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Crystal Structure of Heparinase II Complexed with a Disaccharide Product
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION 6 298 20% PEG 3350, 0.2M magnesium chloride, pH 6.0, VAPOR DIFFUSION, temperature 298.0K
Crystal Properties Matthews coefficient Solvent content 2.28 45.98
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 52.1 α = 90 b = 163.3 β = 105.5 c = 95.3 γ = 90
Symmetry Space Group P 1 21 1
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 2005-01-30 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON NSLS BEAMLINE X8C 0.97910 NSLS X8C
Data Collection Overall ID # Resolution (High) Resolution (Low) Percent Possible (Observed) R Merge I (Observed) R Sym 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 50 94.5 0.111 0.095 10 3.4 126846
Highest Resolution Shell ID # Resolution (High) Resolution (Low) Percent Possible (All) Percent Possible (Observed) R Merge I (Observed) R-Sym I (Observed) Mean I Over Sigma (Observed) Redundancy Number Unique Reflections (All) 1 2.3 2.38 84.9 0.487 0.395 2.05 3.1
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 (Observed) R-Work (Depositor) R-Work (DCC) R-Free (Depositor) R-Free (DCC) R-Free Selection Details Mean Isotropic B X-RAY DIFFRACTION SAD THROUGHOUT 2.3 91.67 61828 61828 3309 96.03 0.17822 0.17588 0.1809 0.22133 0.2198 RANDOM 20.119
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] 1.54 -1.4 -3.06 0.78
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 35.183 r_dihedral_angle_4_deg 16.727 r_dihedral_angle_3_deg 15.395 r_dihedral_angle_1_deg 5.828 r_scangle_it 1.756 r_scbond_it 1.163 r_angle_refined_deg 1.121 r_mcangle_it 0.733 r_mcbond_it 0.515 r_nbtor_refined 0.307
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 35.183 r_dihedral_angle_4_deg 16.727 r_dihedral_angle_3_deg 15.395 r_dihedral_angle_1_deg 5.828 r_scangle_it 1.756 r_scbond_it 1.163 r_angle_refined_deg 1.121 r_mcangle_it 0.733 r_mcbond_it 0.515 r_nbtor_refined 0.307 r_nbd_refined 0.189 r_symmetry_hbond_refined 0.188 r_symmetry_vdw_refined 0.18 r_xyhbond_nbd_refined 0.134 r_metal_ion_refined 0.097 r_chiral_restr 0.077 r_bond_refined_d 0.008 r_gen_planes_refined 0.003 r_bond_other_d r_angle_other_deg r_gen_planes_other r_nbd_other r_nbtor_other r_xyhbond_nbd_other r_metal_ion_other r_symmetry_vdw_other r_symmetry_hbond_other r_symmetry_metal_ion_refined r_symmetry_metal_ion_other r_mcbond_other r_rigid_bond_restr r_sphericity_free r_sphericity_bonded
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 11897 Nucleic Acid Atoms Solvent Atoms 783 Heterogen Atoms 72
Software Software Software Name Purpose REFMAC refinement HKL-2000 data reduction SCALEPACK data scaling SOLVE phasing