X-RAY DIFFRACTION

Starting Model(s)

Initial Refinement Model(s)
TypeSourceAccession CodeDetails
experimental modelPDB 3U7C 

Crystallization

Crystalization Experiments
IDMethodpHTemperatureDetails
1VAPOR DIFFUSION, HANGING DROP82931.3 M sodium citrate, 100 mM Tris-HCl
Crystal Properties
Matthews coefficientSolvent content
2.0941.18

Crystal Data

Unit Cell
Length ( Å )Angle ( ˚ )
a = 42.296α = 90
b = 41.458β = 104.163
c = 72.083γ = 90
Symmetry
Space GroupP 1 21 1

Diffraction

Diffraction Experiment
ID #Crystal IDScattering TypeData Collection TemperatureDetectorDetector TypeDetailsCollection DateMonochromatorProtocol
11x-ray100CCDADSC QUANTUM 2702011-05-30MSINGLE WAVELENGTH
Radiation Source
ID #SourceTypeWavelength ListSynchrotron SiteBeamline
1SYNCHROTRONCHESS BEAMLINE F10.9179CHESSF1

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
10.95095.70.08320.635.6171362
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)
10.90.920.6531.75

Refinement

Statistics
Diffraction IDStructure Solution MethodCross Validation methodStarting modelResolution (High)Resolution (Low)Number Reflections (Observed)Number Reflections (R-Free)Percent Reflections (Observed)R-Factor (All)R-WorkR-FreeMean Isotropic B
X-RAY DIFFRACTIONMOLECULAR REPLACEMENTFREE R-VALUE3U7C0.929.156171296848095.7370.1110.10990.122210.336
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]
-0.01-0.0080.012
RMS Deviations
KeyRefinement Restraint Deviation
r_sphericity_free57.438
r_dihedral_angle_2_deg33.8
r_dihedral_angle_4_deg21.201
r_dihedral_angle_3_deg10.868
r_sphericity_bonded10.835
r_dihedral_angle_1_deg6.966
r_rigid_bond_restr6.806
r_lrange_it6.045
r_lrange_other4.984
r_scangle_other3.839
RMS Deviations
KeyRefinement Restraint Deviation
r_sphericity_free57.438
r_dihedral_angle_2_deg33.8
r_dihedral_angle_4_deg21.201
r_dihedral_angle_3_deg10.868
r_sphericity_bonded10.835
r_dihedral_angle_1_deg6.966
r_rigid_bond_restr6.806
r_lrange_it6.045
r_lrange_other4.984
r_scangle_other3.839
r_scangle_it3.836
r_mcangle_other3.089
r_mcangle_it3.08
r_mcbond_it2.99
r_scbond_other2.715
r_scbond_it2.711
r_angle_refined_deg2.568
r_angle_other_deg1.732
r_mcbond_other1.52
r_symmetry_nbd_refined0.365
r_nbd_other0.348
r_nbd_refined0.328
r_symmetry_nbd_other0.211
r_symmetry_xyhbond_nbd_refined0.21
r_nbtor_refined0.185
r_chiral_restr0.162
r_xyhbond_nbd_refined0.149
r_symmetry_nbtor_other0.082
r_metal_ion_refined0.063
r_symmetry_xyhbond_nbd_other0.038
r_bond_refined_d0.03
r_gen_planes_refined0.014
r_gen_planes_other0.01
r_bond_other_d0.002
Non-Hydrogen Atoms Used in Refinement
Non-Hydrogen AtomsNumber
Protein Atoms2050
Nucleic Acid Atoms
Solvent Atoms354
Heterogen Atoms17

Software

Software
Software NamePurpose
REFMACrefinement
HKL-2000data reduction
HKL-2000data scaling
REFMACphasing