X-RAY DIFFRACTION

Starting Model(s)

Initial Refinement Model(s)
TypeSourceAccession CodeDetails
experimental modelPDB 2IGOpdb entry 2IGO

Crystallization

Crystalization Experiments
IDMethodpHTemperatureDetails
1VAPOR DIFFUSION, HANGING DROP5.22980.1M MES, 50MM MGCL2, 10% (W/V)% MONOMETHYLETHER PEG 2000, pH 5.2, VAPOR DIFFUSION, HANGING DROP, temperature 298K
Crystal Properties
Matthews coefficientSolvent content
2.3347.18

Crystal Data

Unit Cell
Length ( Å )Angle ( ˚ )
a = 101.578α = 90
b = 101.578β = 90
c = 249.997γ = 90
Symmetry
Space GroupP 43 21 2

Diffraction

Diffraction Experiment
ID #Crystal IDScattering TypeData Collection TemperatureDetectorDetector TypeDetailsCollection DateMonochromatorProtocol
11x-ray100CCDMARRESEARCHMIRRORS2008-12-06MSINGLE WAVELENGTH
Radiation Source
ID #SourceTypeWavelength ListSynchrotron SiteBeamline
1SYNCHROTRONMAX II BEAMLINE I911-21.0379MAX III911-2

Data Collection

Overall
ID #Resolution (High)Resolution (Low)Percent Possible (Observed)R Sym 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
12.753099.70.19211.86.83484034840
Highest Resolution Shell
ID #Resolution (High)Resolution (Low)Percent Possible (All)Percent Possible (Observed)R-Sym I (Observed)Mean I Over Sigma (Observed)RedundancyNumber Unique Reflections (All)
12.752.899.80.8832.66.31776

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 2IGO2.75303290932909193199.830.195710.195710.191210.27361RANDOM21.986
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]
-0.48-0.480.97
RMS Deviations
KeyRefinement Restraint Deviation
r_dihedral_angle_2_deg38.645
r_dihedral_angle_3_deg17.874
r_dihedral_angle_4_deg16.474
r_dihedral_angle_1_deg7.668
r_scangle_it2.221
r_angle_refined_deg1.81
r_scbond_it1.469
r_angle_other_deg1.003
r_mcangle_it0.952
r_mcbond_it0.734
RMS Deviations
KeyRefinement Restraint Deviation
r_dihedral_angle_2_deg38.645
r_dihedral_angle_3_deg17.874
r_dihedral_angle_4_deg16.474
r_dihedral_angle_1_deg7.668
r_scangle_it2.221
r_angle_refined_deg1.81
r_scbond_it1.469
r_angle_other_deg1.003
r_mcangle_it0.952
r_mcbond_it0.734
r_symmetry_vdw_other0.293
r_symmetry_hbond_refined0.276
r_nbd_refined0.229
r_nbd_other0.211
r_nbtor_refined0.193
r_xyhbond_nbd_refined0.177
r_symmetry_vdw_refined0.17
r_mcbond_other0.117
r_chiral_restr0.101
r_nbtor_other0.093
r_bond_refined_d0.018
r_gen_planes_refined0.005
r_bond_other_d0.002
r_gen_planes_other0.001
r_xyhbond_nbd_other0.001
r_metal_ion_refined
r_metal_ion_other
r_symmetry_hbond_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 Atoms9008
Nucleic Acid Atoms
Solvent Atoms149
Heterogen Atoms106

Software

Software
Software NamePurpose
MAR345data collection
PHASERphasing
REFMACrefinement
XDSdata reduction
XSCALEdata scaling