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Succinyl-AAPR-trypsin acyl-enzyme at 1.15 A resolution
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model PDB 1TLD PDB entry 1TLD with solvent removed
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, HANGING DROP 6 298 ammonium sulfate, bis-tris propane, calcium chloride, benzamidine, pH 6.0, VAPOR DIFFUSION, HANGING DROP, temperature 298K
Crystal Properties Matthews coefficient Solvent content 2.81 55
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 61.948 α = 90 b = 63.72 β = 90 c = 69.008 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 ADSC QUANTUM 4 2003-10-05 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON ALS BEAMLINE 8.3.1 1.00000 ALS 8.3.1
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 1.15 46.63 99.27 0.046 0.046 9.3 3.3 86942 86942 -3
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 1.15 1.21 0.658 0.658 1.1 1.4
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 (DCC) R-Free Selection Details Mean Isotropic B X-RAY DIFFRACTION MOLECULAR REPLACEMENT THROUGHOUT PDB entry 1TLD with solvent removed 1.15 46.63 86941 86941 4351 93.56 0.12 0.12 0.119 0.138 0.1658 RANDOM 13.438
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] -0.43 -0.08 0.51
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 39.272 r_sphericity_free 17.293 r_dihedral_angle_3_deg 11.513 r_dihedral_angle_4_deg 11.124 r_sphericity_bonded 8.462 r_rigid_bond_restr 6.874 r_scangle_it 6.635 r_dihedral_angle_1_deg 6.593 r_scbond_it 5.451 r_mcangle_it 4.173
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 39.272 r_sphericity_free 17.293 r_dihedral_angle_3_deg 11.513 r_dihedral_angle_4_deg 11.124 r_sphericity_bonded 8.462 r_rigid_bond_restr 6.874 r_scangle_it 6.635 r_dihedral_angle_1_deg 6.593 r_scbond_it 5.451 r_mcangle_it 4.173 r_mcbond_it 3.212 r_angle_other_deg 2.687 r_mcbond_other 2.391 r_angle_refined_deg 1.851 r_symmetry_vdw_other 0.377 r_nbd_refined 0.373 r_nbd_other 0.263 r_symmetry_vdw_refined 0.225 r_xyhbond_nbd_refined 0.212 r_symmetry_hbond_refined 0.201 r_chiral_restr 0.151 r_metal_ion_refined 0.121 r_nbtor_other 0.099 r_bond_refined_d 0.018 r_gen_planes_refined 0.009 r_bond_other_d 0.004 r_gen_planes_other 0.002
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 1652 Nucleic Acid Atoms Solvent Atoms 390 Heterogen Atoms 1
Software Software Software Name Purpose MOSFLM data reduction SCALA data scaling TRUNCATE data reduction EPMR phasing REFMAC refinement CCP4 data scaling TRUNCATE data scaling