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Crystal structure of the I-BAR domain of IRSp53 (BAIAP2) in complex with an EHEC derived Tir peptide
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model PDB 1Y2O PDB ENTRY 1Y2O
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 16% (W/V) PEG 3350, 0.3M AMMONIUM SULPHATE
Crystal Properties Matthews coefficient Solvent content 2.73 54.63
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 88.354 α = 90 b = 187.362 β = 90 c = 36.806 γ = 90
Symmetry Space Group C 2 2 21
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 MARRESEARCH MIRRORS 2009-08-21 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON BESSY BEAMLINE 14.2 BESSY 14.2
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 2.11 9.44 99.8 0.08 20.13 12.7 18190 3.1 41.8
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 2.11 2.16 100 0.53 3.13 7.2
Refinement Statistics Diffraction ID Structure Solution Method Cross Validation method Starting model Resolution (High) Resolution (Low) Number Reflections (Observed) Number Reflections (R-Free) Percent Reflections (Observed) R-Factor (Observed) R-Work (Depositor) R-Work (DCC) R-Free (Depositor) R-Free (DCC) R-Free Selection Details Mean Isotropic B X-RAY DIFFRACTION MOLECULAR REPLACEMENT THROUGHOUT PDB ENTRY 1Y2O 2.11 9.44 17006 895 100 0.23559 0.23336 0.2342 0.27604 0.2795 RANDOM 41.5
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] 0.53 -3.19 2.66
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 40.105 r_dihedral_angle_3_deg 19.397 r_dihedral_angle_4_deg 19.169 r_dihedral_angle_1_deg 6.042 r_scangle_it 5.757 r_scbond_it 3.506 r_mcangle_it 2.131 r_angle_refined_deg 1.901 r_mcbond_it 1.215 r_chiral_restr 0.133
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 40.105 r_dihedral_angle_3_deg 19.397 r_dihedral_angle_4_deg 19.169 r_dihedral_angle_1_deg 6.042 r_scangle_it 5.757 r_scbond_it 3.506 r_mcangle_it 2.131 r_angle_refined_deg 1.901 r_mcbond_it 1.215 r_chiral_restr 0.133 r_bond_refined_d 0.022 r_gen_planes_refined 0.009 r_bond_other_d r_angle_other_deg 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_mcangle_other r_scbond_other r_scangle_other r_long_range_B_refined r_long_range_B_other r_rigid_bond_restr r_sphericity_free r_sphericity_bonded
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 1898 Nucleic Acid Atoms Solvent Atoms 46 Heterogen Atoms 5
Software Software Software Name Purpose REFMAC refinement XDS data reduction XSCALE data scaling MOLREP phasing