4F02

Crystal structure of the PABP-binding site of eIF4G in complex with RRM1-2 of PABP and poly(A)


X-RAY DIFFRACTION

Crystallization

Crystalization Experiments
IDMethodpHTemperatureDetails
1VAPOR DIFFUSION, HANGING DROP82940.03 M Tris, 1.3 M (NH4)2SO4, 5% glycerol, pH 8.0, VAPOR DIFFUSION, HANGING DROP, temperature 294K
Crystal Properties
Matthews coefficientSolvent content
3.0259.32

Crystal Data

Unit Cell
Length ( Å )Angle ( ˚ )
a = 130.191α = 90
b = 130.191β = 90
c = 86.872γ = 90
Symmetry
Space GroupP 4 21 2

Diffraction

Diffraction Experiment
ID #Crystal IDScattering TypeData Collection TemperatureDetectorDetector TypeDetailsCollection DateMonochromatorProtocol
11x-ray200CCDMARMOSAIC 300 mm CCDDCM with cryo-cooled 1st crystal sagittally bent 2nd crystal followed by vertically focusing mirror.2010-05-29MSINGLE WAVELENGTH
Radiation Source
ID #SourceTypeWavelength ListSynchrotron SiteBeamline
1SYNCHROTRONCLSI BEAMLINE 08ID-10.97949CLSI08ID-1

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
1236.11473564735611
Highest Resolution Shell
ID #Resolution (High)Resolution (Low)Percent Possible (All)Percent Possible (Observed)Mean I Over Sigma (Observed)RedundancyNumber Unique Reflections (All)
122.0397.6

Refinement

Statistics
Diffraction IDStructure Solution MethodCross Validation methodResolution (High)Resolution (Low)Cut-off Sigma (F)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 REPLACEMENTTHROUGHOUT236.1135014247356253297.560.220.205410.204130.23016RANDOM38.392
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]
-0.14-0.140.29
RMS Deviations
KeyRefinement Restraint Deviation
r_dihedral_angle_2_deg33.643
r_dihedral_angle_3_deg16.196
r_dihedral_angle_4_deg13.903
r_dihedral_angle_1_deg6.341
r_scangle_it4.204
r_scbond_it2.719
r_angle_refined_deg2.123
r_mcangle_it1.518
r_mcbond_it0.86
r_chiral_restr0.142
RMS Deviations
KeyRefinement Restraint Deviation
r_dihedral_angle_2_deg33.643
r_dihedral_angle_3_deg16.196
r_dihedral_angle_4_deg13.903
r_dihedral_angle_1_deg6.341
r_scangle_it4.204
r_scbond_it2.719
r_angle_refined_deg2.123
r_mcangle_it1.518
r_mcbond_it0.86
r_chiral_restr0.142
r_bond_refined_d0.018
r_gen_planes_refined0.008
r_gen_planes_other
r_nbd_refined
r_nbd_other
r_nbtor_refined
r_nbtor_other
r_xyhbond_nbd_refined
r_xyhbond_nbd_other
r_metal_ion_refined
r_metal_ion_other
r_symmetry_vdw_refined
r_symmetry_vdw_other
r_symmetry_hbond_refined
r_symmetry_hbond_other
r_symmetry_metal_ion_refined
r_symmetry_metal_ion_other
r_mcbond_other
r_rigid_bond_restr
r_sphericity_free
r_sphericity_bonded
Non-Hydrogen Atoms Used in Refinement
Non-Hydrogen AtomsNumber
Protein Atoms3058
Nucleic Acid Atoms393
Solvent Atoms196
Heterogen Atoms

Software

Software
Software NamePurpose
MxDCdata collection
PHASERphasing
REFMACrefinement
HKL-2000data reduction
HKL-2000data scaling