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Crystal structure of the N114Q mutant of ABL-SH3 domain
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model PDB 3EG3 PDB entry 3EG3
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, HANGING DROP 3 288 2M ammonium sulphate, 5% PEG300, 10% glycerol, and 0.1 M of buffer solution, vapor diffusion, hanging drop, temperature 288K
Crystal Properties Matthews coefficient Solvent content 1.73 28.99
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 44.679 α = 90 b = 52.998 β = 90 c = 41.101 γ = 90
Symmetry Space Group C 2 2 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 2006-03-09 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 1.8 41.101 91.3 0.0428 0.0428 6.13 4769 4354 16.17
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 1.8 1.9 67.9 0.1805 0.1805 3.88 1.11 471
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 3EG3 1.8 13.25 4336 304 91.26 0.212 0.208 0.2171 0.268 0.2646 RANDOM 16.699
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] -0.03 0.02 0.01
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 36.392 r_dihedral_angle_4_deg 25.55 r_dihedral_angle_3_deg 14.486 r_dihedral_angle_1_deg 7.598 r_scangle_it 4.926 r_scbond_it 3.81 r_mcangle_it 2.148 r_angle_refined_deg 2.061 r_mcbond_it 1.435 r_nbtor_refined 0.315
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 36.392 r_dihedral_angle_4_deg 25.55 r_dihedral_angle_3_deg 14.486 r_dihedral_angle_1_deg 7.598 r_scangle_it 4.926 r_scbond_it 3.81 r_mcangle_it 2.148 r_angle_refined_deg 2.061 r_mcbond_it 1.435 r_nbtor_refined 0.315 r_symmetry_vdw_refined 0.299 r_symmetry_hbond_refined 0.292 r_nbd_refined 0.226 r_xyhbond_nbd_refined 0.19 r_chiral_restr 0.132 r_bond_refined_d 0.011 r_gen_planes_refined 0.01
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 495 Nucleic Acid Atoms Solvent Atoms 23 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