X-RAY DIFFRACTION

Starting Model(s)

Initial Refinement Model(s)
TypeSourceAccession CodeDetails
experimental modelPDB 3NIZPDB ENTRY 3NIZ

Crystallization

Crystalization Experiments
IDMethodpHTemperatureDetails
10.2M NACL, 0.1M TRIS PH 8.5; 25% PEG 3350.
Crystal Properties
Matthews coefficientSolvent content
2.652.7

Crystal Data

Unit Cell
Length ( Å )Angle ( ˚ )
a = 67.819α = 90
b = 70.22β = 90
c = 83.66γ = 90
Symmetry
Space GroupP 21 21 21

Diffraction

Diffraction Experiment
ID #Crystal IDScattering TypeData Collection TemperatureDetectorDetector TypeDetailsCollection DateMonochromatorProtocol
11x-ray100CCDADSC CCD2011-10-21MSINGLE WAVELENGTH
Radiation Source
ID #SourceTypeWavelength ListSynchrotron SiteBeamline
1SYNCHROTRONDIAMOND BEAMLINE I02DiamondI02

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
11.642.141000.1413.413.7534612
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)
11.61.691001.142.17.9

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 3NIZ1.5353.7856974304199.010.181780.180330.2082RANDOM24.666
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]
-0.551.14-0.59
RMS Deviations
KeyRefinement Restraint Deviation
r_dihedral_angle_2_deg37.518
r_dihedral_angle_4_deg19.58
r_dihedral_angle_3_deg13.981
r_dihedral_angle_1_deg5.509
r_angle_refined_deg1.563
r_angle_other_deg0.935
r_symmetry_vdw_refined0.301
r_nbd_refined0.275
r_symmetry_vdw_other0.213
r_nbtor_refined0.182
RMS Deviations
KeyRefinement Restraint Deviation
r_dihedral_angle_2_deg37.518
r_dihedral_angle_4_deg19.58
r_dihedral_angle_3_deg13.981
r_dihedral_angle_1_deg5.509
r_angle_refined_deg1.563
r_angle_other_deg0.935
r_symmetry_vdw_refined0.301
r_nbd_refined0.275
r_symmetry_vdw_other0.213
r_nbtor_refined0.182
r_nbd_other0.178
r_symmetry_hbond_refined0.161
r_xyhbond_nbd_refined0.146
r_chiral_restr0.098
r_nbtor_other0.088
r_bond_refined_d0.014
r_gen_planes_refined0.008
r_bond_other_d0.001
r_gen_planes_other0.001
r_xyhbond_nbd_other
r_metal_ion_refined
r_metal_ion_other
r_symmetry_hbond_other
r_symmetry_metal_ion_refined
r_symmetry_metal_ion_other
r_mcbond_it
r_mcbond_other
r_mcangle_it
r_mcangle_other
r_scbond_it
r_scbond_other
r_scangle_it
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 Atoms2393
Nucleic Acid Atoms
Solvent Atoms259
Heterogen Atoms52

Software

Software
Software NamePurpose
REFMACrefinement
MOSFLMdata reduction
SCALAdata scaling
PHASERphasing