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Crystal structure of betaC-S lyase from Streptococcus anginosus in complex with L-serine: alpha-Aminoacrylate form
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, HANGING DROP 7.5 293 22% PEG 8000, 0.1M Hepes pH7.5, 0.08M ammonium acetate, VAPOR DIFFUSION, HANGING DROP, temperature 293K
Crystal Properties Matthews coefficient Solvent content 2.27 45.91
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 67.204 α = 90 b = 111.212 β = 90 c = 217.353 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 95 CCD ADSC QUANTUM 315 2009-02-12 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON PHOTON FACTORY BEAMLINE BL-5A 1.0000 Photon Factory BL-5A
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 1.78 72.35 99.8 0.096 0.096 6.1 14.1 156276 156276
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 1.78 1.83 100 0.238 0.238 3 14.1 11457
Refinement Statistics Diffraction ID Structure Solution Method Cross Validation method 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-Work (DCC) R-Free (Depositor) R-Free (DCC) R-Free Selection Details Mean Isotropic B X-RAY DIFFRACTION MOLECULAR REPLACEMENT THROUGHOUT 1.78 49.27 147996 147996 7800 100 0.14391 0.14391 0.14218 0.1523 0.17683 0.1845 RANDOM 9.262
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] 1.03 -0.72 -0.31
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 36.298 r_dihedral_angle_4_deg 19.272 r_dihedral_angle_3_deg 11.763 r_dihedral_angle_1_deg 5.962 r_scangle_it 3.502 r_scbond_it 2.129 r_angle_refined_deg 1.357 r_mcangle_it 1.237 r_angle_other_deg 0.947 r_mcbond_it 0.652
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 36.298 r_dihedral_angle_4_deg 19.272 r_dihedral_angle_3_deg 11.763 r_dihedral_angle_1_deg 5.962 r_scangle_it 3.502 r_scbond_it 2.129 r_angle_refined_deg 1.357 r_mcangle_it 1.237 r_angle_other_deg 0.947 r_mcbond_it 0.652 r_chiral_restr 0.246 r_nbd_refined 0.21 r_nbd_other 0.188 r_symmetry_vdw_refined 0.184 r_mcbond_other 0.181 r_nbtor_refined 0.179 r_symmetry_vdw_other 0.179 r_symmetry_hbond_refined 0.13 r_xyhbond_nbd_refined 0.129 r_nbtor_other 0.083 r_metal_ion_refined 0.075 r_bond_refined_d 0.012 r_gen_planes_refined 0.005 r_bond_other_d 0.001 r_gen_planes_other 0.001 r_xyhbond_nbd_other r_metal_ion_other r_symmetry_hbond_other r_symmetry_metal_ion_refined r_symmetry_metal_ion_other r_rigid_bond_restr r_sphericity_free r_sphericity_bonded
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 12466 Nucleic Acid Atoms Solvent Atoms 1701 Heterogen Atoms 257
Software Software Software Name Purpose SERGUI data collection MOLREP phasing REFMAC refinement MOSFLM data reduction SCALA data scaling