X-RAY DIFFRACTION

Starting Model(s)

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

Crystallization

Crystalization Experiments
IDMethodpHTemperatureDetails
1VAPOR DIFFUSION, HANGING DROP8.5291Tris/Acetate 0.1M, MgCl2 0.2M, PEG 8000 24%
Crystal Properties
Matthews coefficientSolvent content
2.2745.71

Crystal Data

Unit Cell
Length ( Å )Angle ( ˚ )
a = 36.86α = 95.76
b = 55.83β = 95.13
c = 69.23γ = 108.46
Symmetry
Space GroupP 1

Diffraction

Diffraction Experiment
ID #Crystal IDScattering TypeData Collection TemperatureDetectorDetector TypeDetailsCollection DateMonochromatorProtocol
11x-ray100CCDADSC QUANTUM 210r2015-02-24MSINGLE WAVELENGTH
Radiation Source
ID #SourceTypeWavelength ListSynchrotron SiteBeamline
1SYNCHROTRONAUSTRALIAN SYNCHROTRON BEAMLINE MX10.9537Australian SynchrotronMX1

Data Collection

Overall
ID #Resolution (High)Resolution (Low)Percent Possible (Observed)R Merge I (Observed)Rrim I (All)Rpim I (All)CC (Half)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
11.6534.6791.20.0860.10.0510.99810.93.95670416.3
Highest Resolution Shell
ID #Resolution (High)Resolution (Low)Percent Possible (All)Percent Possible (Observed)R Merge I (Observed)Rrim I (All)Rpim I (All)CC (Half)Mean I Over Sigma (Observed)RedundancyNumber Unique Reflections (All)
11.651.6889.80.8681.010.5150.6483.8

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 REPLACEMENTTHROUGHOUT4DNP1.6530.4253834286891.230.16970.16810.2002RANDOM21.885
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]
0.45-0.330.15-0.97-0.180.92
RMS Deviations
KeyRefinement Restraint Deviation
r_dihedral_angle_2_deg29.976
r_dihedral_angle_4_deg17.912
r_dihedral_angle_3_deg11.763
r_dihedral_angle_1_deg5.812
r_angle_refined_deg1.451
r_angle_other_deg1.212
r_chiral_restr0.087
r_bond_refined_d0.011
r_gen_planes_other0.009
r_gen_planes_refined0.008
RMS Deviations
KeyRefinement Restraint Deviation
r_dihedral_angle_2_deg29.976
r_dihedral_angle_4_deg17.912
r_dihedral_angle_3_deg11.763
r_dihedral_angle_1_deg5.812
r_angle_refined_deg1.451
r_angle_other_deg1.212
r_chiral_restr0.087
r_bond_refined_d0.011
r_gen_planes_other0.009
r_gen_planes_refined0.008
r_bond_other_d0.006
Non-Hydrogen Atoms Used in Refinement
Non-Hydrogen AtomsNumber
Protein Atoms4154
Nucleic Acid Atoms
Solvent Atoms485
Heterogen Atoms36

Software

Software
Software NamePurpose
iMOSFLMdata processing
Aimlessdata scaling
PHASERphasing
REFMACrefinement
PDB_EXTRACTdata extraction