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Bovine beta-lactoglobulin crystallized in the presence of 20 mM zinc chloride
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model PDB 3PH5 PDB ENTRY 3PH5
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 BATCH 5.9 277 20 mM zinc chloride, pH 5.9, BATCH, temperature 277K
Crystal Properties Matthews coefficient Solvent content 2.59 52.56
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 89.82 α = 90 b = 89.82 β = 90 c = 40.75 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 PIXEL DECTRIS PILATUS 6M 2013-03-26 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON PETRA III, EMBL c/o DESY BEAMLINE P13 (MX1) 1.2380 PETRA III, EMBL c/o DESY P13 (MX1)
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 2.44 38.89 99.4 30.57 8.4 7223 7223 -3 -3
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 2.44 2.5 93.9 14.86 7.8
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 3PH5 2.44 38.89 6365 6365 868 99.48 0.20721 0.20366 0.2084 0.23316 0.2266 RANDOM 55.09
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] 0.29 0.15 0.29 -0.94
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 29.158 r_dihedral_angle_3_deg 11.067 r_dihedral_angle_4_deg 4.582 r_dihedral_angle_1_deg 4.551 r_long_range_B_refined 3.092 r_scbond_it 2.349 r_mcangle_it 2.328 r_mcbond_it 1.513 r_mcbond_other 1.505 r_angle_refined_deg 0.871
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 29.158 r_dihedral_angle_3_deg 11.067 r_dihedral_angle_4_deg 4.582 r_dihedral_angle_1_deg 4.551 r_long_range_B_refined 3.092 r_scbond_it 2.349 r_mcangle_it 2.328 r_mcbond_it 1.513 r_mcbond_other 1.505 r_angle_refined_deg 0.871 r_angle_other_deg 0.644 r_chiral_restr 0.054 r_bond_refined_d 0.004 r_gen_planes_refined 0.002 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_mcangle_other r_scbond_other r_scangle_it r_scangle_other r_long_range_B_other r_rigid_bond_restr r_sphericity_free r_sphericity_bonded
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 1252 Nucleic Acid Atoms Solvent Atoms 10 Heterogen Atoms 3
Software Software Software Name Purpose MxCuBE data collection PHASER phasing REFMAC refinement XDS data reduction XSCALE data scaling