X-RAY DIFFRACTION

Starting Model(s)

Initial Refinement Model(s)
TypeSourceAccession CodeDetails
experimental modelPDB 1XI9PDB entry 1XI9

Crystallization

Crystalization Experiments
IDMethodpHTemperatureDetails
1VAPOR DIFFUSION, SITTING DROP4.20.1M citric acid, 40% PEG300, 0.1M disodium hydrogen phosphate , pH 4.2, VAPOR DIFFUSION, SITTING DROP
Crystal Properties
Matthews coefficientSolvent content
2.9458.22

Crystal Data

Unit Cell
Length ( Å )Angle ( ˚ )
a = 92.73α = 90
b = 92.73β = 90
c = 262.87γ = 120
Symmetry
Space GroupP 61 2 2

Diffraction

Diffraction Experiment
ID #Crystal IDScattering TypeData Collection TemperatureDetectorDetector TypeDetailsCollection DateMonochromatorProtocol
11x-ray77CCDADSC QUANTUM 3152008-12-11MSINGLE WAVELENGTH
Radiation Source
ID #SourceTypeWavelength ListSynchrotron SiteBeamline
1SYNCHROTRONDIAMOND BEAMLINE I030.97DiamondI03

Data Collection

Overall
ID #Resolution (High)Resolution (Low)Percent Possible (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
12.32599.330795
Highest Resolution Shell
ID #Resolution (High)Resolution (Low)Percent Possible (All)Percent Possible (Observed)Mean I Over Sigma (Observed)RedundancyNumber Unique Reflections (All)
12.32.36

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 1XI92.319.732905115291000.191890.189440.23767RANDOM28.949
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]
0.010.010.01-0.02
RMS Deviations
KeyRefinement Restraint Deviation
r_dihedral_angle_2_deg32.436
r_dihedral_angle_4_deg21.084
r_dihedral_angle_3_deg14.216
r_dihedral_angle_1_deg6.686
r_scangle_it4.266
r_scbond_it2.988
r_mcangle_it1.925
r_angle_refined_deg1.761
r_mcbond_it1.37
r_angle_other_deg0.994
RMS Deviations
KeyRefinement Restraint Deviation
r_dihedral_angle_2_deg32.436
r_dihedral_angle_4_deg21.084
r_dihedral_angle_3_deg14.216
r_dihedral_angle_1_deg6.686
r_scangle_it4.266
r_scbond_it2.988
r_mcangle_it1.925
r_angle_refined_deg1.761
r_mcbond_it1.37
r_angle_other_deg0.994
r_symmetry_vdw_other0.282
r_mcbond_other0.254
r_nbd_refined0.229
r_symmetry_vdw_refined0.229
r_nbd_other0.193
r_nbtor_refined0.184
r_xyhbond_nbd_refined0.181
r_symmetry_hbond_refined0.129
r_chiral_restr0.102
r_nbtor_other0.092
r_bond_refined_d0.02
r_gen_planes_refined0.007
r_bond_other_d0.002
r_gen_planes_other0.001
Non-Hydrogen Atoms Used in Refinement
Non-Hydrogen AtomsNumber
Protein Atoms3570
Nucleic Acid Atoms
Solvent Atoms93
Heterogen Atoms25

Software

Software
Software NamePurpose
ADSCdata collection
PHASERphasing
REFMACrefinement
XDSdata reduction
XSCALEdata scaling