☰ Navigation Tabs
Crystal structure of CutA from the phytopathgen bacterium Xylella fastidiosa
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model PDB 1VHF
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, HANGING DROP 6.5 295 0.1M Mes Buffer, 1.6M Ammonium sulfate, 10% Dioxane, pH 6.5, VAPOR DIFFUSION, HANGING DROP, temperature 295K
Crystal Properties Matthews coefficient Solvent content 1.92 35.86
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 70.59 α = 90 b = 70.59 β = 90 c = 35.502 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 MAR CCD 165 mm 2006-05-15 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON LNLS BEAMLINE D03B-MX1 1.43 LNLS D03B-MX1
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 1.39 61.08 97.2 0.085 15.2 6.8 19947 2 2
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 1.39 1.44 82.7 0.424 3.2 5.5
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 1VHF 1.39 50 19713 1012 96.91 0.197 0.196 0.1953 0.205 0.2089 RANDOM 18.443
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] -0.25 -0.13 -0.25 0.38
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 35.435 r_dihedral_angle_4_deg 23.346 r_dihedral_angle_3_deg 11.593 r_dihedral_angle_1_deg 5.23 r_scangle_it 3.174 r_scbond_it 2.162 r_angle_refined_deg 1.465 r_mcangle_it 1.44 r_mcbond_it 0.833 r_nbtor_refined 0.328
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 35.435 r_dihedral_angle_4_deg 23.346 r_dihedral_angle_3_deg 11.593 r_dihedral_angle_1_deg 5.23 r_scangle_it 3.174 r_scbond_it 2.162 r_angle_refined_deg 1.465 r_mcangle_it 1.44 r_mcbond_it 0.833 r_nbtor_refined 0.328 r_nbd_refined 0.221 r_symmetry_vdw_refined 0.189 r_symmetry_hbond_refined 0.147 r_xyhbond_nbd_refined 0.131 r_chiral_restr 0.112 r_bond_refined_d 0.011 r_gen_planes_refined 0.005
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 812 Nucleic Acid Atoms Solvent Atoms 103 Heterogen Atoms 10
Software Software Software Name Purpose REFMAC refinement PDB_EXTRACT data extraction