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Crystal Structure of the Heparin Cofactor II-S195A Thrombin Complex
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model Other N-terminal half of native heparin cofactor II and native S195A thrombin
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, HANGING DROP 7.4 298 NH4Cl, PEG 3350, pH 7.4, VAPOR DIFFUSION, HANGING DROP at 298K
Crystal Properties Matthews coefficient Solvent content 4.68 73.75
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 152.31 α = 90 b = 152.31 β = 90 c = 126.8 γ = 120
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 2001-01-30 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON SRS BEAMLINE PX14.1 1.4880 SRS PX14.1
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 2.2 30 91.2 0.086 0.081 6.5 6.2 84555 77077 2 1 51.2
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 2.21 2.35 62.5 0.539 0.434 1.5 2.2 16159
Refinement Statistics Diffraction ID Structure Solution Method Cross Validation method Starting model Resolution (High) Resolution (Low) Number Reflections (All) Number Reflections (Observed) Number Reflections (R-Free) Percent Reflections (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 N-terminal half of native heparin cofactor II and native S195A thrombin 2.2 29.44 84555 77077 983 91.2 0.205 0.205 0.211 0.2138 random 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] 4.2 6.15 3.02 -7.22
RMS Deviations Key Refinement Restraint Deviation c_scangle_it 3.794 c_mcangle_it 2.452 c_scbond_it 2.428 c_mcbond_it 1.45 c_angle_deg 1.406 c_bond_d 0.0063
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 5930 Nucleic Acid Atoms Solvent Atoms 208 Heterogen Atoms 97
Software Software Software Name Purpose MOSFLM data reduction SCALA data scaling MOLREP phasing CNS refinement CCP4 data scaling