X-RAY DIFFRACTION

Starting Model(s)

Initial Refinement Model(s)
TypeSourceAccession CodeDetails
experimental modelOtherlow resolution SAD structure

Crystallization

Crystalization Experiments
IDMethodpHTemperatureDetails
1VAPOR DIFFUSION, SITTING DROP42980.4 ul protein 8.7 mg/ml, 0.4 ul crystallization buffer, 100mM potassium bromide, 42% PEG 1000, 100mM Na citrate, pH 4.0, VAPOR DIFFUSION, SITTING DROP, temperature 298K
Crystal Properties
Matthews coefficientSolvent content
1.9737.45

Crystal Data

Unit Cell
Length ( Å )Angle ( ˚ )
a = 128.875α = 90
b = 128.875β = 90
c = 42.671γ = 120
Symmetry
Space GroupH 3

Diffraction

Diffraction Experiment
ID #Crystal IDScattering TypeData Collection TemperatureDetectorDetector TypeDetailsCollection DateMonochromatorProtocol
11x-ray100CCDADSC QUANTUM 2102004-12-02MSINGLE WAVELENGTH
Radiation Source
ID #SourceTypeWavelength ListSynchrotron SiteBeamline
1SYNCHROTRONALS BEAMLINE 5.0.11.0000ALS5.0.1

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
11.65094.60.06710.9525.232939
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)
11.61.6657.20.5370.997

Refinement

Statistics
Diffraction IDStructure Solution MethodCross Validation methodStarting modelResolution (High)Resolution (Low)Number Reflections (Observed)Number Reflections (R-Free)Percent Reflections (Observed)R-WorkR-FreeR-Free Selection DetailsMean Isotropic B
X-RAY DIFFRACTIONMOLECULAR REPLACEMENTTHROUGHOUTlow resolution SAD structure1.60339.87332939164694.9280.1680.1954random18.897
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]
0.001
RMS Deviations
KeyRefinement Restraint Deviation
r_dihedral_angle_2_deg30.604
r_dihedral_angle_4_deg14.548
r_dihedral_angle_3_deg10.748
r_dihedral_angle_1_deg5.942
r_scangle_it3.208
r_scbond_it2.44
r_mcangle_it1.375
r_angle_refined_deg1.343
r_scangle_other1.249
r_mcbond_it1.221
RMS Deviations
KeyRefinement Restraint Deviation
r_dihedral_angle_2_deg30.604
r_dihedral_angle_4_deg14.548
r_dihedral_angle_3_deg10.748
r_dihedral_angle_1_deg5.942
r_scangle_it3.208
r_scbond_it2.44
r_mcangle_it1.375
r_angle_refined_deg1.343
r_scangle_other1.249
r_mcbond_it1.221
r_angle_other_deg0.833
r_scbond_other0.784
r_mcangle_other0.632
r_symmetry_vdw_other0.246
r_symmetry_vdw_refined0.242
r_mcbond_other0.226
r_nbd_refined0.219
r_nbd_other0.186
r_nbtor_refined0.175
r_xyhbond_nbd_refined0.15
r_symmetry_hbond_refined0.106
r_chiral_restr0.081
r_nbtor_other0.081
r_bond_refined_d0.013
r_gen_planes_refined0.005
r_bond_other_d0.001
r_gen_planes_other0.001
Non-Hydrogen Atoms Used in Refinement
Non-Hydrogen AtomsNumber
Protein Atoms2286
Nucleic Acid Atoms
Solvent Atoms202
Heterogen Atoms1

Software

Software
Software NamePurpose
REFMACrefinement
DENZOdata reduction
SCALEPACKdata scaling
PDB_EXTRACTdata extraction
MOLREPphasing