X-RAY DIFFRACTION

Starting Model(s)

Initial Refinement Model(s)
TypeSourceAccession CodeDetails
experimental modelPDB 3DM1 

Crystallization

Crystalization Experiments
IDMethodpHTemperatureDetails
1VAPOR DIFFUSION7.525%PEG400, 0.2M MgCl2, 0.1M Hepes 7.5, VAPOR DIFFUSION
Crystal Properties
Matthews coefficientSolvent content
3.1260.53

Crystal Data

Unit Cell
Length ( Å )Angle ( ˚ )
a = 50.665α = 90
b = 50.665β = 90
c = 123.538γ = 120
Symmetry
Space GroupP 65

Diffraction

Diffraction Experiment
ID #Crystal IDScattering TypeData Collection TemperatureDetectorDetector TypeDetailsCollection DateMonochromatorProtocol
11x-ray100CCDADSC QUANTUM 3152009-12-16MSINGLE WAVELENGTH
Radiation Source
ID #SourceTypeWavelength ListSynchrotron SiteBeamline
1SYNCHROTRONAPS BEAMLINE 19-ID0.9794APS19-ID

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
12.055099.70.0768.411.311280
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)
12.052.0999.60.85311.2551

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 REPLACEMENTTHROUGHOUT3DM12.0543.881124953799.880.220.2170.283RANDOM36.832
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]
0.580.290.58-0.87
RMS Deviations
KeyRefinement Restraint Deviation
r_dihedral_angle_2_deg38.989
r_dihedral_angle_4_deg26.161
r_dihedral_angle_3_deg17.171
r_dihedral_angle_1_deg6.391
r_scangle_it5.286
r_scbond_it3.172
r_mcangle_it2.021
r_angle_refined_deg1.563
r_mcbond_it1.115
r_chiral_restr0.113
RMS Deviations
KeyRefinement Restraint Deviation
r_dihedral_angle_2_deg38.989
r_dihedral_angle_4_deg26.161
r_dihedral_angle_3_deg17.171
r_dihedral_angle_1_deg6.391
r_scangle_it5.286
r_scbond_it3.172
r_mcangle_it2.021
r_angle_refined_deg1.563
r_mcbond_it1.115
r_chiral_restr0.113
r_bond_refined_d0.018
r_gen_planes_refined0.007
Non-Hydrogen Atoms Used in Refinement
Non-Hydrogen AtomsNumber
Protein Atoms986
Nucleic Acid Atoms
Solvent Atoms67
Heterogen Atoms

Software

Software
Software NamePurpose
DENZOdata reduction
SCALEPACKdata scaling
MOLREPphasing
REFMACrefinement
PDB_EXTRACTdata extraction
HKL-3000data reduction