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Human NUMB-like protein, phosphotyrosine interaction domain
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model PDB 1WJ1 PDB ENTRY 1WJ1
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, HANGING DROP 4.7 277 24 % PEG 8000, 0.1M Lithium sulphate, 0.1M Sodium Acetate, pH 4.7, VAPOR DIFFUSION, HANGING DROP, temperature 277K
Crystal Properties Matthews coefficient Solvent content 2.27 45.92
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 55.15 α = 90 b = 55.15 β = 90 c = 99.35 γ = 120
Symmetry Space Group P 32 2 1
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 mirrors 2008-04-22 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON ESRF BEAMLINE ID23-1 1.000 ESRF ID23-1
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 2.7 20 99.1 0.066 19.28 6.9 5126 5126
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 2.7 2.77 98.7 0.565 4.03 7.2 381
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 (All) 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 1WJ1 2.7 18.46 4591 4591 510 100 0.24223 0.24223 0.23771 0.2374 0.28115 0.2923 RANDOM 16.449
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] -0.45 -0.22 -0.45 0.67
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 30.663 r_dihedral_angle_4_deg 14.151 r_dihedral_angle_3_deg 13.961 r_dihedral_angle_1_deg 5.479 r_scangle_it 1.034 r_angle_refined_deg 0.923 r_angle_other_deg 0.773 r_scbond_it 0.591 r_mcangle_it 0.445 r_mcbond_it 0.23
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 30.663 r_dihedral_angle_4_deg 14.151 r_dihedral_angle_3_deg 13.961 r_dihedral_angle_1_deg 5.479 r_scangle_it 1.034 r_angle_refined_deg 0.923 r_angle_other_deg 0.773 r_scbond_it 0.591 r_mcangle_it 0.445 r_mcbond_it 0.23 r_chiral_restr 0.055 r_mcbond_other 0.029 r_bond_refined_d 0.006 r_gen_planes_refined 0.003 r_bond_other_d 0.001 r_gen_planes_other 0.001 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_rigid_bond_restr r_sphericity_free r_sphericity_bonded
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 1188 Nucleic Acid Atoms Solvent Atoms Heterogen Atoms 7
Software Software Software Name Purpose MxCuBE data collection MOLREP phasing REFMAC refinement XDS data reduction XSCALE data scaling