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Crystal structure of Cysteine Synthase (OASS) from Entamoeba histolytica at 1.86 A resolution
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model PDB 1OAS PDB entry 1OAS
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, HANGING DROP 7 289 2.5 Ammonium sulfate, 100mM Tris, pH 7.0, VAPOR DIFFUSION, HANGING DROP, temperature 289K
Crystal Properties Matthews coefficient Solvent content 2.41 48.87
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 80.316 α = 90 b = 80.316 β = 90 c = 112.224 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 100 IMAGE PLATE MAR scanner 345 mm plate 2007-01-03 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 ROTATING ANODE RIGAKU MICROMAX-007 HF 1.54
Data Collection Overall ID # Resolution (High) Resolution (Low) Percent Possible (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 1.86 50 99.8 0.05 45.5 6.6 59571 59571 -3 25.2
Highest Resolution Shell ID # Resolution (High) Resolution (Low) Percent Possible (All) Percent Possible (Observed) R-Sym I (Observed) Mean I Over Sigma (Observed) Redundancy Number Unique Reflections (All) 1 1.86 1.93 98.1 0.336 5.5 5.9 5820
Refinement Statistics Diffraction ID Structure Solution Method Cross Validation method Starting model Resolution (High) Resolution (Low) 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 1OAS 1.86 32.66 59528 3006 99.84 0.182 0.18 0.1779 0.211 0.1677 RANDOM 25.186
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] -0.06 -0.06 0.12
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 35.737 r_dihedral_angle_4_deg 16.934 r_dihedral_angle_3_deg 13.875 r_dihedral_angle_1_deg 5.561 r_scangle_it 3.807 r_scbond_it 2.558 r_mcangle_it 1.483 r_angle_refined_deg 1.403 r_mcbond_it 1.01 r_nbtor_refined 0.304
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 35.737 r_dihedral_angle_4_deg 16.934 r_dihedral_angle_3_deg 13.875 r_dihedral_angle_1_deg 5.561 r_scangle_it 3.807 r_scbond_it 2.558 r_mcangle_it 1.483 r_angle_refined_deg 1.403 r_mcbond_it 1.01 r_nbtor_refined 0.304 r_symmetry_vdw_refined 0.239 r_nbd_refined 0.22 r_xyhbond_nbd_refined 0.139 r_symmetry_hbond_refined 0.108 r_chiral_restr 0.1 r_bond_refined_d 0.015 r_gen_planes_refined 0.006
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 5117 Nucleic Acid Atoms Solvent Atoms 356 Heterogen Atoms 40
Software Software Software Name Purpose REFMAC refinement PDB_EXTRACT data extraction HKL-2000 data collection HKL-2000 data reduction HKL-2000 data scaling MOLREP phasing