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Crystal structure of the MLLE domain of poly(A)-binding protein in complex with the binding region of Paip2
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model PDB 1I2T pdb entry 1I2T
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, HANGING DROP 7 295 2.3M ammonium sulfate, 0.1M HEPES, pH 7.0, VAPOR DIFFUSION, HANGING DROP, temperature 295K
Crystal Properties Matthews coefficient Solvent content 1.77 30.44
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 26.396 α = 100.12 b = 31.61 β = 92.26 c = 48.214 γ = 98.9
Diffraction Diffraction Experiment ID # Crystal ID Scattering Type Data Collection Temperature Detector Detector Type Details Collection Date Monochromator Protocol 1 1 x-ray 100 CCD ADSC QUANTUM 210 mirrors 2009-04-30 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON CHESS BEAMLINE F2 0.9950 CHESS F2
Data Collection Overall ID # Resolution (High) Resolution (Low) Percent Possible (Observed) R Merge I (Observed) Net I Over Average Sigma (I) Redundancy Number Reflections (All) Number Reflections (Observed) Observed Criterion Sigma (F) Observed Criterion Sigma (I) B (Isotropic) From Wilson Plot 1 1.4 50 95.9 0.036 33.1 3.9 28308 27147 1 1
Highest Resolution Shell ID # Resolution (High) Resolution (Low) Percent Possible (All) Percent Possible (Observed) R Merge I (Observed) Mean I Over Sigma (Observed) Redundancy Number Unique Reflections (All) 1 1.4 1.42 90.2 0.24 4 3.5 1857
Refinement Statistics Diffraction ID Structure Solution Method Cross Validation method Starting model Resolution (High) Resolution (Low) Cut-off Sigma (F) Number Reflections (All) Number Reflections (Observed) Number Reflections (R-Free) Percent Reflections (Observed) R-Factor (Observed) R-Work (Depositor) R-Free (Depositor) R-Free (DCC) R-Free Selection Details Mean Isotropic B X-RAY DIFFRACTION MOLECULAR REPLACEMENT THROUGHOUT pdb entry 1I2T 1.4 47.35 1 28308 27147 1438 95.73 0.17941 0.17808 0.20514 0.2398 RANDOM 10.843
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] 0.07 0.47 -0.1 0.19 -0.15 -0.18
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 30.68 r_dihedral_angle_3_deg 13.357 r_dihedral_angle_4_deg 9.362 r_dihedral_angle_1_deg 3.864 r_scangle_it 3.085 r_scbond_it 1.997 r_angle_refined_deg 1.052 r_mcangle_it 1.005 r_mcbond_it 0.77 r_nbtor_refined 0.3
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 30.68 r_dihedral_angle_3_deg 13.357 r_dihedral_angle_4_deg 9.362 r_dihedral_angle_1_deg 3.864 r_scangle_it 3.085 r_scbond_it 1.997 r_angle_refined_deg 1.052 r_mcangle_it 1.005 r_mcbond_it 0.77 r_nbtor_refined 0.3 r_nbd_refined 0.209 r_symmetry_vdw_refined 0.174 r_symmetry_hbond_refined 0.16 r_xyhbond_nbd_refined 0.096 r_chiral_restr 0.061 r_bond_refined_d 0.007 r_gen_planes_refined 0.004
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 1343 Nucleic Acid Atoms Solvent Atoms 128 Heterogen Atoms 21
Software Software Software Name Purpose ADSC data collection PHASER phasing REFMAC refinement HKL-2000 data reduction HKL-2000 data scaling