X-RAY DIFFRACTION

Starting Model(s)

Initial Refinement Model(s)
TypeSourceAccession CodeDetails
experimental modelPDB 1ZKKPDB entry 1ZKK

Crystallization

Crystalization Experiments
IDMethodpHTemperatureDetails
1VAPOR DIFFUSION, HANGING DROP6.529825% Pentaerythritol ethoxylate, 50mM Ammonium sulfate, 50mM Bis-tris, pH 6.5, VAPOR DIFFUSION, HANGING DROP, temperature 298K
Crystal Properties
Matthews coefficientSolvent content
2.3948.53

Crystal Data

Unit Cell
Length ( Å )Angle ( ˚ )
a = 44α = 89.2
b = 45.6β = 87.1
c = 94.2γ = 90.8
Symmetry
Space GroupP 1

Diffraction

Diffraction Experiment
ID #Crystal IDScattering TypeData Collection TemperatureDetectorDetector TypeDetailsCollection DateMonochromatorProtocol
11x-ray200CCDMAR CCD 165 mm2006-02-06MSINGLE WAVELENGTH
Radiation Source
ID #SourceTypeWavelength ListSynchrotron SiteBeamline
1SYNCHROTRONAPS BEAMLINE 17-ID1.0000APS17-ID

Data Collection

Overall
ID #Resolution (High)Resolution (Low)Percent Possible (Observed)R Sym 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
11.612.840.02738.23.9919082
Highest Resolution Shell
ID #Resolution (High)Resolution (Low)Percent Possible (All)Percent Possible (Observed)R-Sym I (Observed)Mean I Over Sigma (Observed)RedundancyNumber Unique Reflections (All)
1.61.650.14610.6

Refinement

Statistics
Diffraction IDStructure Solution MethodCross Validation methodStarting modelResolution (High)Resolution (Low)Cut-off Sigma (F)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 1ZKK1.612.8428777446201000.164350.162180.2063RANDOM16.999
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]
0.01
RMS Deviations
KeyRefinement Restraint Deviation
r_dihedral_angle_2_deg26.842
r_dihedral_angle_4_deg16.671
r_dihedral_angle_3_deg11.798
r_dihedral_angle_1_deg5.951
r_sphericity_free4.229
r_scangle_it3.452
r_sphericity_bonded2.606
r_scbond_it2.532
r_rigid_bond_restr1.832
r_mcangle_it1.623
RMS Deviations
KeyRefinement Restraint Deviation
r_dihedral_angle_2_deg26.842
r_dihedral_angle_4_deg16.671
r_dihedral_angle_3_deg11.798
r_dihedral_angle_1_deg5.951
r_sphericity_free4.229
r_scangle_it3.452
r_sphericity_bonded2.606
r_scbond_it2.532
r_rigid_bond_restr1.832
r_mcangle_it1.623
r_angle_refined_deg1.254
r_mcbond_it1.029
r_nbtor_refined0.304
r_nbd_refined0.194
r_symmetry_vdw_refined0.158
r_xyhbond_nbd_refined0.13
r_symmetry_hbond_refined0.124
r_chiral_restr0.088
r_bond_refined_d0.01
r_gen_planes_refined0.005
Non-Hydrogen Atoms Used in Refinement
Non-Hydrogen AtomsNumber
Protein Atoms5428
Nucleic Acid Atoms
Solvent Atoms1022
Heterogen Atoms104

Software

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