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Crystal structure of Arg SH2 domain
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model PDB 3K2M PDB entry 3K2M
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, HANGING DROP 8.5 293 pH8.5 100mM Tris, 15-17% PEG4000 0.2M Na Acetate, VAPOR DIFFUSION, HANGING DROP, temperature 293K
Crystal Properties Matthews coefficient Solvent content 1.7 27.67
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 56.294 α = 90 b = 81.845 β = 90 c = 37.686 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 ADSC QUANTUM 270 2010-10-05 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON NSLS BEAMLINE X6A 1.0781 NSLS X6A
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 1.2 20 95.1 0.046 29 6.7 25920 25189 17.6
Highest Resolution Shell ID # Resolution (High) Resolution (Low) Percent Possible (All) Percent Possible (Observed) R-Sym I (Observed) Mean I Over Sigma (Observed) Redundancy Number Unique Reflections (All) 1 1.2 1.24 69.3 0.237 5.27 3.7 1844
Refinement Statistics Diffraction ID Structure Solution Method Cross Validation method Starting model Resolution (High) Resolution (Low) Number Reflections (All) 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 3K2M 1.2 19.75 25814 24512 1302 94.23 0.16147 0.16043 0.1651 0.18108 0.1872 RANDOM 26.278
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] -0.11 -0.25 0.36
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 30.851 r_dihedral_angle_4_deg 19.539 r_dihedral_angle_3_deg 11.663 r_dihedral_angle_1_deg 6.407 r_scangle_it 5.332 r_scbond_it 3.625 r_mcangle_it 2.939 r_mcbond_it 1.878 r_rigid_bond_restr 1.697 r_angle_refined_deg 1.539
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 30.851 r_dihedral_angle_4_deg 19.539 r_dihedral_angle_3_deg 11.663 r_dihedral_angle_1_deg 6.407 r_scangle_it 5.332 r_scbond_it 3.625 r_mcangle_it 2.939 r_mcbond_it 1.878 r_rigid_bond_restr 1.697 r_angle_refined_deg 1.539 r_chiral_restr 0.112 r_bond_refined_d 0.014 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_sphericity_free r_sphericity_bonded
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 792 Nucleic Acid Atoms Solvent Atoms 100 Heterogen Atoms 1
Software Software Software Name Purpose ADSC data collection PHASER phasing REFMAC refinement HKL-2000 data reduction HKL-2000 data scaling