X-RAY DIFFRACTION

Starting Model(s)

Initial Refinement Model(s)
TypeSourceAccession CodeDetails
experimental modelPDB 1J9JPDB ENTRY 1J9J

Crystallization

Crystalization Experiments
IDMethodpHTemperatureDetails
16.50.1 M MES (PH 6.5) AND 12% PEG 20,000
Crystal Properties
Matthews coefficientSolvent content
3.160.2

Crystal Data

Unit Cell
Length ( Å )Angle ( ˚ )
a = 161.081α = 90
b = 95.299β = 98.93
c = 94.572γ = 90
Symmetry
Space GroupC 1 2 1

Diffraction

Diffraction Experiment
ID #Crystal IDScattering TypeData Collection TemperatureDetectorDetector TypeDetailsCollection DateMonochromatorProtocol
11x-ray100IMAGE PLATEMARRESEARCHMIRRORSMSINGLE WAVELENGTH
Radiation Source
ID #SourceTypeWavelength ListSynchrotron SiteBeamline
1ROTATING ANODERIGAKU RU200

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
12.755099.60.0814.34.137552
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)
12.752.8599.80.52.324.1

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 REPLACEMENTTHROUGHOUTPDB ENTRY 1J9J2.7193.2535604188497.650.192710.189520.25428RANDOM46.39
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]
1.92-0.29-0.56-1.46
RMS Deviations
KeyRefinement Restraint Deviation
r_dihedral_angle_2_deg35.672
r_dihedral_angle_3_deg20.952
r_dihedral_angle_4_deg18.658
r_dihedral_angle_1_deg7.76
r_scangle_it3.117
r_scbond_it1.932
r_angle_refined_deg1.801
r_mcangle_it1.237
r_mcbond_it0.694
r_nbtor_refined0.322
RMS Deviations
KeyRefinement Restraint Deviation
r_dihedral_angle_2_deg35.672
r_dihedral_angle_3_deg20.952
r_dihedral_angle_4_deg18.658
r_dihedral_angle_1_deg7.76
r_scangle_it3.117
r_scbond_it1.932
r_angle_refined_deg1.801
r_mcangle_it1.237
r_mcbond_it0.694
r_nbtor_refined0.322
r_nbd_refined0.245
r_symmetry_hbond_refined0.22
r_symmetry_vdw_refined0.204
r_xyhbond_nbd_refined0.155
r_chiral_restr0.122
r_bond_refined_d0.016
r_gen_planes_refined0.006
r_bond_other_d
r_angle_other_deg
r_gen_planes_other
r_nbd_other
r_nbtor_other
r_xyhbond_nbd_other
r_metal_ion_refined
r_metal_ion_other
r_symmetry_vdw_other
r_symmetry_hbond_other
r_symmetry_metal_ion_refined
r_symmetry_metal_ion_other
r_mcbond_other
r_mcangle_other
r_scbond_other
r_scangle_other
r_long_range_B_refined
r_long_range_B_other
r_rigid_bond_restr
r_sphericity_free
r_sphericity_bonded
Non-Hydrogen Atoms Used in Refinement
Non-Hydrogen AtomsNumber
Protein Atoms7542
Nucleic Acid Atoms
Solvent Atoms74
Heterogen Atoms20

Software

Software
Software NamePurpose
REFMACrefinement
DENZOdata reduction
SCALEPACKdata scaling
AMoREphasing