X-RAY DIFFRACTION

Starting Model(s)

Initial Refinement Model(s)
TypeSourceAccession CodeDetails
experimental modelPDB 2FNEPDB ENTRY 2FNE

Crystallization

Crystalization Experiments
IDMethodpHTemperatureDetails
1VAPOR DIFFUSION, SITTING DROP5.52930.2 M Ammonium-acetate, 0.1 M Bis-Tris, 20% PEG3350, pH 5.5, VAPOR DIFFUSION, SITTING DROP, temperature 293K
Crystal Properties
Matthews coefficientSolvent content
1.7529.61

Crystal Data

Unit Cell
Length ( Å )Angle ( ˚ )
a = 79.588α = 90
b = 37.257β = 95.75
c = 29.442γ = 90
Symmetry
Space GroupC 1 2 1

Diffraction

Diffraction Experiment
ID #Crystal IDScattering TypeData Collection TemperatureDetectorDetector TypeDetailsCollection DateMonochromatorProtocol
11x-ray100CCDMARRESEARCHmirrors2006-05-06MSINGLE WAVELENGTH
Radiation Source
ID #SourceTypeWavelength ListSynchrotron SiteBeamline
1SYNCHROTRONSLS BEAMLINE X10SA0.97925SLSX10SA

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
11.1229.398.40.05653334632802
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)
11.121.2294.80.01267.973.047289

Refinement

Statistics
Diffraction IDStructure Solution MethodCross Validation methodStarting modelResolution (High)Resolution (Low)Number Reflections (All)Number Reflections (Observed)Number Reflections (R-Free)Percent Reflections (Observed)R-Factor (All)R-Factor (Observed)R-WorkR-FreeR-Free Selection DetailsMean Isotropic B
X-RAY DIFFRACTIONMOLECULAR REPLACEMENTTHROUGHOUTPDB ENTRY 2FNE1.1229.33334631143165998.490.150070.150070.149110.16865RANDOM9.872
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]
-0.15-0.11-0.030.15
RMS Deviations
KeyRefinement Restraint Deviation
r_dihedral_angle_2_deg32.729
r_dihedral_angle_4_deg23.812
r_dihedral_angle_3_deg9.157
r_sphericity_free6.72
r_dihedral_angle_1_deg6.217
r_scangle_it5.449
r_sphericity_bonded4.632
r_scbond_it4.356
r_mcangle_it3.608
r_mcbond_it3.019
RMS Deviations
KeyRefinement Restraint Deviation
r_dihedral_angle_2_deg32.729
r_dihedral_angle_4_deg23.812
r_dihedral_angle_3_deg9.157
r_sphericity_free6.72
r_dihedral_angle_1_deg6.217
r_scangle_it5.449
r_sphericity_bonded4.632
r_scbond_it4.356
r_mcangle_it3.608
r_mcbond_it3.019
r_rigid_bond_restr2.702
r_mcbond_other2.445
r_angle_refined_deg1.332
r_angle_other_deg0.878
r_symmetry_vdw_other0.238
r_nbd_refined0.211
r_nbd_other0.174
r_nbtor_refined0.174
r_xyhbond_nbd_refined0.166
r_symmetry_hbond_refined0.163
r_symmetry_vdw_refined0.111
r_nbtor_other0.092
r_chiral_restr0.081
r_bond_refined_d0.01
r_gen_planes_refined0.006
r_bond_other_d0.001
r_gen_planes_other0.001
Non-Hydrogen Atoms Used in Refinement
Non-Hydrogen AtomsNumber
Protein Atoms667
Nucleic Acid Atoms
Solvent Atoms144
Heterogen Atoms

Software

Software
Software NamePurpose
REFMACrefinement
MAR345data collection
HKL-2000data scaling
PHASERphasing