X-RAY DIFFRACTION

Starting Model(s)

Initial Refinement Model(s)
TypeSourceAccession CodeDetails
experimental modelPDB 3QP6PDB ENTRY 3QP6

Crystallization

Crystalization Experiments
IDMethodpHTemperatureDetails
1VAPOR DIFFUSION, HANGING DROP9.5296100 mM CHES, 1 M sodium citrate, pH 9.5, VAPOR DIFFUSION, HANGING DROP, temperature 296K
Crystal Properties
Matthews coefficientSolvent content
2.3848.36

Crystal Data

Unit Cell
Length ( Å )Angle ( ˚ )
a = 76.461α = 90
b = 71.613β = 114.58
c = 77.737γ = 90
Symmetry
Space GroupP 1 21 1

Diffraction

Diffraction Experiment
ID #Crystal IDScattering TypeData Collection TemperatureDetectorDetector TypeDetailsCollection DateMonochromatorProtocol
11x-ray298CCDADSC QUANTUM 3152008-10-17MSINGLE WAVELENGTH
Radiation Source
ID #SourceTypeWavelength ListSynchrotron SiteBeamline
1SYNCHROTRONNSLS BEAMLINE X25NSLSX25

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
11.670.7199.80.04316.678410116222
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)
1.61.6699.50.3972.253.5

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 REPLACEMENTTHROUGHOUTPDB ENTRY 3QP61.670.71100970504399.630.19910.19750.2302RANDOM36.043
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]
-0.56-1.67-0.48-0.35
RMS Deviations
KeyRefinement Restraint Deviation
r_dihedral_angle_2_deg39.363
r_dihedral_angle_3_deg13.282
r_dihedral_angle_4_deg12.508
r_dihedral_angle_1_deg5.614
r_angle_refined_deg1.277
r_nbtor_refined0.304
r_symmetry_vdw_refined0.209
r_nbd_refined0.206
r_symmetry_hbond_refined0.165
r_xyhbond_nbd_refined0.13
RMS Deviations
KeyRefinement Restraint Deviation
r_dihedral_angle_2_deg39.363
r_dihedral_angle_3_deg13.282
r_dihedral_angle_4_deg12.508
r_dihedral_angle_1_deg5.614
r_angle_refined_deg1.277
r_nbtor_refined0.304
r_symmetry_vdw_refined0.209
r_nbd_refined0.206
r_symmetry_hbond_refined0.165
r_xyhbond_nbd_refined0.13
r_chiral_restr0.08
r_bond_refined_d0.01
r_gen_planes_refined0.005
Non-Hydrogen Atoms Used in Refinement
Non-Hydrogen AtomsNumber
Protein Atoms5648
Nucleic Acid Atoms
Solvent Atoms470
Heterogen Atoms72

Software

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