☰ Navigation Tabs
Crystal structure of PNP with DADMEimmH from Yersinia pseudotuberculosis
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model PDB 1PR0
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 EVAPORATION 7 293 150mM DL-malic acid, 20% PEG3350, pH 7.0, EVAPORATION, temperature 293K
Crystal Properties Matthews coefficient Solvent content 2.5 50.79
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 91.647 α = 90 b = 109.829 β = 90 c = 154.747 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 315 2010-04-29 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON NSLS BEAMLINE X29A 1.0750 NSLS X29A
Data Collection Overall ID # Resolution (High) Resolution (Low) Percent Possible (Observed) R Merge I (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 1.7 50 99.5 0.1 0.069 28.7 8.1 171125 171125 1 1 27.56
Highest Resolution Shell ID # Resolution (High) Resolution (Low) Percent Possible (All) Percent Possible (Observed) R Merge I (Observed) R-Sym I (Observed) Mean I Over Sigma (Observed) Redundancy Number Unique Reflections (All) 1.7 1.76 100 0.724 0.549 2.48 8 16923
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 (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 1PR0 1.7 50 1 162600 162078 8554 99.68 0.15058 0.14902 0.1559 0.18084 0.1878 RANDOM 19.613
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] -0.66 1.24 -0.58
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 33.239 r_dihedral_angle_4_deg 22.232 r_dihedral_angle_3_deg 14.451 r_dihedral_angle_1_deg 6.649 r_scangle_it 4.717 r_scbond_it 3.115 r_mcangle_it 1.751 r_angle_refined_deg 1.519 r_mcbond_it 1.058 r_chiral_restr 0.146
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 33.239 r_dihedral_angle_4_deg 22.232 r_dihedral_angle_3_deg 14.451 r_dihedral_angle_1_deg 6.649 r_scangle_it 4.717 r_scbond_it 3.115 r_mcangle_it 1.751 r_angle_refined_deg 1.519 r_mcbond_it 1.058 r_chiral_restr 0.146 r_bond_refined_d 0.016 r_gen_planes_refined 0.012
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 10788 Nucleic Acid Atoms Solvent Atoms 1170 Heterogen Atoms 144
Software Software Software Name Purpose HKL-2000 data collection MOLREP phasing REFMAC refinement HKL-2000 data reduction HKL-2000 data scaling