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Crystal structure of the N114T mutant of ABL-SH3 domain
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model PDB 1ABQ PDB entry 1ABQ
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, HANGING DROP 7 288 2M ammonium sulphate, 5% PEG300, 10% glycerol, and 0.1 M of buffer solution, pH 7, vapor diffusion, hanging drop, temperature 288K
Crystal Properties Matthews coefficient Solvent content 2.3 46.62
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 49.754 α = 90 b = 49.754 β = 90 c = 45.126 γ = 120
Symmetry Space Group P 32 1 2
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 BRUKER SMART 6000 Montel optics 2006-05-04 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 ROTATING ANODE BRUKER AXS MICROSTAR 1.54
Data Collection Overall ID # Resolution (High) Resolution (Low) Percent Possible (Observed) R Merge I (Observed) R Sym 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 2.25 43.073 99.8 0.0734 0.0734 9.38 3146 3153 37.169
Highest Resolution Shell ID # Resolution (High) Resolution (Low) Percent Possible (All) Percent Possible (Observed) R Merge I (Observed) R-Sym I (Observed) Mean I Over Sigma (Observed) Redundancy Number Unique Reflections (All) 1 2.25 2.35 98.4 0.4168 0.4168 3.48 3.48 368
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 1ABQ 2.3 20 2942 280 99.9 0.227 0.221 0.2274 0.283 0.3085 RANDOM 17.919
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] 1.05 0.53 1.05 -1.58
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 32.576 r_dihedral_angle_3_deg 13.312 r_dihedral_angle_4_deg 7.249 r_dihedral_angle_1_deg 5.765 r_scangle_it 2.152 r_angle_refined_deg 1.818 r_scbond_it 1.395 r_mcangle_it 0.841 r_mcbond_it 0.505 r_nbtor_refined 0.306
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 32.576 r_dihedral_angle_3_deg 13.312 r_dihedral_angle_4_deg 7.249 r_dihedral_angle_1_deg 5.765 r_scangle_it 2.152 r_angle_refined_deg 1.818 r_scbond_it 1.395 r_mcangle_it 0.841 r_mcbond_it 0.505 r_nbtor_refined 0.306 r_nbd_refined 0.266 r_symmetry_vdw_refined 0.183 r_xyhbond_nbd_refined 0.178 r_symmetry_hbond_refined 0.137 r_chiral_restr 0.11 r_bond_refined_d 0.01 r_gen_planes_refined 0.005
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 438 Nucleic Acid Atoms Solvent Atoms 17 Heterogen Atoms 6
Software Software Software Name Purpose SAINT data scaling MOLREP phasing REFMAC refinement PDB_EXTRACT data extraction PROTEUM PLUS data collection SAINT data reduction SCALA data scaling