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The 1.8 A crystal structure of a Proteinase K like enzyme from a psychrotroph Serratia species
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model PDB 1IC6
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, HANGING DROP 7 277 0.1M Tris, 45% ammonium sulfate, pH 7.0, VAPOR DIFFUSION, HANGING DROP, temperature 277K
Crystal Properties Matthews coefficient Solvent content 2.24 45.07
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 86.43 α = 90 b = 42.56 β = 110.19 c = 74.26 γ = 90
Symmetry Space Group C 1 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 120 IMAGE PLATE MARRESEARCH 2004-03-04 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON ESRF BEAMLINE BM1A 0.873 ESRF BM1A
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 1.8 23.76 100 0.114 0.114 6 3.7 23747 1 2 11.57
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 1.8 1.9 100 100 0.381 0.381 1.9 3.6
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 (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 1ic6 1.8 23.76 23747 1990 99.94 0.163 0.163 0.16 0.1598 0.194 0.193 RANDOM 9.94
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] 0.33 -0.21 0.31 -0.79
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 37.462 r_dihedral_angle_4_deg 18.036 r_dihedral_angle_3_deg 11.097 r_dihedral_angle_1_deg 6.348 r_scangle_it 2.331 r_scbond_it 1.64 r_angle_refined_deg 1.237 r_mcangle_it 0.938 r_mcbond_it 0.575 r_nbtor_refined 0.301
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 37.462 r_dihedral_angle_4_deg 18.036 r_dihedral_angle_3_deg 11.097 r_dihedral_angle_1_deg 6.348 r_scangle_it 2.331 r_scbond_it 1.64 r_angle_refined_deg 1.237 r_mcangle_it 0.938 r_mcbond_it 0.575 r_nbtor_refined 0.301 r_nbd_refined 0.198 r_symmetry_vdw_refined 0.117 r_xyhbond_nbd_refined 0.112 r_chiral_restr 0.089 r_symmetry_hbond_refined 0.07 r_metal_ion_refined 0.048 r_bond_refined_d 0.012 r_gen_planes_refined 0.005
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 2010 Nucleic Acid Atoms Solvent Atoms 209 Heterogen Atoms 11
Software Software Software Name Purpose SCALA data scaling MOLREP phasing REFMAC refinement PDB_EXTRACT data extraction DENZO data reduction CCP4 data scaling