☰ Navigation Tabs
Crystal structure of iMazG from Vibrio DAT 722: Ctag-iMazG (P43212)
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model PDB 2Q73 PDB ENTRY 2Q73
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 5.05 293 0.1 M sodium citrate, 1.9 M ammonium sulfate, 500 mM NaCl, 10% 2-methyl-2,4-pentanediol, 10 mM MgCl2, pH 5.05, VAPOR DIFFUSION, SITTING DROP, temperature 293K
Crystal Properties Matthews coefficient Solvent content 3.3 62.72
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 88.246 α = 90 b = 88.246 β = 90 c = 159.107 γ = 90
Symmetry Space Group P 43 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 MARMOSAIC 300 mm CCD SI(111) DOUBLE CRYSTAL MONOCHROMETER 2007-03-25 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON APS BEAMLINE 23-ID-D APS 23-ID-D
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 77.171 94.8 0.117 0.117 4 3.6 30948
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 2.2 2.32 71.6 0.578 0.578 1.2 3.6
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 (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 2Q73 2.2 36.27 30886 29321 1565 94.5 0.219 0.218 0.2192 0.24 0.242 RANDOM 39.73
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] 0.81 0.81 -1.61
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 36.159 r_dihedral_angle_3_deg 13.661 r_dihedral_angle_4_deg 6.095 r_dihedral_angle_1_deg 5.427 r_scangle_it 2.312 r_scbond_it 1.444 r_angle_refined_deg 1.21 r_mcangle_it 0.824 r_mcbond_it 0.435 r_nbtor_refined 0.302
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 36.159 r_dihedral_angle_3_deg 13.661 r_dihedral_angle_4_deg 6.095 r_dihedral_angle_1_deg 5.427 r_scangle_it 2.312 r_scbond_it 1.444 r_angle_refined_deg 1.21 r_mcangle_it 0.824 r_mcbond_it 0.435 r_nbtor_refined 0.302 r_symmetry_hbond_refined 0.219 r_nbd_refined 0.202 r_symmetry_vdw_refined 0.187 r_xyhbond_nbd_refined 0.137 r_chiral_restr 0.087 r_bond_refined_d 0.011 r_gen_planes_refined 0.004 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_rigid_bond_restr r_sphericity_free r_sphericity_bonded
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 2719 Nucleic Acid Atoms Solvent Atoms 114 Heterogen Atoms 4
Software Software Software Name Purpose SCALA data scaling PHASER phasing REFMAC refinement PDB_EXTRACT data extraction MOSFLM data reduction