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Crystal structure of murine thrombin mutant W215A/E217A (one molecule in the asymmetric unit)
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model PDB 1TQ0 PDB entry 1TQ0
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, HANGING DROP 6.3 295 200mM Ammonium chloride, 20% PEG 3350, pH 6.3, VAPOR DIFFUSION, HANGING DROP, temperature 295K
Crystal Properties Matthews coefficient Solvent content 2.12 41.9
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 48.647 α = 90 b = 63.939 β = 90 c = 95.024 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 IMAGE PLATE RIGAKU RAXIS IV mirrors 2008-12-07 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 ROTATING ANODE RIGAKU RU200 1.54178
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 1.94 43.31 94.9 0.081 17.2 5.8 22440 21296 -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) 1.94 1.98 87 0.28 3.3 4.6 949
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 1TQ0 1.94 43.31 20160 1098 94.72 0.1834 0.18075 0.1797 0.23545 0.2346 RANDOM 26.52
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]
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 32.792 r_dihedral_angle_4_deg 16.358 r_dihedral_angle_3_deg 14.704 r_dihedral_angle_1_deg 6.204 r_scangle_it 3.577 r_scbond_it 2.193 r_mcangle_it 1.387 r_angle_refined_deg 1.374 r_mcbond_it 0.727 r_chiral_restr 0.096
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 32.792 r_dihedral_angle_4_deg 16.358 r_dihedral_angle_3_deg 14.704 r_dihedral_angle_1_deg 6.204 r_scangle_it 3.577 r_scbond_it 2.193 r_mcangle_it 1.387 r_angle_refined_deg 1.374 r_mcbond_it 0.727 r_chiral_restr 0.096 r_bond_refined_d 0.013 r_gen_planes_refined 0.006
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 2289 Nucleic Acid Atoms Solvent Atoms 240 Heterogen Atoms
Software Software Software Name Purpose StructureStudio data collection MOLREP phasing REFMAC refinement HKL-2000 data reduction SCALEPACK data scaling