deg38.902
r_sphericity_free19.787
r_dihedral_angle_4_deg16.622
r_dihedral_angle_3_deg13.446
r_sphericity_bonded6.212
r_dihedral_angle_1_deg6.137
r_long_range_B_refined2.194
r_long_range_B_other1.988
r_rigid_bond_restr1.538
r_scangle_other1.495
r_scbond_it1.357
r_scbond_other1.356
r_mcangle_it1.162
r_mcangle_other1.161
r_angle_refined_deg1.08
r_mcbond_it0.913
r_mcbond_other0.891
r_angle_other_deg0.78
r_chiral_restr0.069
r_bond_refined_d0.008
r_bond_other_d0.003
r_gen_planes_refined0.003
r_gen_planes_other0.001
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
Non-Hydrogen Atoms Used in Refinement
Non-Hydrogen AtomsNumber
Protein Atoms1194
Nucleic Acid Atoms
Solvent Atoms85
Heterogen Atoms

Software

Software
Software NamePurpose
REFMACrefinement
XDSdata reduction
SCALAdata scaling
PHASERphasing