X-RAY DIFFRACTION

Starting Model(s)

Initial Refinement Model(s)
TypeSourceAccession CodeDetails
experimental modelPDB 4HC4 

Crystallization

Crystalization Experiments
IDMethodpHTemperatureDetails
1VAPOR DIFFUSION, HANGING DROP29325 % PEG 1500; 0.1 M MMT pH 8.0
Crystal Properties
Matthews coefficientSolvent content
2.5651.9

Crystal Data

Unit Cell
Length ( Å )Angle ( ˚ )
a = 77.157α = 90
b = 135.616β = 98.91
c = 83.086γ = 90
Symmetry
Space GroupP 1 21 1

Diffraction

Diffraction Experiment
ID #Crystal IDScattering TypeData Collection TemperatureDetectorDetector TypeDetailsCollection DateMonochromatorProtocol
11x-ray100PIXELDECTRIS PILATUS3 6M2015-07-22MSINGLE WAVELENGTH
Radiation Source
ID #SourceTypeWavelength ListSynchrotron SiteBeamline
1SYNCHROTRONBESSY BEAMLINE 14.10.918409BESSY14.1

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
12.155099.20.1458.43.890370
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)
12.152.2896.80.7751.73.9

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 REPLACEMENTTHROUGHOUT4HC42.1541.2688269210199.240.201740.200650.24648RANDOM31.752
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]
-0.190.56-0.120.14
RMS Deviations
KeyRefinement Restraint Deviation
r_dihedral_angle_2_deg38.45
r_dihedral_angle_4_deg20.882
r_dihedral_angle_3_deg16.988
r_dihedral_angle_1_deg7.474
r_long_range_B_refined4.455
r_long_range_B_other4.455
r_angle_refined_deg2.134
r_scangle_other1.777
r_mcangle_it1.462
r_mcangle_other1.462
RMS Deviations
KeyRefinement Restraint Deviation
r_dihedral_angle_2_deg38.45
r_dihedral_angle_4_deg20.882
r_dihedral_angle_3_deg16.988
r_dihedral_angle_1_deg7.474
r_long_range_B_refined4.455
r_long_range_B_other4.455
r_angle_refined_deg2.134
r_scangle_other1.777
r_mcangle_it1.462
r_mcangle_other1.462
r_angle_other_deg1.143
r_scbond_it1.061
r_scbond_other1.061
r_mcbond_it0.85
r_mcbond_other0.85
r_chiral_restr0.125
r_bond_refined_d0.021
r_gen_planes_refined0.01
r_bond_other_d0.003
r_gen_planes_other0.002
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 Atoms10633
Nucleic Acid Atoms
Solvent Atoms405
Heterogen Atoms200

Software

Software
Software NamePurpose
REFMACrefinement
XDSdata reduction
XSCALEdata scaling
PHASERphasing