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Arginase superfamily protein from Trypanosoma cruzi
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model Other low resolution SAD structure
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, SITTING DROP 4 298 0.4 ul protein 8.7 mg/ml, 0.4 ul crystallization buffer, 100mM potassium bromide, 42% PEG 1000, 100mM Na citrate, pH 4.0, VAPOR DIFFUSION, SITTING DROP, temperature 298K
Crystal Properties Matthews coefficient Solvent content 1.97 37.45
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 128.875 α = 90 b = 128.875 β = 90 c = 42.671 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 ADSC QUANTUM 210 2004-12-02 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON ALS BEAMLINE 5.0.1 1.0000 ALS 5.0.1
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 1.6 50 94.6 0.067 10.952 5.2 32939
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 1.6 1.66 57.2 0.537 0.997
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-Work (Depositor) R-Work (DCC) R-Free (Depositor) R-Free (DCC) R-Free Selection Details Mean Isotropic B X-RAY DIFFRACTION MOLECULAR REPLACEMENT THROUGHOUT low resolution SAD structure 1.603 39.873 32939 1646 94.928 0.168 0.1801 0.1954 0.2037 random 18.897
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] 0.001
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 30.604 r_dihedral_angle_4_deg 14.548 r_dihedral_angle_3_deg 10.748 r_dihedral_angle_1_deg 5.942 r_scangle_it 3.208 r_scbond_it 2.44 r_mcangle_it 1.375 r_angle_refined_deg 1.343 r_scangle_other 1.249 r_mcbond_it 1.221
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 30.604 r_dihedral_angle_4_deg 14.548 r_dihedral_angle_3_deg 10.748 r_dihedral_angle_1_deg 5.942 r_scangle_it 3.208 r_scbond_it 2.44 r_mcangle_it 1.375 r_angle_refined_deg 1.343 r_scangle_other 1.249 r_mcbond_it 1.221 r_angle_other_deg 0.833 r_scbond_other 0.784 r_mcangle_other 0.632 r_symmetry_vdw_other 0.246 r_symmetry_vdw_refined 0.242 r_mcbond_other 0.226 r_nbd_refined 0.219 r_nbd_other 0.186 r_nbtor_refined 0.175 r_xyhbond_nbd_refined 0.15 r_symmetry_hbond_refined 0.106 r_chiral_restr 0.081 r_nbtor_other 0.081 r_bond_refined_d 0.013 r_gen_planes_refined 0.005 r_bond_other_d 0.001 r_gen_planes_other 0.001
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 2286 Nucleic Acid Atoms Solvent Atoms 202 Heterogen Atoms 1
Software Software Software Name Purpose REFMAC refinement DENZO data reduction SCALEPACK data scaling PDB_EXTRACT data extraction MOLREP phasing