☰ Navigation Tabs
Crystal structure of the periplasmic soluble domain of reduced CcmG from Pseudomonas aeruginosa
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model PDB 1KNG
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, HANGING DROP 5.6 294 18-20% PEG 4000 W/V, 0.1-0.3 M magnesium formate, 0.1M sodium citrate pH 5.6, 5% MPD, VAPOR DIFFUSION, HANGING DROP, temperature 294K
Crystal Properties Matthews coefficient Solvent content 2.36 47.83
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 74.345 α = 90 b = 74.345 β = 90 c = 66.746 γ = 90
Symmetry Space Group P 41 21 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 ADSC QUANTUM 315r 2006-07-21 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON ESRF BEAMLINE ID23-1 0.9330 ESRF ID23-1
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 1.75 50 99.9 0.09 12 14.3 19403 19387
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) 1.75 1.81 99.9 0.394 13.1 1891
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-Work (DCC) R-Free (Depositor) R-Free (DCC) R-Free Selection Details Mean Isotropic B X-RAY DIFFRACTION MOLECULAR REPLACEMENT THROUGHOUT 1KNG 1.75 50 17918 920 99.97 0.192 0.191 0.1901 0.221 0.2202 RANDOM 21.816
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] -0.92 -0.92 1.83
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 34.417 r_dihedral_angle_4_deg 20.871 r_dihedral_angle_3_deg 12.162 r_dihedral_angle_1_deg 5.551 r_scangle_it 3.148 r_scbond_it 2.076 r_mcangle_it 1.406 r_angle_refined_deg 1.362 r_mcbond_it 0.886 r_nbtor_refined 0.306
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 34.417 r_dihedral_angle_4_deg 20.871 r_dihedral_angle_3_deg 12.162 r_dihedral_angle_1_deg 5.551 r_scangle_it 3.148 r_scbond_it 2.076 r_mcangle_it 1.406 r_angle_refined_deg 1.362 r_mcbond_it 0.886 r_nbtor_refined 0.306 r_symmetry_vdw_refined 0.227 r_nbd_refined 0.192 r_symmetry_hbond_refined 0.141 r_xyhbond_nbd_refined 0.135 r_chiral_restr 0.09 r_bond_refined_d 0.012 r_gen_planes_refined 0.005
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 1206 Nucleic Acid Atoms Solvent Atoms 145 Heterogen Atoms
Software Software Software Name Purpose MOSFLM data reduction DENZO data reduction SCALEPACK data scaling REFMAC refinement PDB_EXTRACT data extraction ADSC data collection MOLREP phasing