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High resolution structure of a potent, cyclic protease inhibitor from sunflower seeds
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model PDB 1TLD
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 8 pH 8.0
Crystal Properties Matthews coefficient Solvent content 2.75 54.8
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 60.61 α = 90 b = 64.43 β = 90 c = 70.62 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 IMAGE PLATE MIRRORS 1998-05-19 M
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON SRS BEAMLINE PX7.2 SRS PX7.2
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 1.65 20 96.7 0.067 14 2.5 32839 18.43
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 1.65 1.78 91 0.223 3.8 2.2
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-Work (Depositor) R-Free (Depositor) R-Free Selection Details Mean Isotropic B X-RAY DIFFRACTION MOLECULAR REPLACEMENT THROUGHOUT 1TLD 1.65 20 30710 1672 96.7 0.175 0.204 SHELLS 21.11
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]
RMS Deviations Key Refinement Restraint Deviation p_transverse_tor 20.1 p_special_tor 15 p_staggered_tor 12.2 p_planar_tor 4.7 p_scangle_it 2.56 p_scbond_it 1.822 p_mcangle_it 1.787 p_mcbond_it 1.3 p_multtor_nbd 0.239 p_singtor_nbd 0.167
RMS Deviations Key Refinement Restraint Deviation p_transverse_tor 20.1 p_special_tor 15 p_staggered_tor 12.2 p_planar_tor 4.7 p_scangle_it 2.56 p_scbond_it 1.822 p_mcangle_it 1.787 p_mcbond_it 1.3 p_multtor_nbd 0.239 p_singtor_nbd 0.167 p_chiral_restr 0.138 p_xyhbond_nbd 0.1 p_planar_d 0.036 p_angle_d 0.03 p_plane_restr 0.0262 p_bond_d 0.014 p_angle_deg p_hb_or_metal_coord p_xhyhbond_nbd p_orthonormal_tor
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 1734 Nucleic Acid Atoms Solvent Atoms 376 Heterogen Atoms 16
Software Software Software Name Purpose DENZO data reduction SCALEPACK data scaling AMoRE phasing REFMAC refinement