X-RAY DIFFRACTION

Starting Model(s)

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

Crystallization

Crystalization Experiments
IDMethodpHTemperatureDetails
1VAPOR DIFFUSION, HANGING DROP628915-20% (w/v) PEG 8000, 100 mM MES, 0.14M NaCl
Crystal Properties
Matthews coefficientSolvent content
2.4149.06

Crystal Data

Unit Cell
Length ( Å )Angle ( ˚ )
a = 47.103α = 74.49
b = 48.973β = 86.64
c = 83.367γ = 69.44
Symmetry
Space GroupP 1

Diffraction

Diffraction Experiment
ID #Crystal IDScattering TypeData Collection TemperatureDetectorDetector TypeDetailsCollection DateMonochromatorProtocol
11x-ray100CCDOXFORD ONYX CCD2014-12-26MSINGLE WAVELENGTH
Radiation Source
ID #SourceTypeWavelength ListSynchrotron SiteBeamline
1SEALED TUBEOXFORD DIFFRACTION ENHANCE ULTRA1.5418

Data Collection

Overall
ID #Resolution (High)Resolution (Low)Percent Possible (Observed)R Sym I (Observed)Rrim I (All)Rpim I (All)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
12.380.26999.90.1840.20.0779.66.52982929829
Highest Resolution Shell
ID #Resolution (High)Resolution (Low)Percent Possible (All)Percent Possible (Observed)R Merge I (Observed)R-Sym I (Observed)Rpim I (All)Mean I Over Sigma (Observed)RedundancyNumber Unique Reflections (All)
12.32.421000.6260.6260.2640.96.44342

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 REPLACEMENTTHROUGHOUT4FAM2.380.26928296151099.860.201130.198420.25341RANDOM27.935
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]
-0.040.030.02-0.040.010.1
RMS Deviations
KeyRefinement Restraint Deviation
r_dihedral_angle_2_deg38.683
r_dihedral_angle_4_deg14.35
r_dihedral_angle_3_deg13.858
r_dihedral_angle_1_deg6.423
r_long_range_B_refined6.044
r_long_range_B_other5.958
r_scangle_other3.958
r_mcangle_it3.026
r_mcangle_other3.026
r_scbond_it2.428
RMS Deviations
KeyRefinement Restraint Deviation
r_dihedral_angle_2_deg38.683
r_dihedral_angle_4_deg14.35
r_dihedral_angle_3_deg13.858
r_dihedral_angle_1_deg6.423
r_long_range_B_refined6.044
r_long_range_B_other5.958
r_scangle_other3.958
r_mcangle_it3.026
r_mcangle_other3.026
r_scbond_it2.428
r_scbond_other2.428
r_mcbond_it1.907
r_mcbond_other1.902
r_angle_refined_deg1.704
r_angle_other_deg1.012
r_chiral_restr0.091
r_bond_refined_d0.014
r_gen_planes_refined0.008
r_bond_other_d0.002
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 Atoms5048
Nucleic Acid Atoms
Solvent Atoms328
Heterogen Atoms136

Software

Software
Software NamePurpose
REFMACrefinement
SCALAdata scaling
PDB_EXTRACTdata extraction