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Crystal structure of 3-deoxy-manno-octulosonate cytidylyltransferase from Haemophilus influenzae complexed with the substrate 3-deoxy-manno-octulosonate in the-configuration
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, HANGING DROP 5.6 297 100mM sodium citrate (pH5.6), 50mM ammonium acetate, 30% PEG 4000, VAPOR DIFFUSION, HANGING DROP, temperature 297K
Crystal Properties Matthews coefficient Solvent content 1.95 37.08
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 48.418 α = 90 b = 82.609 β = 90 c = 115.712 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 4 2002-07-11 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON PAL/PLS BEAMLINE 6B 0.9792 PAL/PLS 6B
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 2.2 30 93.9 0.051 24031
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) 2.2 2.28 86.6 0.133
Refinement Statistics Diffraction ID Structure Solution Method Cross Validation method 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 THROUGHOUT 2.3 30 20235 2050 95.01 0.177 0.17 0.184 0.236 0.2549 RANDOM 28.969
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] -1.8 2.97 -1.17
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 42.188 r_dihedral_angle_3_deg 18.708 r_dihedral_angle_4_deg 17.976 r_dihedral_angle_1_deg 6.908 r_scangle_it 5.191 r_scbond_it 3.402 r_mcangle_it 2.128 r_angle_refined_deg 2.121 r_mcbond_it 1.397 r_symmetry_hbond_refined 0.32
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 42.188 r_dihedral_angle_3_deg 18.708 r_dihedral_angle_4_deg 17.976 r_dihedral_angle_1_deg 6.908 r_scangle_it 5.191 r_scbond_it 3.402 r_mcangle_it 2.128 r_angle_refined_deg 2.121 r_mcbond_it 1.397 r_symmetry_hbond_refined 0.32 r_nbtor_refined 0.314 r_nbd_refined 0.243 r_symmetry_vdw_refined 0.234 r_xyhbond_nbd_refined 0.18 r_chiral_restr 0.168 r_bond_refined_d 0.023 r_gen_planes_refined 0.008
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 3864 Nucleic Acid Atoms Solvent Atoms 162 Heterogen Atoms 54
Software Software Software Name Purpose REFMAC refinement PDB_EXTRACT data extraction HKL-2000 data collection HKL-2000 data reduction HKL-2000 data scaling CNS phasing