X-RAY DIFFRACTION

Starting Model(s)

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

Crystallization

Crystalization Experiments
IDMethodpHTemperatureDetails
1VAPOR DIFFUSION, HANGING DROP7.52930.1 M HEPES pH 7.5, 0.2 M KSCN, 12% PEG 3350
Crystal Properties
Matthews coefficientSolvent content
2.8657.02

Crystal Data

Unit Cell
Length ( Å )Angle ( ˚ )
a = 149.34α = 90
b = 95.98β = 110.48
c = 128.51γ = 90
Symmetry
Space GroupC 1 2 1

Diffraction

Diffraction Experiment
ID #Crystal IDScattering TypeData Collection TemperatureDetectorDetector TypeDetailsCollection DateMonochromatorProtocol
11x-ray100CCDMARMOSAIC 225 mm CCD2010-08-18MSINGLE WAVELENGTH
Radiation Source
ID #SourceTypeWavelength ListSynchrotron SiteBeamline
1SYNCHROTRONSLS BEAMLINE X06DA1.0SLSX06DA

Data Collection

Overall
ID #Resolution (High)Resolution (Low)Percent Possible (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
11.85098.811.74.115528030.7
Highest Resolution Shell
ID #Resolution (High)Resolution (Low)Percent Possible (All)Percent Possible (Observed)Mean I Over Sigma (Observed)RedundancyNumber Unique Reflections (All)
11.81.8588.51.5

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 REPLACEMENTTHROUGHOUT3NXG1.850147490779098.820.161090.159790.18584RANDOM26.921
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]
0.16-0.030.51-0.51
RMS Deviations
KeyRefinement Restraint Deviation
r_dihedral_angle_2_deg33.097
r_dihedral_angle_4_deg14.922
r_dihedral_angle_3_deg11.973
r_dihedral_angle_1_deg6.763
r_long_range_B_refined6.314
r_long_range_B_other6.314
r_scangle_other4.162
r_scbond_other3.08
r_scbond_it3.079
r_mcangle_it2.193
RMS Deviations
KeyRefinement Restraint Deviation
r_dihedral_angle_2_deg33.097
r_dihedral_angle_4_deg14.922
r_dihedral_angle_3_deg11.973
r_dihedral_angle_1_deg6.763
r_long_range_B_refined6.314
r_long_range_B_other6.314
r_scangle_other4.162
r_scbond_other3.08
r_scbond_it3.079
r_mcangle_it2.193
r_mcangle_other2.193
r_mcbond_it1.706
r_mcbond_other1.705
r_angle_refined_deg1.269
r_angle_other_deg0.729
r_chiral_restr0.073
r_bond_refined_d0.007
r_gen_planes_refined0.005
r_bond_other_d0.001
r_gen_planes_other0.001
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 Atoms10033
Nucleic Acid Atoms
Solvent Atoms873
Heterogen Atoms112

Software

Software
Software NamePurpose
REFMACrefinement
Cootmodel building
XDSdata reduction
XSCALEdata scaling
PHASERphasing