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E. coli (lacz) beta-galactosidase (E416V)
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model PDB 1DP0 PDB entry 1DP0
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, HANGING DROP 6.5 288 PEG8000, NaCl, MgCl2, DTT, Bis-Tris, pH6.5, HANGING DROP AT 288K, VAPOR DIFFUSION, HANGING DROP
Crystal Properties Matthews coefficient Solvent content 2.71 54.58
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 149.38 α = 90 b = 168.3 β = 90 c = 200.73 γ = 90
Symmetry Space Group P 21 21 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 210 KOHZU: Double Crystal SI(111) 2007-08-01 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON ALS BEAMLINE 8.3.1 ALS 8.3.1
Data Collection Overall ID # Resolution (High) Resolution (Low) Percent Possible (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 83.3 100 1256692 291981
Highest Resolution Shell ID # Resolution (High) Resolution (Low) Percent Possible (All) Percent Possible (Observed) Mean I Over Sigma (Observed) Redundancy Number Unique Reflections (All) 2.7 75.2
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 1DP0 2.7 83.33 117793 1651 100 0.1848 0.18383 0.1853 0.25312 0.2525 RANDOM 21.625
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] -0.05 0.01 0.04
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 36.012 r_dihedral_angle_4_deg 13.762 r_dihedral_angle_3_deg 13.583 r_dihedral_angle_1_deg 5.601 r_scangle_it 3.747 r_scbond_it 2.428 r_mcangle_it 1.833 r_mcbond_it 1.026 r_angle_refined_deg 0.95 r_nbtor_refined 0.302
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 36.012 r_dihedral_angle_4_deg 13.762 r_dihedral_angle_3_deg 13.583 r_dihedral_angle_1_deg 5.601 r_scangle_it 3.747 r_scbond_it 2.428 r_mcangle_it 1.833 r_mcbond_it 1.026 r_angle_refined_deg 0.95 r_nbtor_refined 0.302 r_symmetry_hbond_refined 0.246 r_nbd_refined 0.173 r_symmetry_vdw_refined 0.16 r_xyhbond_nbd_refined 0.121 r_metal_ion_refined 0.08 r_chiral_restr 0.063 r_bond_refined_d 0.006 r_gen_planes_refined 0.002 r_bond_other_d r_angle_other_deg r_gen_planes_other r_nbd_other r_nbtor_other r_xyhbond_nbd_other r_metal_ion_other r_symmetry_vdw_other 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 32492 Nucleic Acid Atoms Solvent Atoms 2393 Heterogen Atoms 447
Software Software Software Name Purpose REFMAC refinement CNS refinement ADSC data collection MOSFLM data reduction SCALA data scaling CNS phasing