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Crystal structure of recombinant Kunitz Type serine protease Inhibitor-1 from the Carribean sea anemone stichodactyla helianthus
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model PDB 1SHP PDB entry 1SHP
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, HANGING DROP 8.5 288.15 1.7 M ammonium sulphate, 0.1 M Tris-HCl, 6% glycerol, pH 8.5, VAPOR DIFFUSION, HANGING DROP, temperature 288.15K
Crystal Properties Matthews coefficient Solvent content 3 58.94
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 37.158 α = 90 b = 37.158 β = 90 c = 114.98 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 288 IMAGE PLATE MARRESEARCH 2010-05-10 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 ROTATING ANODE RIGAKU
Data Collection Overall ID # Resolution (High) Resolution (Low) Percent Possible (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 2.5 35.358 3127
Highest Resolution Shell ID # Resolution (High) Resolution (Low) Percent Possible (All) Percent Possible (Observed) Mean I Over Sigma (Observed) Redundancy Number Unique Reflections (All) 1 2.5 2.64
Refinement Statistics Diffraction ID Structure Solution Method Cross Validation method Starting model Resolution (High) Resolution (Low) Cut-off Sigma (F) Number Reflections (All) Number Reflections (Observed) Number Reflections (R-Free) Percent Reflections (Observed) 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 PDB entry 1SHP 2.5 35.35 2 3127 2955 135 98.41 0.19118 0.18972 0.1844 0.22103 0.2124 RANDOM 21.497
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] 1.06 1.06 -2.12
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 30.518 r_dihedral_angle_3_deg 20.866 r_dihedral_angle_4_deg 17.746 r_dihedral_angle_1_deg 7.19 r_scangle_it 3.478 r_scbond_it 2.03 r_mcangle_it 1.533 r_angle_refined_deg 1.402 r_mcbond_it 0.904 r_symmetry_hbond_refined 0.354
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 30.518 r_dihedral_angle_3_deg 20.866 r_dihedral_angle_4_deg 17.746 r_dihedral_angle_1_deg 7.19 r_scangle_it 3.478 r_scbond_it 2.03 r_mcangle_it 1.533 r_angle_refined_deg 1.402 r_mcbond_it 0.904 r_symmetry_hbond_refined 0.354 r_nbtor_refined 0.319 r_symmetry_vdw_refined 0.23 r_nbd_refined 0.192 r_xyhbond_nbd_refined 0.186 r_chiral_restr 0.105 r_bond_refined_d 0.012 r_gen_planes_refined 0.005
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 435 Nucleic Acid Atoms Solvent Atoms 26 Heterogen Atoms 3
Software Software Software Name Purpose MAR345dtb data collection AMoRE phasing REFMAC refinement DENZO data reduction SCALA data scaling