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
2.4449.52

Crystal Data

Unit Cell
Length ( Å )Angle ( ˚ )
a = 47α = 74.65
b = 49.265β = 86.04
c = 83.723γ = 69.41
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
12.380.70999.90.1550.1710.0719.25.73009830098
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)
12.32.421000.6150.6150.2831.15.64378

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 REPLACEMENTTHROUGHOUT4FAM2.380.70928584151499.930.186710.18430.23234RANDOM26.613
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]
-0.040.04-0.020.030.050.06
RMS Deviations
KeyRefinement Restraint Deviation
r_dihedral_angle_2_deg37.02
r_dihedral_angle_4_deg17.489
r_dihedral_angle_3_deg13.318
r_dihedral_angle_1_deg6.912
r_long_range_B_refined6.715
r_long_range_B_other6.694
r_scangle_other4.046
r_mcangle_it3.371
r_mcangle_other3.371
r_scbond_it2.473
RMS Deviations
KeyRefinement Restraint Deviation
r_dihedral_angle_2_deg37.02
r_dihedral_angle_4_deg17.489
r_dihedral_angle_3_deg13.318
r_dihedral_angle_1_deg6.912
r_long_range_B_refined6.715
r_long_range_B_other6.694
r_scangle_other4.046
r_mcangle_it3.371
r_mcangle_other3.371
r_scbond_it2.473
r_scbond_other2.473
r_mcbond_it2.097
r_mcbond_other2.092
r_angle_refined_deg1.829
r_angle_other_deg1.047
r_chiral_restr0.097
r_bond_refined_d0.016
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 Atoms248
Heterogen Atoms164

Software

Software
Software NamePurpose
REFMACrefinement
SCALAdata scaling
PDB_EXTRACTdata extraction