X-RAY DIFFRACTION

Starting Model(s)

Initial Refinement Model(s)
TypeSourceAccession CodeDetails
experimental modelPDB 2Q3EPDB entry 2Q3E

Crystallization

Crystalization Experiments
IDMethodpHTemperatureDetails
1VAPOR DIFFUSION, SITTING DROP6.527720% PEG 3350, 10% Ethylene glycol, 0.2 M NaBr, 0.1 M Bis-tris-propane, pH 6.5, VAPOR DIFFUSION, SITTING DROP, temperature 277K
Crystal Properties
Matthews coefficientSolvent content
3.0659.75

Crystal Data

Unit Cell
Length ( Å )Angle ( ˚ )
a = 193.868α = 90
b = 193.868β = 90
c = 352.223γ = 120
Symmetry
Space GroupH 3

Diffraction

Diffraction Experiment
ID #Crystal IDScattering TypeData Collection TemperatureDetectorDetector TypeDetailsCollection DateMonochromatorProtocol
11x-ray100CCDMARMOSAIC 225 mm CCD2007-04-16MSINGLE WAVELENGTH
Radiation Source
ID #SourceTypeWavelength ListSynchrotron SiteBeamline
1SYNCHROTRONSLS BEAMLINE X10SA1.033SLSX10SA

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
12.1601000.1397.63.928808828808817
Highest Resolution Shell
ID #Resolution (High)Resolution (Low)Percent Possible (All)Percent Possible (Observed)Mean I Over Sigma (Observed)RedundancyNumber Unique Reflections (All)
12.12.211001.83.842048

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 (All)R-Factor (Observed)R-WorkR-FreeR-Free Selection DetailsMean Isotropic B
X-RAY DIFFRACTIONMOLECULAR REPLACEMENTTHROUGHOUTPDB entry 2Q3E2.159.66273217273217148461000.178320.178320.175740.22496THIN SHELLS13.44
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]
-0.15-0.08-0.150.23
RMS Deviations
KeyRefinement Restraint Deviation
r_dihedral_angle_2_deg34.586
r_dihedral_angle_4_deg16.87
r_dihedral_angle_3_deg12.491
r_scangle_it5.926
r_dihedral_angle_1_deg5.576
r_scbond_it4.394
r_mcangle_it2.559
r_mcbond_it1.737
r_angle_refined_deg1.238
r_angle_other_deg0.909
RMS Deviations
KeyRefinement Restraint Deviation
r_dihedral_angle_2_deg34.586
r_dihedral_angle_4_deg16.87
r_dihedral_angle_3_deg12.491
r_scangle_it5.926
r_dihedral_angle_1_deg5.576
r_scbond_it4.394
r_mcangle_it2.559
r_mcbond_it1.737
r_angle_refined_deg1.238
r_angle_other_deg0.909
r_mcbond_other0.505
r_symmetry_vdw_other0.235
r_nbd_refined0.191
r_nbd_other0.185
r_nbtor_refined0.17
r_xyhbond_nbd_refined0.143
r_symmetry_hbond_refined0.134
r_symmetry_vdw_refined0.114
r_nbtor_other0.083
r_chiral_restr0.072
r_symmetry_hbond_other0.012
r_bond_refined_d0.01
r_gen_planes_refined0.004
r_bond_other_d0.002
r_gen_planes_other0.001
r_xyhbond_nbd_other
r_metal_ion_refined
r_metal_ion_other
r_symmetry_metal_ion_refined
r_symmetry_metal_ion_other
r_rigid_bond_restr
r_sphericity_free
r_sphericity_bonded
Non-Hydrogen Atoms Used in Refinement
Non-Hydrogen AtomsNumber
Protein Atoms28503
Nucleic Acid Atoms
Solvent Atoms2999
Heterogen Atoms604

Software

Software
Software NamePurpose
REFMACrefinement
MAR345data collection
MOSFLMdata reduction
SCALAdata scaling
PHASERphasing