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Structure of Heparinase I from Bacteroides thetaiotaomicron in complex with tetrasaccharide product
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, HANGING DROP 7.5 293 22.5% PEG 3350, 0.1mM Tris-HCl, 0.8mM CaCl2, pH 7.5, VAPOR DIFFUSION, HANGING DROP, temperature 293K
Crystal Properties Matthews coefficient Solvent content 2.17 43.34
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 75.736 α = 90 b = 109.604 β = 90 c = 43.858 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 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON APS BEAMLINE 31-ID 0.97929 APS 31-ID
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 1.5 20 96.8 0.06 10.1 6.7 57519
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) 1.5 1.53 75.7 0.373 4.1 2965
Refinement Statistics Diffraction ID Structure Solution Method Cross Validation method Resolution (High) Resolution (Low) 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 1.5 19.81 57461 2894 96.71 0.177 0.176 0.1786 0.209 0.2125 RANDOM 16.777
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 r_dihedral_angle_2_deg 35.129 r_dihedral_angle_4_deg 18.8 r_dihedral_angle_3_deg 12.854 r_dihedral_angle_1_deg 6.365 r_scangle_it 2.945 r_scbond_it 2.008 r_angle_refined_deg 1.484 r_mcangle_it 1.262 r_mcbond_it 0.759 r_chiral_restr 0.103
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 35.129 r_dihedral_angle_4_deg 18.8 r_dihedral_angle_3_deg 12.854 r_dihedral_angle_1_deg 6.365 r_scangle_it 2.945 r_scbond_it 2.008 r_angle_refined_deg 1.484 r_mcangle_it 1.262 r_mcbond_it 0.759 r_chiral_restr 0.103 r_bond_refined_d 0.011 r_gen_planes_refined 0.008
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 3031 Nucleic Acid Atoms Solvent Atoms 324 Heterogen Atoms 97
Software Software Software Name Purpose DENZO data reduction SCALEPACK data scaling MOLREP phasing REFMAC refinement PDB_EXTRACT data extraction