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HeparinaseII H202A/Y257A double mutant complexed with a heparan sulfate tetrasaccharide substrate
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model PDB 2FUT PDB ENTRY 2FUT
Crystallization Crystal Properties Matthews coefficient Solvent content 2.26 45.55
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 51.951 α = 90 b = 162.21 β = 105.97 c = 93.838 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 mirrors 2006-04-25 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON NSLS BEAMLINE X8C 1.1 NSLS X8C
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 2.1 50 82.9 0.066 15.5 3.3 72010 1
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 2.1 2.18 36.1 0.429 1.5 1.7
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-Factor (Observed) R-Work (Depositor) R-Work (DCC) R-Free (Depositor) R-Free (DCC) R-Free Selection Details Mean Isotropic B X-RAY DIFFRACTION THROUGHOUT PDB ENTRY 2FUT 2.1 42.52 68316 3630 82.87 0.20116 0.19936 0.2072 0.2345 0.2379 RANDOM 49.966
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] 0.39 2.48 -4.69 5.66
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 34.985 r_dihedral_angle_4_deg 17.064 r_dihedral_angle_3_deg 14.924 r_dihedral_angle_1_deg 4.955 r_angle_refined_deg 0.966 r_scangle_it 0.397 r_scbond_it 0.275 r_mcangle_it 0.132 r_mcbond_it 0.077 r_chiral_restr 0.066
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 34.985 r_dihedral_angle_4_deg 17.064 r_dihedral_angle_3_deg 14.924 r_dihedral_angle_1_deg 4.955 r_angle_refined_deg 0.966 r_scangle_it 0.397 r_scbond_it 0.275 r_mcangle_it 0.132 r_mcbond_it 0.077 r_chiral_restr 0.066 r_bond_refined_d 0.007 r_gen_planes_refined 0.003 r_bond_other_d r_angle_other_deg r_gen_planes_other r_nbd_refined r_nbd_other r_nbtor_refined r_nbtor_other r_xyhbond_nbd_refined r_xyhbond_nbd_other r_metal_ion_refined r_metal_ion_other r_symmetry_vdw_refined r_symmetry_vdw_other r_symmetry_hbond_refined 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 11876 Nucleic Acid Atoms Solvent Atoms 782 Heterogen Atoms 126
Software Software Software Name Purpose DENZO data reduction SCALEPACK data scaling REFMAC refinement PDB_EXTRACT data extraction HKL-2000 data reduction HKL-2000 data scaling