X-RAY DIFFRACTION

Starting Model(s)

Initial Refinement Model(s)
TypeSourceAccession CodeDetails
experimental modelPDB 1N45 

Crystallization

Crystalization Experiments
IDMethodpHTemperatureDetails
1VAPOR DIFFUSION, HANGING DROP7.4293100 mM HEPES, pH 7.4; 2.1 M (NH4)2SO4; 0.9% 1,6-hexane-diol; BIG_CHAP
Crystal Properties
Matthews coefficientSolvent content
1.8332.69

Crystal Data

Unit Cell
Length ( Å )Angle ( ˚ )
a = 74.08α = 90
b = 54.41β = 99.09
c = 122.28γ = 90
Symmetry
Space GroupP 1 21 1

Diffraction

Diffraction Experiment
ID #Crystal IDScattering TypeData Collection TemperatureDetectorDetector TypeDetailsCollection DateMonochromatorProtocol
11x-ray100CCDADSC QUANTUM 3152014-06-28MSINGLE WAVELENGTH
Radiation Source
ID #SourceTypeWavelength ListSynchrotron SiteBeamline
1SYNCHROTRONPHOTON FACTORY BEAMLINE BL-5A1.000Photon FactoryBL-5A

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
12.9574.197.48.76.620111
Highest Resolution Shell
ID #Resolution (High)Resolution (Low)Percent Possible (All)Percent Possible (Observed)Mean I Over Sigma (Observed)RedundancyNumber Unique Reflections (All)
12.953.1192.426.3

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 REPLACEMENTTHROUGHOUT1N452.9570.119055105297.30.206080.203260.25859RANDOM50.051
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]
-0.94-1.16-2.743.85
RMS Deviations
KeyRefinement Restraint Deviation
r_dihedral_angle_2_deg34.12
r_dihedral_angle_4_deg15.812
r_dihedral_angle_3_deg15.634
r_long_range_B_refined7.5
r_long_range_B_other7.5
r_scangle_other4.932
r_dihedral_angle_1_deg4.688
r_mcangle_it4.266
r_mcangle_other4.266
r_scbond_it2.851
RMS Deviations
KeyRefinement Restraint Deviation
r_dihedral_angle_2_deg34.12
r_dihedral_angle_4_deg15.812
r_dihedral_angle_3_deg15.634
r_long_range_B_refined7.5
r_long_range_B_other7.5
r_scangle_other4.932
r_dihedral_angle_1_deg4.688
r_mcangle_it4.266
r_mcangle_other4.266
r_scbond_it2.851
r_scbond_other2.851
r_mcbond_it2.556
r_mcbond_other2.551
r_angle_refined_deg1.388
r_angle_other_deg1.075
r_chiral_restr0.078
r_bond_refined_d0.009
r_gen_planes_refined0.006
r_bond_other_d0.004
r_gen_planes_other0.004
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 Atoms6984
Nucleic Acid Atoms
Solvent Atoms23
Heterogen Atoms202

Software

Software
Software NamePurpose
REFMACrefinement