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CRYSTAL STRUCTURE OF A HUMAN FACTOR XA INHIBITOR COMPLEX
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model PDB 1EZQ PDB ENTRY 1EZQ
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 5.85 18% PEG6K, 50MM MES PH 5.85, 5MM CACL2, 50MM NACL
Crystal Properties Matthews coefficient Solvent content 2.35 47.32
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 56.862 α = 90 b = 72.862 β = 90 c = 78.142 γ = 90
Symmetry Space Group P 21 21 21
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 CCD MIRRORS 2002-07-10 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON ESRF BEAMLINE ID14-4 ESRF ID14-4
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 1.8 25 99.8 0.06 26 4.8 147052
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 1.8 1.83 99.3 0.29 4.6
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 FOURIER SYNTHESIS THROUGHOUT PDB ENTRY 1EZQ 1.8 20 29094 1546 100 0.192 0.189 0.213 0.234 0.2547 RANDOM 31.55
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 -1.31 1.7
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 28.891 r_dihedral_angle_4_deg 17.156 r_dihedral_angle_3_deg 11.131 r_scangle_it 6.119 r_dihedral_angle_1_deg 4.595 r_scbond_it 4.205 r_mcangle_it 2.998 r_mcbond_it 1.889 r_angle_refined_deg 1.627 r_nbtor_refined 0.312
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 28.891 r_dihedral_angle_4_deg 17.156 r_dihedral_angle_3_deg 11.131 r_scangle_it 6.119 r_dihedral_angle_1_deg 4.595 r_scbond_it 4.205 r_mcangle_it 2.998 r_mcbond_it 1.889 r_angle_refined_deg 1.627 r_nbtor_refined 0.312 r_nbd_refined 0.2 r_symmetry_vdw_refined 0.194 r_xyhbond_nbd_refined 0.169 r_chiral_restr 0.122 r_symmetry_hbond_refined 0.11 r_bond_refined_d 0.016 r_gen_planes_refined 0.006 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_refined 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_mcangle_other r_scbond_other r_scangle_other r_long_range_B_refined r_long_range_B_other r_rigid_bond_restr r_sphericity_free r_sphericity_bonded
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 2213 Nucleic Acid Atoms Solvent Atoms 207 Heterogen Atoms 37
Software Software Software Name Purpose REFMAC refinement DENZO data reduction SCALEPACK data scaling