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Thermodynamics and structure of a salmon cold-active goose-type lysozyme
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model PDB 153L PDB ENTRY 153L
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, HANGING DROP 295 43-45 % ammonium sulphate, 0.01M cobalt chloride, 0.1M MES , pH 6.25-6.5, VAPOR DIFFUSION, HANGING DROP, temperature 295K
Crystal Properties Matthews coefficient Solvent content 2.46 49.96
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 103.15 α = 90 b = 103.15 β = 90 c = 48.67 γ = 120
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 MARMOSAIC 225 mm CCD 2007-12-04 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON BESSY BEAMLINE 14.1 0.91841 BESSY 14.1
Data Collection Overall ID # Resolution (High) Resolution (Low) Percent Possible (Observed) R Merge I (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 1.75 42.76 99.6 0.088 0.088 11.3 3.6 19410 19410 2 20.38
Highest Resolution Shell ID # Resolution (High) Resolution (Low) Percent Possible (All) Percent Possible (Observed) R Merge I (Observed) R-Sym I (Observed) Mean I Over Sigma (Observed) Redundancy Number Unique Reflections (All) 1 1.75 1.84 99.9 0.49 0.49 1.5 3.6 2840
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 153L 1.75 42.76 18417 989 99.64 0.178 0.176 0.1741 0.215 0.2124 RANDOM 24.55
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] -0.23 -0.12 -0.23 0.35
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 34.821 r_dihedral_angle_4_deg 24.174 r_dihedral_angle_3_deg 13.596 r_dihedral_angle_1_deg 5.353 r_scangle_it 3.584 r_scbond_it 2.368 r_mcangle_it 1.581 r_angle_refined_deg 1.298 r_mcbond_it 0.987 r_nbtor_refined 0.307
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 34.821 r_dihedral_angle_4_deg 24.174 r_dihedral_angle_3_deg 13.596 r_dihedral_angle_1_deg 5.353 r_scangle_it 3.584 r_scbond_it 2.368 r_mcangle_it 1.581 r_angle_refined_deg 1.298 r_mcbond_it 0.987 r_nbtor_refined 0.307 r_symmetry_hbond_refined 0.216 r_nbd_refined 0.207 r_xyhbond_nbd_refined 0.135 r_symmetry_vdw_refined 0.123 r_chiral_restr 0.091 r_bond_refined_d 0.014 r_gen_planes_refined 0.006
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 1429 Nucleic Acid Atoms Solvent Atoms 148 Heterogen Atoms 6
Software Software Software Name Purpose MAR345 data collection MOLREP phasing REFMAC refinement MOSFLM data reduction SCALA data scaling