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Crystal structure of arginine deiminase from group A streptococcus
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model PDB 1S9R PDB ENTRY 1S9R
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 5.5 0.1M BIS-TRIS PH 5.5, 20% PEG3350, 0.3M LISO4, 25MG/ML PROTEIN
Crystal Properties Matthews coefficient Solvent content 2.62 53
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 87.91 α = 96.15 b = 92.74 β = 90.27 c = 120.97 γ = 100.13
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 210r 2011-12-14 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON AUSTRALIAN SYNCHROTRON BEAMLINE MX1 Australian Synchrotron MX1
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 2.48 46.85 99.3 0.15 10.25 7.4 131658 1.21 54.68
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 2.48 2.57 94.1 0.98 1.21 3.2
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 1S9R 2.48 36.31 131631 6579 99.34 0.2128 0.2111 0.2219 0.2441 0.2554 RANDOM 58.69
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] -6.9793 8.2544 3.0916 -0.8683 1.0706 7.8477
RMS Deviations Key Refinement Restraint Deviation t_other_torsion 3.22 t_omega_torsion 3.15 t_angle_deg 1.12 t_bond_d 0.01 t_dihedral_angle_d t_incorr_chiral_ct t_pseud_angle t_trig_c_planes t_gen_planes t_it
RMS Deviations Key Refinement Restraint Deviation t_other_torsion 3.22 t_omega_torsion 3.15 t_angle_deg 1.12 t_bond_d 0.01 t_dihedral_angle_d t_incorr_chiral_ct t_pseud_angle t_trig_c_planes t_gen_planes t_it t_nbd t_improper_torsion t_chiral_improper_torsion t_sum_occupancies t_utility_distance t_utility_angle t_utility_torsion t_ideal_dist_contact
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 25915 Nucleic Acid Atoms Solvent Atoms 291 Heterogen Atoms 113
Software Software Software Name Purpose BUSTER refinement XDS data reduction XSCALE data scaling PHASER phasing