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Crystal Structure of the trypsin complex with benzamidine at high temperature (35 C)
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model PDB 2AYW
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, SITTING DROP 6 308 PEG 9000, 2,5mM benzamidine, ammonium sulphate. CaCl2, pH 6.0, VAPOR DIFFUSION, SITTING DROP, temperature 308K
Crystal Properties Matthews coefficient Solvent content 2.31 46.82
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 54.756 α = 90 b = 58.484 β = 90 c = 67.406 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 300 IMAGE PLATE MARRESEARCH mirror 2006-10-05 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 ROTATING ANODE RIGAKU RU300 1.5418
Data Collection Overall ID # Resolution (High) Resolution (Low) Percent Possible (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 1.3 50 100 0.26 42.2 51449 13.3
Highest Resolution Shell ID # Resolution (High) Resolution (Low) Percent Possible (All) Percent Possible (Observed) R-Sym I (Observed) Mean I Over Sigma (Observed) Redundancy Number Unique Reflections (All) 1 1.32 1.34 100 0.46 4.5
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 (All) R-Factor (Observed) R-Work (Depositor) R-Free (Depositor) R-Free Selection Details Mean Isotropic B X-RAY DIFFRACTION MOLECULAR REPLACEMENT THROUGHOUT 2AYW 1.32 44.19 51449 50390 1059 99.81 0.156 0.15539 0.15533 0.15814 RANDOM 11.288
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 -0.07 -0.03
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 37.266 r_dihedral_angle_3_deg 17.299 r_dihedral_angle_4_deg 16.238 r_dihedral_angle_1_deg 6.147 r_scangle_it 3.334 r_angle_other_deg 2.79 r_scbond_it 2.371 r_mcangle_it 1.563 r_angle_refined_deg 1.522 r_mcbond_it 1.042
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 37.266 r_dihedral_angle_3_deg 17.299 r_dihedral_angle_4_deg 16.238 r_dihedral_angle_1_deg 6.147 r_scangle_it 3.334 r_angle_other_deg 2.79 r_scbond_it 2.371 r_mcangle_it 1.563 r_angle_refined_deg 1.522 r_mcbond_it 1.042 r_nbd_refined 0.398 r_symmetry_vdw_refined 0.269 r_symmetry_vdw_other 0.23 r_nbd_other 0.212 r_mcbond_other 0.21 r_nbtor_refined 0.178 r_xyhbond_nbd_refined 0.15 r_metal_ion_refined 0.138 r_symmetry_hbond_refined 0.136 r_nbtor_other 0.095 r_chiral_restr 0.093 r_bond_other_d 0.013 r_bond_refined_d 0.01 r_gen_planes_refined 0.005 r_gen_planes_other 0.001 r_xyhbond_nbd_other r_metal_ion_other r_symmetry_hbond_other r_symmetry_metal_ion_refined r_symmetry_metal_ion_other r_rigid_bond_restr r_sphericity_free r_sphericity_bonded
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 1628 Nucleic Acid Atoms Solvent Atoms 235 Heterogen Atoms 15
Software Software Software Name Purpose REFMAC refinement MAR345 data collection AUTOMAR data reduction SCALEPACK data scaling AMoRE phasing