☰ Navigation Tabs
Crystal Structure of the von Willebrand factor A domain of human capillary morphogenesis protein 2: an anthrax toxin receptor
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model PDB 1SHT
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, HANGING DROP 6.5 298 PEG3350, magnesium chloride, bis-tris, pH 6.5, VAPOR DIFFUSION, HANGING DROP, temperature 298K
Crystal Properties Matthews coefficient Solvent content 2.35 47.22
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 57.419 α = 90 b = 57.419 β = 90 c = 111.459 γ = 90
Symmetry Space Group P 41 21 2
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 2003-10-17 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON CHESS BEAMLINE F1 0.9186 CHESS F1
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 1.5 28.75 98.2 0.045 33.3 7.1 30193 30193 16.4
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) 1.5 1.55 90.5 0.174 7.7 4.2 2728
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-Factor (All) 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 1SHT 1.5 28.75 28635 28635 1492 100 0.1881 0.1881 0.18668 0.1869 0.21549 0.2141 RANDOM 16.871
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] 0.44 0.44 -0.87
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_1_deg 6.073 r_sphericity_free 4.153 r_scangle_it 3.944 r_sphericity_bonded 2.984 r_scbond_it 2.543 r_mcangle_it 2.174 r_rigid_bond_restr 1.514 r_angle_refined_deg 1.465 r_mcbond_it 1.378 r_angle_other_deg 0.846
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_1_deg 6.073 r_sphericity_free 4.153 r_scangle_it 3.944 r_sphericity_bonded 2.984 r_scbond_it 2.543 r_mcangle_it 2.174 r_rigid_bond_restr 1.514 r_angle_refined_deg 1.465 r_mcbond_it 1.378 r_angle_other_deg 0.846 r_symmetry_vdw_other 0.349 r_nbd_other 0.244 r_nbd_refined 0.207 r_symmetry_vdw_refined 0.19 r_symmetry_hbond_refined 0.145 r_xyhbond_nbd_refined 0.123 r_chiral_restr 0.086 r_nbtor_other 0.079 r_gen_planes_other 0.015 r_bond_refined_d 0.014 r_gen_planes_refined 0.011 r_bond_other_d 0.002
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 1396 Nucleic Acid Atoms Solvent Atoms 154 Heterogen Atoms 1
Software Software Software Name Purpose REFMAC refinement HKL-2000 data reduction SCALEPACK data scaling MOLREP phasing