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Crystal structure of beta-alanine synthase from Saccharomyces kluyveri
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model Other model of seleno-methionine substituted beta-alanine synthase from the same source
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, HANGING DROP 6 293 trisodium citrate, dioxane, pH 6.0, VAPOR DIFFUSION, HANGING DROP, temperature 293K
Crystal Properties Matthews coefficient Solvent content 2.5 50.82
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 117.23 α = 90 b = 77.12 β = 95.05 c = 225.52 γ = 90
Symmetry Space Group P 1 21 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 diamond monochromator and bent multilayer 2001-12-10 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON ESRF BEAMLINE ID14-1 0.933 ESRF ID14-1
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 2.7 25 95.9 0.083 14.8 3.5 106190 54.6
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) 2.7 2.85 82.2 0.261 3.7 2.6 13170
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 model of seleno-methionine substituted beta-alanine synthase from the same source 2.7 25 100879 100879 5296 95.84 0.21118 0.20837 0.2918 0.26577 0.3221 RANDOM 16.339
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] 1.21 2.2 -2.46 1.63
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_1_deg 5.301 r_scangle_it 1.621 r_angle_refined_deg 1.189 r_scbond_it 0.97 r_mcangle_it 0.447 r_symmetry_vdw_refined 0.222 r_symmetry_hbond_refined 0.218 r_nbd_refined 0.205 r_mcbond_it 0.185 r_xyhbond_nbd_refined 0.164
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_1_deg 5.301 r_scangle_it 1.621 r_angle_refined_deg 1.189 r_scbond_it 0.97 r_mcangle_it 0.447 r_symmetry_vdw_refined 0.222 r_symmetry_hbond_refined 0.218 r_nbd_refined 0.205 r_mcbond_it 0.185 r_xyhbond_nbd_refined 0.164 r_chiral_restr 0.089 r_bond_refined_d 0.009 r_gen_planes_refined 0.004
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 26906 Nucleic Acid Atoms Solvent Atoms 519 Heterogen Atoms 72
Software Software Software Name Purpose REFMAC refinement MOSFLM data reduction CCP4 data scaling EPMR phasing