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Crystal structure of Phosphoserine phosphatase SerB from Mycobacterium avium, native form
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, SITTING DROP 6 290 0.2 M MgCl2, 0.1 M MES, 20% PEG6000, protein at 27.45mg/ml, pH 6.0, VAPOR DIFFUSION, SITTING DROP, temperature 290K
Crystal Properties Matthews coefficient Solvent content 2.6 52.69
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 65.53 α = 90 b = 109.19 β = 90 c = 134.32 γ = 90
Symmetry Space Group I 2 2 2
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 315 2010-09-15 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON ALS BEAMLINE 5.0.1 0.9774 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 2.05 36.97 96.5 0.062 16.41 5.7 30644 29584 -3 38.011
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 2.05 2.1 85.8 0.554 3.7 4.3 2232
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 SAD THROUGHOUT 2.05 36.97 30644 29505 1493 96.31 0.231 0.231 0.229 0.2519 0.281 0.2987 RANDOM 45.015
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] 3.27 -0.53 -2.73
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 35.149 r_dihedral_angle_4_deg 19.613 r_dihedral_angle_3_deg 14.31 r_dihedral_angle_1_deg 6.583 r_scangle_it 3.385 r_scbond_it 2.131 r_angle_refined_deg 1.54 r_mcangle_it 1.301 r_angle_other_deg 0.948 r_mcbond_it 0.722
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 35.149 r_dihedral_angle_4_deg 19.613 r_dihedral_angle_3_deg 14.31 r_dihedral_angle_1_deg 6.583 r_scangle_it 3.385 r_scbond_it 2.131 r_angle_refined_deg 1.54 r_mcangle_it 1.301 r_angle_other_deg 0.948 r_mcbond_it 0.722 r_mcbond_other 0.167 r_chiral_restr 0.087 r_bond_refined_d 0.016 r_gen_planes_refined 0.006 r_bond_other_d 0.001 r_gen_planes_other 0.001
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 2890 Nucleic Acid Atoms Solvent Atoms 112 Heterogen Atoms 6
Software Software Software Name Purpose XSCALE data scaling REFMAC refinement PDB_EXTRACT data extraction ADSC data collection XDS data reduction PHENIX phasing