X-RAY DIFFRACTION

Starting Model(s)

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

Crystallization

Crystalization Experiments
IDMethodpHTemperatureDetails
1VAPOR DIFFUSION, HANGING DROP7.52950.1m Tris pH8.0 15mM CaCl2 30% PEG600 2% PEG35K, pH 7.5, VAPOR DIFFUSION, HANGING DROP, temperature 295K
Crystal Properties
Matthews coefficientSolvent content
2.550.9

Crystal Data

Unit Cell
Length ( Å )Angle ( ˚ )
a = 60.388α = 90
b = 80.369β = 90
c = 211.22γ = 90
Symmetry
Space GroupP 21 21 21

Diffraction

Diffraction Experiment
ID #Crystal IDScattering TypeData Collection TemperatureDetectorDetector TypeDetailsCollection DateMonochromatorProtocol
11x-ray100CCDADSC QUANTUM 210SINGLE WAVELENGTH
Radiation Source
ID #SourceTypeWavelength ListSynchrotron SiteBeamline
1SYNCHROTRONAPS BEAMLINE 17-ID1.0APS17-ID

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
12.455084.30.08632729
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)
12.452.5436.80.737

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 REPLACEMENTTHROUGHOUT3ERT2.4548.223869332672101984.440.2090.2090.2070.263RANDOM39.15
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]
-1.22.62-1.42
RMS Deviations
KeyRefinement Restraint Deviation
r_dihedral_angle_2_deg33.585
r_dihedral_angle_4_deg17.02
r_dihedral_angle_3_deg16.824
r_dihedral_angle_1_deg4.351
r_scangle_it1.508
r_angle_refined_deg1.158
r_scbond_it0.942
r_mcangle_it0.864
r_angle_other_deg0.781
r_mcbond_it0.528
RMS Deviations
KeyRefinement Restraint Deviation
r_dihedral_angle_2_deg33.585
r_dihedral_angle_4_deg17.02
r_dihedral_angle_3_deg16.824
r_dihedral_angle_1_deg4.351
r_scangle_it1.508
r_angle_refined_deg1.158
r_scbond_it0.942
r_mcangle_it0.864
r_angle_other_deg0.781
r_mcbond_it0.528
r_symmetry_vdw_refined0.245
r_symmetry_vdw_other0.211
r_nbd_refined0.208
r_metal_ion_refined0.201
r_symmetry_hbond_refined0.2
r_nbtor_refined0.173
r_nbd_other0.172
r_xyhbond_nbd_refined0.171
r_mcbond_other0.106
r_nbtor_other0.089
r_chiral_restr0.063
r_symmetry_metal_ion_refined0.031
r_bond_refined_d0.01
r_gen_planes_refined0.003
r_bond_other_d0.001
r_gen_planes_other0.001
Non-Hydrogen Atoms Used in Refinement
Non-Hydrogen AtomsNumber
Protein Atoms7086
Nucleic Acid Atoms
Solvent Atoms253
Heterogen Atoms1

Software

Software
Software NamePurpose
SCALEPACKdata scaling
REFMACrefinement
PDB_EXTRACTdata extraction
ADSCdata collection
AMoREphasing