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Crystal structure of monobody SH13/ABL1 SH2 domain complex
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model PDB 1OPK 1OPK: 154-235, 1FNF: LOOPS OMITTED experimental model PDB 1FNF 1OPK: 154-235, 1FNF: LOOPS OMITTED
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, HANGING DROP 5.5 292 0.2M MGCL2, 0.1M BIS-TRIS PH 5.5, 25% PEG 3350, VAPOR DIFFUSION, HANGING DROP, TEMPERATURE 292K
Crystal Properties Matthews coefficient Solvent content 2.07 40.47
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 65.553 α = 90 b = 49.181 β = 90 c = 60.955 γ = 90
Symmetry Space Group P 21 21 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 ADSC QUANTUM 315 2010-03-05 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON APS BEAMLINE 24-ID-E APS 24-ID-E
Data Collection Overall ID # Resolution (High) Resolution (Low) Percent Possible (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 1.83 50 96.1 0.115 24.4 4 15737 1
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 1OPK: 154-235, 1FNF: LOOPS OMITTED 1.83 40 14920 796 87.4 0.19 0.188 0.1894 0.237 0.2378 RANDOM 26.17
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 -0.13 0.16
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 35.859 r_dihedral_angle_4_deg 14.634 r_dihedral_angle_3_deg 12.971 r_dihedral_angle_1_deg 6.265 r_scangle_it 3.411 r_scbond_it 2.377 r_mcangle_it 1.604 r_angle_refined_deg 1.337 r_mcbond_it 0.893 r_chiral_restr 0.093
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 35.859 r_dihedral_angle_4_deg 14.634 r_dihedral_angle_3_deg 12.971 r_dihedral_angle_1_deg 6.265 r_scangle_it 3.411 r_scbond_it 2.377 r_mcangle_it 1.604 r_angle_refined_deg 1.337 r_mcbond_it 0.893 r_chiral_restr 0.093 r_bond_refined_d 0.012 r_gen_planes_refined 0.006 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_rigid_bond_restr r_sphericity_free r_sphericity_bonded
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 1614 Nucleic Acid Atoms Solvent Atoms 134 Heterogen Atoms 5
Software Software Software Name Purpose PHASER phasing REFMAC refinement DENZO data reduction SCALEPACK data scaling