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Crystal structure of a fosfomycin and bleomycin resistant protein (ALL3014) from Anabaena/Nostoc cyanobacterium at 1.70 A resolution
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model PDB 6A4X
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, SITTING DROP 4.5 298 0.2M lithium sulphate, 0.1M sodium acetate, 50 % PEG 400
Crystal Properties Matthews coefficient Solvent content 2.55 51.9
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 109.462 α = 90 b = 109.462 β = 90 c = 46.668 γ = 90
Symmetry Space Group P 4 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 MARRESEARCH mirror 2016-12-21 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON ALBA BEAMLINE XALOC 1.0718 ALBA XALOC
Data Collection Overall ID # Resolution (High) Resolution (Low) Percent Possible (Observed) R Merge I (Observed) R Sym I (Observed) 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 1.7 77.41 95 0.068 0.072 0.99 17.4 9.1 31802
Highest Resolution Shell ID # Resolution (High) Resolution (Low) Percent Possible (All) Percent Possible (Observed) R Merge I (Observed) CC (Half) Mean I Over Sigma (Observed) Redundancy Number Unique Reflections (All) 1 1.7 1.79 85 0.8 0.62 1.8 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 (All) R-Work (Depositor) R-Work (DCC) R-Free (Depositor) R-Free (DCC) Mean Isotropic B X-RAY DIFFRACTION MOLECULAR REPLACEMENT FREE R-VALUE 6A4X 1.7 48.953 30145 1466 94.793 0.174 0.1715 0.182 0.2173 0.2264 27.792
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] -0.005 -0.005 0.01
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 31.438 r_dihedral_angle_4_deg 19.015 r_dihedral_angle_3_deg 14.298 r_lrange_it 9.294 r_lrange_other 9.247 r_dihedral_angle_1_deg 6.486 r_scangle_it 6.073 r_scangle_other 6.069 r_mcangle_other 4.855 r_mcangle_it 4.851
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 31.438 r_dihedral_angle_4_deg 19.015 r_dihedral_angle_3_deg 14.298 r_lrange_it 9.294 r_lrange_other 9.247 r_dihedral_angle_1_deg 6.486 r_scangle_it 6.073 r_scangle_other 6.069 r_mcangle_other 4.855 r_mcangle_it 4.851 r_scbond_it 3.937 r_scbond_other 3.928 r_mcbond_it 3.156 r_mcbond_other 3.143 r_angle_refined_deg 1.568 r_angle_other_deg 1.504 r_symmetry_xyhbond_nbd_refined 0.234 r_nbd_refined 0.21 r_nbd_other 0.205 r_xyhbond_nbd_refined 0.202 r_symmetry_nbd_other 0.188 r_nbtor_refined 0.171 r_symmetry_nbd_refined 0.156 r_symmetry_xyhbond_nbd_other 0.092 r_ncsr_local_group_1 0.088 r_chiral_restr 0.087 r_symmetry_nbtor_other 0.084 r_bond_refined_d 0.01 r_gen_planes_refined 0.009 r_bond_other_d 0.001 r_gen_planes_other 0.001
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 1934 Nucleic Acid Atoms Solvent Atoms 250 Heterogen Atoms 2
Software Software Software Name Purpose REFMAC refinement XDS data reduction SCALA data scaling Auto-Rickshaw phasing