☰ Navigation Tabs
Trypsin complexed to a synthetic peptide from Veronica hederifolia
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model PDB 1SFI
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, HANGING DROP 7.5 291.15 1.3-1.5M Na Citrate, 0.1M Na Hepes, pH 7.5, VAPOR DIFFUSION, HANGING DROP, temperature 291.15K
Crystal Properties Matthews coefficient Solvent content 2.28 46.08
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 113.558 α = 90 b = 41.521 β = 90 c = 51.189 γ = 90
Symmetry Space Group P 21 21 2
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 2007-01-23 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON SRS BEAMLINE PX14.1 1.488 SRS PX14.1
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 1.56 56.8 80.2 0.044 20.7 3.8 28405 28405
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 1.56 1.62 11.5 0.611 1.1 397
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-Work (DCC) R-Free (Depositor) R-Free (DCC) R-Free Selection Details Mean Isotropic B X-RAY DIFFRACTION MOLECULAR REPLACEMENT THROUGHOUT 1SFI 1.56 56.8 28405 28371 1442 80.38 0.145 0.145 0.143 0.1505 0.188 0.1935 RANDOM 17.031
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] -0.55 -0.34 0.88
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 37.33 r_dihedral_angle_4_deg 13.485 r_dihedral_angle_3_deg 12.636 r_dihedral_angle_1_deg 6.733 r_scangle_it 2.845 r_scbond_it 2.16 r_angle_refined_deg 1.738 r_mcangle_it 1.325 r_mcbond_it 0.911 r_nbtor_refined 0.306
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 37.33 r_dihedral_angle_4_deg 13.485 r_dihedral_angle_3_deg 12.636 r_dihedral_angle_1_deg 6.733 r_scangle_it 2.845 r_scbond_it 2.16 r_angle_refined_deg 1.738 r_mcangle_it 1.325 r_mcbond_it 0.911 r_nbtor_refined 0.306 r_symmetry_vdw_refined 0.277 r_nbd_refined 0.217 r_symmetry_hbond_refined 0.204 r_xyhbond_nbd_refined 0.177 r_chiral_restr 0.139 r_metal_ion_refined 0.069 r_bond_refined_d 0.019 r_gen_planes_refined 0.008
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 1842 Nucleic Acid Atoms Solvent Atoms 318 Heterogen Atoms 26
Software Software Software Name Purpose DENZO data reduction SCALEPACK data scaling PHASER phasing REFMAC refinement PDB_EXTRACT data extraction HKL-2000 data collection HKL-2000 data reduction