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N. meningitidis CMP-sialic acid synthetase in the presence of CTP and Ca2+
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model PDB 1EYR
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, SITTING DROP 8 293 0.1 M imidazole pH 8, 6% PEG 8000, and 0.2M calcium acetate
Crystal Properties Matthews coefficient Solvent content 2.32 46.93
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 43.19 α = 90 b = 69.56 β = 90 c = 158.21 γ = 90
Symmetry Space Group P 21 21 21
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 315r 2015-01-22 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON SSRL BEAMLINE BL7-1 1.03316 SSRL BL7-1
Data Collection Overall ID # Resolution (High) Resolution (Low) Percent Possible (Observed) R Merge 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 1.8 79.11 93.8 0.048 0.998 16.64 3.35 42666
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 1.8 1.84 87.7 0.291 0.92 3.56 3.32
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 1EYR 1.8 79.11 40429 2171 93.74 0.20435 0.2019 0.2115 0.24958 0.2537 RANDOM 22.468
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] 0.26 0.54 -0.8
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 37.957 r_dihedral_angle_3_deg 13.578 r_dihedral_angle_4_deg 12.357 r_long_range_B_refined 7.648 r_long_range_B_other 7.572 r_dihedral_angle_1_deg 6.285 r_scangle_other 4.001 r_mcangle_other 3.06 r_mcangle_it 3.057 r_scbond_it 2.564
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 37.957 r_dihedral_angle_3_deg 13.578 r_dihedral_angle_4_deg 12.357 r_long_range_B_refined 7.648 r_long_range_B_other 7.572 r_dihedral_angle_1_deg 6.285 r_scangle_other 4.001 r_mcangle_other 3.06 r_mcangle_it 3.057 r_scbond_it 2.564 r_scbond_other 2.563 r_mcbond_it 1.948 r_mcbond_other 1.928 r_angle_refined_deg 1.728 r_angle_other_deg 1.026 r_chiral_restr 0.105 r_bond_refined_d 0.016 r_gen_planes_refined 0.008 r_bond_other_d 0.002 r_gen_planes_other 0.002 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 3441 Nucleic Acid Atoms Solvent Atoms 680 Heterogen Atoms 61
Software Software Software Name Purpose REFMAC refinement XDS data reduction XSCALE data scaling PHASER phasing