☰ Navigation Tabs
Zinc-alpha2-Glycoprotein with a Fluorescent Dansyl C 11 Fatty Acid
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model PDB 1T7V 1t7v, pdbredo
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, HANGING DROP 7.4 294 1.3 M (NH4)2SO4, 100 mM Hepes
Crystal Properties Matthews coefficient Solvent content 3.7 66.73
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 167.015 α = 90 b = 167.015 β = 90 c = 204.948 γ = 90
Diffraction Diffraction Experiment ID # Crystal ID Scattering Type Data Collection Temperature Detector Detector Type Details Collection Date Monochromator Protocol 1 1 x-ray 80 PIXEL DECTRIS PILATUS 6M-F 2016-01-16 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON DIAMOND BEAMLINE I02 0.97949 Diamond I02
Data Collection Overall ID # Resolution (High) Resolution (Low) Percent Possible (Observed) Rrim I (All) Rpim I (All) CC (Half) 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 2.49 77.4 100 0.212 0.054 0.995 10 15.3 98002 51.29
Highest Resolution Shell ID # Resolution (High) Resolution (Low) Percent Possible (All) Percent Possible (Observed) Rrim I (All) Rpim I (All) CC (Half) Mean I Over Sigma (Observed) Redundancy Number Unique Reflections (All) 1 2.49 2.53 99.2 3.388 0.856 0.298 1 15.6
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-Free (Depositor) R-Free (DCC) R-Free Selection Details Mean Isotropic B X-RAY DIFFRACTION MOLECULAR REPLACEMENT FREE R-VALUE 1t7v, pdbredo 2.49 77.4 95132 2698 99.98 0.17126 0.17019 0.21202 0.2314 RANDOM 62.751
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] -0.3 -0.3 0.59
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 37.546 r_dihedral_angle_4_deg 19.375 r_dihedral_angle_3_deg 14.505 r_long_range_B_refined 9.224 r_long_range_B_other 9.224 r_scangle_other 6.725 r_mcangle_it 6.597 r_mcangle_other 6.597 r_dihedral_angle_1_deg 6.085 r_scbond_it 4.631
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 37.546 r_dihedral_angle_4_deg 19.375 r_dihedral_angle_3_deg 14.505 r_long_range_B_refined 9.224 r_long_range_B_other 9.224 r_scangle_other 6.725 r_mcangle_it 6.597 r_mcangle_other 6.597 r_dihedral_angle_1_deg 6.085 r_scbond_it 4.631 r_scbond_other 4.63 r_mcbond_it 4.56 r_mcbond_other 4.56 r_angle_refined_deg 1.473 r_angle_other_deg 0.954 r_chiral_restr 0.102 r_bond_refined_d 0.011 r_gen_planes_refined 0.006 r_bond_other_d 0.002 r_gen_planes_other 0.001 r_nbd_refined r_nbd_other r_nbtor_refined r_nbtor_other r_xyhbond_nbd_refined r_xyhbond_nbd_other r_metal_ion_refined r_metal_ion_other r_symmetry_vdw_refined r_symmetry_vdw_other r_symmetry_hbond_refined r_symmetry_hbond_other r_symmetry_metal_ion_refined r_symmetry_metal_ion_other r_scangle_it r_rigid_bond_restr r_sphericity_free r_sphericity_bonded
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 13369 Nucleic Acid Atoms Solvent Atoms 110 Heterogen Atoms 313
Software Software Software Name Purpose REFMAC refinement xia2 data reduction Aimless data scaling PHASER phasing