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P113S mutant of E. coli Cystathionine beta-lyase MetC
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model PDB 1CL1
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, HANGING DROP 8.2 293 20% PEG400, 0.15M CACL2, 0.1 M HEPES/NAOH (PH 8.2), VAPOR DIFFUSION, HANGING DROP, temperature 293K
Crystal Properties Matthews coefficient Solvent content 1.99 38.04
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 59.926 α = 90 b = 152.769 β = 90 c = 150.848 γ = 90
Symmetry Space Group C 2 2 21
Diffraction Diffraction Experiment ID # Crystal ID Scattering Type Data Collection Temperature Detector Detector Type Details Collection Date Monochromator Protocol 1 1 x-ray 110 IMAGE PLATE MAR scanner 345 mm plate osmic 2011-10-19 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 ROTATING ANODE RIGAKU MICROMAX-007 HF 1.5418
Data Collection Overall ID # Resolution (High) Resolution (Low) Percent Possible (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 1.74 19.4 99.7 15.9 71753 71753
Highest Resolution Shell ID # Resolution (High) Resolution (Low) Percent Possible (All) Percent Possible (Observed) Mean I Over Sigma (Observed) Redundancy Number Unique Reflections (All) 1 1.74 1.83 98.3 14.8
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-Work (DCC) R-Free (Depositor) R-Free (DCC) R-Free Selection Details Mean Isotropic B X-RAY DIFFRACTION MOLECULAR REPLACEMENT THROUGHOUT 1CL1 1.74 19.4 67346 67346 3587 99.5 0.16239 0.16239 0.16048 0.1654 0.19805 0.2012 RANDOM 12.781
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] 0.02 -0.01 -0.02
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 36.552 r_dihedral_angle_4_deg 24.914 r_dihedral_angle_3_deg 13.259 r_dihedral_angle_1_deg 6.498 r_scangle_it 4.274 r_scbond_it 2.825 r_angle_refined_deg 1.902 r_mcangle_it 1.745 r_angle_other_deg 1.188 r_mcbond_it 1.089
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 36.552 r_dihedral_angle_4_deg 24.914 r_dihedral_angle_3_deg 13.259 r_dihedral_angle_1_deg 6.498 r_scangle_it 4.274 r_scbond_it 2.825 r_angle_refined_deg 1.902 r_mcangle_it 1.745 r_angle_other_deg 1.188 r_mcbond_it 1.089 r_mcbond_other 0.38 r_chiral_restr 0.241 r_bond_refined_d 0.022 r_gen_planes_refined 0.01 r_bond_other_d 0.003 r_gen_planes_other 0.002 r_nbd_refined r_nbd_other r_nbtor_refined r_nbtor_other r_xyhbond_nbd_refined r_xyhbond_nbd_other r_metal_ion_refined r_metal_ion_other r_symmetry_vdw_refined r_symmetry_vdw_other r_symmetry_hbond_refined 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 6034 Nucleic Acid Atoms Solvent Atoms 377 Heterogen Atoms 30
Software Software Software Name Purpose MAR345dtb data collection PHASER phasing REFMAC refinement XDS data reduction SCALA data scaling