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Crystal structure of bovine trypsin complexed with sfti-1 analog containing a peptoid residue at position p1
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model PDB 1SFI PDB ENTRY 1SFI
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, HANGING DROP 6 292 2.3 M ammonium sulphate, 1 mM benzamidine and 0.1 M Mes, pH 6.0, VAPOR DIFFUSION, HANGING DROP, temperature 292K
Crystal Properties Matthews coefficient Solvent content 2.72 54.71
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 60.12 α = 90 b = 64.14 β = 90 c = 70.04 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 MAR CCD 165 mm mirrors 2007-02-06 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON EMBL/DESY, HAMBURG BEAMLINE X11 0.8148 EMBL/DESY, HAMBURG X11
Data Collection Overall ID # Resolution (High) Resolution (Low) Percent Possible (Observed) R Merge 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 1.29 37.17 99.4 0.057 16.5 7.2 67689 67689 -3 19.74
Highest Resolution Shell ID # Resolution (High) Resolution (Low) Percent Possible (All) Percent Possible (Observed) R Merge I (Observed) Mean I Over Sigma (Observed) Redundancy Number Unique Reflections (All) 1 1.29 1.36 98.6 0.804 2 6.8 9680
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 R-free PDB ENTRY 1SFI 1.29 30.74 65592 65592 2036 99.2 0.12714 0.12623 0.1302 0.1567 0.1588 RANDOM 16.878
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] -0.1 0.11
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 40.014 r_sphericity_free 29.371 r_dihedral_angle_4_deg 19.989 r_sphericity_bonded 14.591 r_dihedral_angle_3_deg 10.617 r_dihedral_angle_1_deg 6.738 r_rigid_bond_restr 4.977 r_angle_other_deg 2.098 r_angle_refined_deg 1.978 r_chiral_restr 0.13
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 40.014 r_sphericity_free 29.371 r_dihedral_angle_4_deg 19.989 r_sphericity_bonded 14.591 r_dihedral_angle_3_deg 10.617 r_dihedral_angle_1_deg 6.738 r_rigid_bond_restr 4.977 r_angle_other_deg 2.098 r_angle_refined_deg 1.978 r_chiral_restr 0.13 r_bond_refined_d 0.018 r_gen_planes_refined 0.01 r_bond_other_d 0.007 r_gen_planes_other 0.002
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 1719 Nucleic Acid Atoms Solvent Atoms 287 Heterogen Atoms 46
Software Software Software Name Purpose MAR345 data collection MOLREP phasing REFMAC refinement MOSFLM data reduction SCALA data scaling