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Crystal structure of 1-Pyrroline-5-Carboxylate Reductase from Human Pathogen Streptococcus Pyogenes
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model PDB 2AHR pdb entry 2AHR
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, HANGING DROP 7 298 3.5 M sodium formate, pH 7.0, temperature 298K, VAPOR DIFFUSION, HANGING DROP
Crystal Properties Matthews coefficient Solvent content 2.88 57
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 171.822 α = 90 b = 109.96 β = 95.38 c = 84.158 γ = 90
Symmetry Space Group C 1 2 1
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 mirrors 2005-04-03 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON APS BEAMLINE 19-ID 0.9795 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 2.2 50 98.5 0.061 80125 78923 2 2
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 2.2 2.28 92.5 0.326
Refinement Statistics Diffraction ID Structure Solution Method Starting model Resolution (High) Resolution (Low) 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 isomorphous to 2AHR pdb entry 2AHR 2.2 50 78246 74316 3930 99.16 0.17549 0.17549 0.17333 0.1725 0.21542 0.2134 RANDOM 35.756
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] 2.2 0.25 -0.43 -1.73
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 37.76 r_dihedral_angle_4_deg 19.112 r_dihedral_angle_3_deg 16.936 r_dihedral_angle_1_deg 5.702 r_scangle_it 2.956 r_scbond_it 1.799 r_angle_refined_deg 1.329 r_mcangle_it 0.953 r_mcbond_it 0.501 r_nbtor_refined 0.295
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 37.76 r_dihedral_angle_4_deg 19.112 r_dihedral_angle_3_deg 16.936 r_dihedral_angle_1_deg 5.702 r_scangle_it 2.956 r_scbond_it 1.799 r_angle_refined_deg 1.329 r_mcangle_it 0.953 r_mcbond_it 0.501 r_nbtor_refined 0.295 r_nbd_refined 0.204 r_xyhbond_nbd_refined 0.152 r_chiral_restr 0.087 r_bond_refined_d 0.012 r_gen_planes_refined 0.004 r_bond_other_d r_angle_other_deg r_gen_planes_other r_nbd_other r_nbtor_other 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_mcbond_other r_rigid_bond_restr r_sphericity_free r_sphericity_bonded
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 9619 Nucleic Acid Atoms Solvent Atoms 739 Heterogen Atoms 85
Software Software Software Name Purpose REFMAC refinement SBC-Collect data collection HKL-2000 data scaling