X-RAY DIFFRACTION

Starting Model(s)

Initial Refinement Model(s)
TypeSourceAccession CodeDetails
experimental modelPDB 5HGM 

Crystallization

Crystalization Experiments
IDMethodpHTemperatureDetails
1BATCH MODE277PEG4K
Crystal Properties
Matthews coefficientSolvent content
2.9858.76

Crystal Data

Unit Cell
Length ( Å )Angle ( ˚ )
a = 91.039α = 90
b = 91.039β = 90
c = 56.534γ = 120
Symmetry
Space GroupP 6

Diffraction

Diffraction Experiment
ID #Crystal IDScattering TypeData Collection TemperatureDetectorDetector TypeDetailsCollection DateMonochromatorProtocol
11x-ray100CCDOXFORD RUBY CCD2017-01-03MSINGLE WAVELENGTH
Radiation Source
ID #SourceTypeWavelength ListSynchrotron SiteBeamline
1SYNCHROTRONDIAMOND BEAMLINE I021DiamondI02

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
127810010.89.318217
Highest Resolution Shell
ID #Resolution (High)Resolution (Low)Percent Possible (All)Percent Possible (Observed)Mean I Over Sigma (Observed)RedundancyNumber Unique Reflections (All)
122.03

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 REPLACEMENTTHROUGHOUT5HGM2781735086199.980.182740.180190.23509RANDOM29.017
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]
0.260.130.26-0.86
RMS Deviations
KeyRefinement Restraint Deviation
r_dihedral_angle_2_deg36.193
r_dihedral_angle_4_deg21.203
r_dihedral_angle_3_deg14.335
r_long_range_B_refined7.156
r_long_range_B_other7.074
r_dihedral_angle_1_deg5.777
r_scangle_other5.429
r_mcangle_it3.682
r_mcangle_other3.681
r_scbond_other3.551
RMS Deviations
KeyRefinement Restraint Deviation
r_dihedral_angle_2_deg36.193
r_dihedral_angle_4_deg21.203
r_dihedral_angle_3_deg14.335
r_long_range_B_refined7.156
r_long_range_B_other7.074
r_dihedral_angle_1_deg5.777
r_scangle_other5.429
r_mcangle_it3.682
r_mcangle_other3.681
r_scbond_other3.551
r_scbond_it3.537
r_mcbond_it2.763
r_mcbond_other2.712
r_angle_refined_deg1.908
r_angle_other_deg1.122
r_chiral_restr0.118
r_bond_refined_d0.02
r_gen_planes_refined0.01
r_bond_other_d0.002
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
r_rigid_bond_restr
r_sphericity_free
r_sphericity_bonded
Non-Hydrogen Atoms Used in Refinement
Non-Hydrogen AtomsNumber
Protein Atoms1551
Nucleic Acid Atoms
Solvent Atoms210
Heterogen Atoms31

Software

Software
Software NamePurpose
REFMACrefinement
MOSFLMdata reduction
Aimlessdata scaling
PHASERphasing