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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% PEG 6K, 100MM MES PH5.75, 10MM CACL2, pH 5.85
Crystal Properties Matthews coefficient Solvent content 2.45 35.53
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 57.023 α = 90 b = 73.024 β = 90 c = 80.224 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 2001-05-10 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON SRS BEAMLINE PX9.6 SRS PX9.6
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 30 99.5 0.05 4 22752
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 2.07 0.38
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 MOLECULAR REPLACEMENT THROUGHOUT PDB ENTRY 1EZQ 2.01 20 21405 1154 100 0.195 0.193 0.1956 0.242 0.248 RANDOM 36.95
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] 0.41 -1.31 0.91
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 28.159 r_dihedral_angle_4_deg 19.702 r_dihedral_angle_3_deg 10.993 r_scangle_it 5.391 r_dihedral_angle_1_deg 3.995 r_scbond_it 3.772 r_mcangle_it 2.966 r_mcbond_it 1.8 r_angle_refined_deg 1.538 r_nbtor_refined 0.301
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 28.159 r_dihedral_angle_4_deg 19.702 r_dihedral_angle_3_deg 10.993 r_scangle_it 5.391 r_dihedral_angle_1_deg 3.995 r_scbond_it 3.772 r_mcangle_it 2.966 r_mcbond_it 1.8 r_angle_refined_deg 1.538 r_nbtor_refined 0.301 r_nbd_refined 0.195 r_symmetry_vdw_refined 0.183 r_xyhbond_nbd_refined 0.15 r_chiral_restr 0.116 r_symmetry_hbond_refined 0.097 r_bond_refined_d 0.017 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 2230 Nucleic Acid Atoms Solvent Atoms 168 Heterogen Atoms 32
Software Software Software Name Purpose REFMAC refinement DENZO data reduction SCALEPACK data scaling