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Crystal Structure of Wild-type E.coli GS in complex with ADP and DGM
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model PDB 1RZU PDB ENTRY 1RZU
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, HANGING DROP 8.1 277 40% (w/v) PEG 4000, 0.2 M NaAc, 0.1 M HEPPSO, pH 8.1, VAPOR DIFFUSION, HANGING DROP, temperature 277K
Crystal Properties Matthews coefficient Solvent content 5.62 78.13
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 125.841 α = 90 b = 125.841 β = 90 c = 153.263 γ = 90
Diffraction Diffraction Experiment ID # Crystal ID Scattering Type Data Collection Temperature Detector Detector Type Details Collection Date Monochromator Protocol 1 1 x-ray 98 CCD MAR CCD 165 mm 2005-05-25 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON APS BEAMLINE 14-ID-B 1.0 APS 14-ID-B
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 2.79 97.13 99.2 0.146 23.996 8.1 29589 29543 2 1.91 62.3
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) 2.79 2.9 92.9 0.516 6.1 2740
Refinement Statistics Diffraction ID Structure Solution Method Cross Validation method Starting model Resolution (High) Resolution (Low) 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 PDB ENTRY 1RZU 2.79 50 29589 29120 1478 98.42 0.17 0.169 0.166 0.2 0.1988 RANDOM 40.525
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] 1.33 1.33 -2.67
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 31.346 r_dihedral_angle_4_deg 24.552 r_dihedral_angle_3_deg 21.504 r_dihedral_angle_1_deg 7.029 r_scangle_it 4.311 r_scbond_it 2.743 r_angle_refined_deg 2.276 r_mcangle_it 1.803 r_mcbond_it 0.945 r_chiral_restr 0.154
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 31.346 r_dihedral_angle_4_deg 24.552 r_dihedral_angle_3_deg 21.504 r_dihedral_angle_1_deg 7.029 r_scangle_it 4.311 r_scbond_it 2.743 r_angle_refined_deg 2.276 r_mcangle_it 1.803 r_mcbond_it 0.945 r_chiral_restr 0.154 r_bond_refined_d 0.023 r_gen_planes_refined 0.009
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 3735 Nucleic Acid Atoms Solvent Atoms 209 Heterogen Atoms 111
Software Software Software Name Purpose DENZO data reduction SCALEPACK data scaling MOLREP phasing REFMAC refinement PDB_EXTRACT data extraction HKL-2000 data collection