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Crystal structure of ligand-free bifunctional folylpolyglutamate synthase/dihydrofolate synthase from yersinia pestis c092
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model PDB 3N2A
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, SITTING DROP 6 291 0.1 M MES, 1.0 M Na/K Tartrate, pH 6.0, VAPOR DIFFUSION, SITTING DROP, temperature 291K
Crystal Properties Matthews coefficient Solvent content 3.48 64.61
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 62.628 α = 90 b = 83.275 β = 90 c = 126.74 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 mirrors 2009-12-17 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON APS BEAMLINE 19-ID 0.9794 APS 19-ID
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 1.78 40 98.9 0.057 30 5.2 64300 63699 2 2 41.3
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) 1.78 1.81 99.2 0.57 2.5 4.6
Refinement Statistics Diffraction ID Structure Solution Method Cross Validation method Starting model Resolution (High) Resolution (Low) Cut-off Sigma (I) 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 3N2A 1.8 40 2 2 61500 58317 3112 98.63 0.18 0.1736 0.17257 0.1789 0.19222 0.1943 RANDOM 29.006
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] 1.93 -0.22 -1.71
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 36.815 r_dihedral_angle_4_deg 13.821 r_dihedral_angle_3_deg 12.093 r_dihedral_angle_1_deg 5.402 r_scangle_it 4.575 r_scbond_it 2.823 r_mcangle_it 1.853 r_angle_refined_deg 1.485 r_angle_other_deg 1.055 r_mcbond_it 1.049
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 36.815 r_dihedral_angle_4_deg 13.821 r_dihedral_angle_3_deg 12.093 r_dihedral_angle_1_deg 5.402 r_scangle_it 4.575 r_scbond_it 2.823 r_mcangle_it 1.853 r_angle_refined_deg 1.485 r_angle_other_deg 1.055 r_mcbond_it 1.049 r_mcbond_other 0.319 r_chiral_restr 0.131 r_bond_refined_d 0.016 r_gen_planes_refined 0.008 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_rigid_bond_restr r_sphericity_free r_sphericity_bonded
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 3051 Nucleic Acid Atoms Solvent Atoms 312 Heterogen Atoms 60
Software Software Software Name Purpose SBC-Collect data collection MOLREP phasing REFMAC refinement HKL-3000 data reduction HKL-3000 data scaling