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Homocitrate Synthase Lys4
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model Other SAD phased model of Lys4
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, HANGING DROP 7 297 PEG 400, MgAc, HEPES, pH 7.0, VAPOR DIFFUSION, HANGING DROP, temperature 297K
Crystal Properties Matthews coefficient Solvent content 3.46 64.4
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 135.995 α = 90 b = 135.995 β = 90 c = 122.124 γ = 120
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 MARMOSAIC 300 mm CCD 2006-12-10 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON APS BEAMLINE 23-ID-B 0.97930 APS 23-ID-B
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 2.24 50 99.4 0.06 0.06 17.3 7.3 60860 60860 -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 2.24 2.33 99.7 0.54 3.67 7 6056
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 (All) R-Factor (Observed) R-Work (Depositor) R-Free (Depositor) R-Free (DCC) R-Free Selection Details Mean Isotropic B X-RAY DIFFRACTION MOLECULAR REPLACEMENT THROUGHOUT SAD phased model of Lys4 2.24 29.45 60860 60728 3081 98.62 0.193 0.193 0.191 0.22 0.2559 RANDOM 55.243
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] -0.05 -0.02 -0.05 0.07
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 35.147 r_dihedral_angle_4_deg 17.377 r_dihedral_angle_3_deg 14.628 r_dihedral_angle_1_deg 5.755 r_scangle_it 3.118 r_scbond_it 2.257 r_angle_refined_deg 1.309 r_mcangle_it 1.144 r_mcbond_it 0.761 r_nbtor_refined 0.299
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 35.147 r_dihedral_angle_4_deg 17.377 r_dihedral_angle_3_deg 14.628 r_dihedral_angle_1_deg 5.755 r_scangle_it 3.118 r_scbond_it 2.257 r_angle_refined_deg 1.309 r_mcangle_it 1.144 r_mcbond_it 0.761 r_nbtor_refined 0.299 r_symmetry_vdw_refined 0.221 r_nbd_refined 0.2 r_symmetry_hbond_refined 0.158 r_xyhbond_nbd_refined 0.153 r_chiral_restr 0.09 r_bond_refined_d 0.013 r_gen_planes_refined 0.005
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 5553 Nucleic Acid Atoms Solvent Atoms 272 Heterogen Atoms 4
Software Software Software Name Purpose DENZO data reduction SCALEPACK data scaling MOLREP phasing REFMAC refinement PDB_EXTRACT data extraction HKL-2000 data collection HKL-2000 data reduction HKL-2000 data scaling