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Crystal structure of an unusual Kunitz-type trypsin inhibitor from Copaifera langsdorffii seeds
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, HANGING DROP 4.3 291 25% PEG4000 in 0.1M sodium acetate buffer, pH 4.3, VAPOR DIFFUSION, HANGING DROP, temperature 291K
Crystal Properties Matthews coefficient Solvent content 2.24 45.05
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 58.71 α = 90 b = 58.71 β = 90 c = 93.75 γ = 90
Symmetry Space Group P 43 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 IMAGE PLATE MARRESEARCH 2000-09-04 M SINGLE WAVELENGTH 2 1 x-ray 100 IMAGE PLATE MARRESEARCH 2000-09-15 M SINGLE WAVELENGTH 3 1 x-ray 100 IMAGE PLATE MARRESEARCH 2000-09-18 M SINGLE WAVELENGTH 1,2,3 1
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON LNLS BEAMLINE D03B-MX1 1.54 LNLS D03B-MX1 2 SYNCHROTRON LNLS BEAMLINE D03B-MX1 1.54 LNLS D03B-MX1 3 SYNCHROTRON LNLS BEAMLINE D03B-MX1 1.54 LNLS D03B-MX1
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 1,2,3 1.83 25.28 95.7 0.089 23.6 8.2 15027 14387 14.2
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) 1,2,3 1.83 1.87 97.6 0.508 3.3 5.4 14387
Refinement Statistics Diffraction ID Structure Solution Method Cross Validation method 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 SIR QUICK CRIO-SOAKING METHOD THROUGHOUT 1.83 25.28 15027 14387 703 95.7 0.17 0.17 0.16844 0.1728 0.21237 0.1736 RANDOM 13.229
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] 0.21 0.21 -0.41
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_1_deg 6.559 r_scangle_it 4.823 r_scbond_it 3.052 r_mcangle_it 1.885 r_angle_refined_deg 1.734 r_mcbond_it 1.064 r_symmetry_hbond_refined 0.464 r_symmetry_vdw_refined 0.396 r_xyhbond_nbd_refined 0.256 r_nbd_refined 0.229
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_1_deg 6.559 r_scangle_it 4.823 r_scbond_it 3.052 r_mcangle_it 1.885 r_angle_refined_deg 1.734 r_mcbond_it 1.064 r_symmetry_hbond_refined 0.464 r_symmetry_vdw_refined 0.396 r_xyhbond_nbd_refined 0.256 r_nbd_refined 0.229 r_chiral_restr 0.134 r_bond_refined_d 0.019 r_gen_planes_refined 0.008
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 1267 Nucleic Acid Atoms Solvent Atoms 182 Heterogen Atoms
Software Software Software Name Purpose REFMAC refinement DENZO data reduction SCALEPACK data scaling SHARP phasing