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Dihydropteroate Synthetase, With Bound Substrate Analogue PtPP, From Bacillus anthracis
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model PDB 1TWS PDB entry 1tws
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, HANGING DROP 9 291 Lithium Sulfate, Tris, pH 9, VAPOR DIFFUSION, HANGING DROP, temperature 291K
Crystal Properties Matthews coefficient Solvent content 3 58.5
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 98.239 α = 90 b = 98.239 β = 90 c = 262.61 γ = 120
Symmetry Space Group P 62 2 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 MAR CCD 165 mm mirrors 2004-04-13 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON APS BEAMLINE 22-ID 1.0 APS 22-ID
Data Collection Overall ID # Resolution (High) Resolution (Low) Percent Possible (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 2.5 50 100 0.059 42.7 12.9 26269 26269 -3
Highest Resolution Shell ID # Resolution (High) Resolution (Low) Percent Possible (All) Percent Possible (Observed) R-Sym I (Observed) Mean I Over Sigma (Observed) Redundancy Number Unique Reflections (All) 1 2.5 2.59 81.7 0.297 3.7 7.7 26269
Refinement Statistics Diffraction ID Structure Solution Method Cross Validation method Starting model Resolution (High) Resolution (Low) Cut-off Sigma (F) Number Reflections (All) Number Reflections (Observed) Number Reflections (R-Free) Percent Reflections (Observed) R-Factor (All) 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 1tws 2.5 50 -3 24847 24847 1311 96.67 0.21267 0.21267 0.21057 0.2126 0.25355 0.2525 RANDOM 21.887
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] 4.6 2.3 4.6 -6.91
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_1_deg 5.825 r_scangle_it 3.774 r_angle_other_deg 3.69 r_scbond_it 2.24 r_angle_refined_deg 2.119 r_mcangle_it 1.452 r_mcbond_it 0.741 r_symmetry_vdw_refined 0.38 r_symmetry_hbond_refined 0.339 r_nbd_other 0.287
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_1_deg 5.825 r_scangle_it 3.774 r_angle_other_deg 3.69 r_scbond_it 2.24 r_angle_refined_deg 2.119 r_mcangle_it 1.452 r_mcbond_it 0.741 r_symmetry_vdw_refined 0.38 r_symmetry_hbond_refined 0.339 r_nbd_other 0.287 r_symmetry_vdw_other 0.275 r_nbd_refined 0.256 r_xyhbond_nbd_refined 0.198 r_nbtor_other 0.112 r_chiral_restr 0.086 r_bond_refined_d 0.02 r_gen_planes_refined 0.006 r_gen_planes_other 0.006 r_bond_other_d
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 4074 Nucleic Acid Atoms Solvent Atoms 162 Heterogen Atoms 83
Software Software Software Name Purpose REFMAC refinement MAR345 data collection SCALEPACK data scaling CNS phasing