X-RAY DIFFRACTION

Starting Model(s)

Initial Refinement Model(s)
TypeSourceAccession CodeDetails
experimental modelPDB 2HXKPDB entry 2HXK

Crystallization

Crystalization Experiments
IDMethodpHTemperatureDetails
1VAPOR DIFFUSION, HANGING DROP729832% PEG 4000, 50 mM sodium phosphate, ethanol, pH 7.0, VAPOR DIFFUSION, HANGING DROP, temperature 298K
Crystal Properties
Matthews coefficientSolvent content
1.831.63

Crystal Data

Unit Cell
Length ( Å )Angle ( ˚ )
a = 116.08α = 90
b = 25.749β = 97.97
c = 85.86γ = 90
Symmetry
Space GroupC 1 2 1

Diffraction

Diffraction Experiment
ID #Crystal IDScattering TypeData Collection TemperatureDetectorDetector TypeDetailsCollection DateMonochromatorProtocol
11x-ray100CCDADSC QUANTUM 315bent Si-mirror2006-04-15MSINGLE WAVELENGTH
Radiation Source
ID #SourceTypeWavelength ListSynchrotron SiteBeamline
1SYNCHROTRONAPS BEAMLINE 14-BM-CAPS14-BM-C

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
11.225.197.10.079.15.1797177971716.5
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)
1.21.2498.40.243.34.87774

Refinement

Statistics
Diffraction IDStructure Solution MethodCross Validation methodStarting modelResolution (High)Resolution (Low)Number Reflections (All)Number Reflections (Observed)Number Reflections (R-Free)Percent Reflections (Observed)R-Factor (Observed)R-WorkR-FreeR-Free Selection DetailsMean Isotropic B
X-RAY DIFFRACTIONFOURIER SYNTHESISTHROUGHOUTPDB entry 2HXK1.225.137352173521388297.10.178590.177160.20565RANDOM13.78
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]
-0.39-0.030.250.14
RMS Deviations
KeyRefinement Restraint Deviation
r_dihedral_angle_2_deg29.516
r_dihedral_angle_3_deg14.112
r_sphericity_free11.053
r_dihedral_angle_1_deg6.275
r_sphericity_bonded5.508
r_scangle_it5.499
r_scbond_it4.278
r_mcangle_it3.07
r_rigid_bond_restr2.655
r_mcbond_it2.548
RMS Deviations
KeyRefinement Restraint Deviation
r_dihedral_angle_2_deg29.516
r_dihedral_angle_3_deg14.112
r_sphericity_free11.053
r_dihedral_angle_1_deg6.275
r_sphericity_bonded5.508
r_scangle_it5.499
r_scbond_it4.278
r_mcangle_it3.07
r_rigid_bond_restr2.655
r_mcbond_it2.548
r_angle_refined_deg1.96
r_mcbond_other1.374
r_angle_other_deg0.998
r_symmetry_vdw_refined0.335
r_nbd_refined0.276
r_symmetry_vdw_other0.249
r_nbd_other0.192
r_nbtor_refined0.189
r_xyhbond_nbd_refined0.14
r_symmetry_hbond_refined0.13
r_nbtor_other0.109
r_chiral_restr0.103
r_bond_refined_d0.02
r_gen_planes_refined0.009
r_gen_planes_other0.003
r_bond_other_d0.001
Non-Hydrogen Atoms Used in Refinement
Non-Hydrogen AtomsNumber
Protein Atoms2685
Nucleic Acid Atoms
Solvent Atoms115
Heterogen Atoms

Software

Software
Software NamePurpose
REFMACrefinement
XDISPLAYFdata collection
CrystalCleardata reduction
CrystalCleardata scaling