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beta PIX-SH3 complexed with a Cbl-b peptide
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model PDB 1SEM pdb entry 1SEM
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 6.5 291 PEG 3000, SODIUM CITRATE, pH 6.5, VAPOR DIFFUSION, SITTING DROP, temperature 291K, pH 6.50
Crystal Properties Matthews coefficient Solvent content 2.59 52.43
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 69.338 α = 90 b = 69.338 β = 90 c = 58.113 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 4 MIRRORS M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON SRS BEAMLINE PX14.2 SRS PX14.2
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 1.85 26.17 99.5 0.086 31.8 2.94 14106
Highest Resolution Shell ID # Resolution (High) Resolution (Low) Percent Possible (All) Percent Possible (Observed) Mean I Over Sigma (Observed) Redundancy Number Unique Reflections (All) 1.85 1.93 98.1
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 pdb entry 1SEM 1.85 26.17 13340 99.5181 0.2202 0.227 0.2291 0.269 0.2697 RANDOM
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] 0.04 0.02 0.04 -0.06
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 20.3 r_dihedral_angle_1_deg 3.05 r_angle_refined_deg 1.04 r_nbtor_other 0.26 r_gen_planes_refined 0.23 r_nbd_other 0.18 r_dihedral_angle_3_deg 0.07 r_xyhbond_nbd_other 0.05 r_bond_refined_d r_bond_other_d
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 20.3 r_dihedral_angle_1_deg 3.05 r_angle_refined_deg 1.04 r_nbtor_other 0.26 r_gen_planes_refined 0.23 r_nbd_other 0.18 r_dihedral_angle_3_deg 0.07 r_xyhbond_nbd_other 0.05 r_bond_refined_d r_bond_other_d r_angle_other_deg r_dihedral_angle_4_deg r_chiral_restr r_gen_planes_other r_nbd_refined r_nbtor_refined r_xyhbond_nbd_refined 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_it r_mcbond_other r_mcangle_it r_scbond_it r_scangle_it r_rigid_bond_restr r_sphericity_free r_sphericity_bonded
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 1052 Nucleic Acid Atoms Solvent Atoms 164 Heterogen Atoms
Software Software Software Name Purpose DENZO data reduction SCALEPACK data scaling MOLREP phasing REFMAC refinement