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Crystal structure of Burkholderia cenocepacia dihydropteroate synthase complexed with 7,8-dihydropteroate.
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model PDB 1AJ2 PDB ENTRY 1AJ2
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 7.8 RESERVOIR: 0.1 M TRIS/HCL PH 8, 10 % PEG 8000, 0.3 M MGCL2 PROTEIN SOLUTIONS: BCDHPS AT 7.5 MG/ML, 2 MM DIHYDROPTEROATE, 50 MM TRIS/HCL PH 7.5, 250 MM NACL.
Crystal Properties Matthews coefficient Solvent content 2.29 46.39
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 73.662 α = 90 b = 86.92 β = 90 c = 88.795 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 93 CCD RIGAKU CCD MIRRORS 2009-08-06 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 ROTATING ANODE RIGAKU MICROMAX-007
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 1.95 29.6 98.9 0.05 14.4 4.4 41750 27.4
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 1.95 2.06 93.6 0.37 3.1 3.7
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-Free (Depositor) R-Free (DCC) R-Free Selection Details Mean Isotropic B X-RAY DIFFRACTION MOLECULAR REPLACEMENT THROUGHOUT PDB ENTRY 1AJ2 1.95 62.11 37961 2027 94.66 0.17742 0.17564 0.21114 0.2415 RANDOM 29.049
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] -1.35 -1.41 2.76
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 30.566 r_dihedral_angle_4_deg 13.637 r_dihedral_angle_3_deg 13.485 r_dihedral_angle_1_deg 6.002 r_scangle_it 2.708 r_scbond_it 1.691 r_angle_refined_deg 1.232 r_mcangle_it 1.052 r_angle_other_deg 0.882 r_mcbond_it 0.572
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 30.566 r_dihedral_angle_4_deg 13.637 r_dihedral_angle_3_deg 13.485 r_dihedral_angle_1_deg 6.002 r_scangle_it 2.708 r_scbond_it 1.691 r_angle_refined_deg 1.232 r_mcangle_it 1.052 r_angle_other_deg 0.882 r_mcbond_it 0.572 r_mcbond_other 0.128 r_chiral_restr 0.073 r_bond_refined_d 0.011 r_gen_planes_refined 0.005 r_bond_other_d 0.001 r_gen_planes_other 0.001 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_mcangle_other r_scbond_other r_scangle_other r_long_range_B_refined r_long_range_B_other r_rigid_bond_restr r_sphericity_free r_sphericity_bonded
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 4142 Nucleic Acid Atoms Solvent Atoms 305 Heterogen Atoms 112
Software Software Software Name Purpose REFMAC refinement MOSFLM data reduction SCALA data scaling PHASER phasing