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Structure of a Phosphoribosylaminoimidazole-succinocarboxamide synthase from Mycobacterium abscessus ATCC 19977 / DSM 44196
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model PDB 1OBG PDB ENTRY 1OBG
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, SITTING DROP 289 20% PEG3350, Cryo 25% Ethylene glycol, VAPOR DIFFUSION, SITTING DROP, temperature 289K
Crystal Properties Matthews coefficient Solvent content 2.13 42.14
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 47.901 α = 90 b = 64.786 β = 110.48 c = 48.357 γ = 90
Symmetry Space Group P 1 21 1
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 4 2011-02-10 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON ALS BEAMLINE 5.0.1 0.97 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 1.849 50 99.9 0.082 10.1 3.1 23760
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 1.849 1.88 100 0.369 3.1 1169
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 1OBG 1.849 45.3 23713 1214 99.69 0.1773 0.1744 0.1845 0.2331 0.2371 RANDOM 19.1743
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] -0.6 0.13 -0.06 0.75
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 30.382 r_dihedral_angle_4_deg 17.24 r_dihedral_angle_3_deg 12.002 r_dihedral_angle_1_deg 6.066 r_scangle_it 3.049 r_scbond_it 1.794 r_angle_refined_deg 1.391 r_mcangle_it 1.352 r_angle_other_deg 0.909 r_mcbond_it 0.738
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 30.382 r_dihedral_angle_4_deg 17.24 r_dihedral_angle_3_deg 12.002 r_dihedral_angle_1_deg 6.066 r_scangle_it 3.049 r_scbond_it 1.794 r_angle_refined_deg 1.391 r_mcangle_it 1.352 r_angle_other_deg 0.909 r_mcbond_it 0.738 r_mcbond_other 0.132 r_chiral_restr 0.075 r_bond_refined_d 0.011 r_gen_planes_refined 0.007 r_bond_other_d 0.006 r_gen_planes_other 0.004
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 2248 Nucleic Acid Atoms Solvent Atoms 261 Heterogen Atoms 10
Software Software Software Name Purpose DENZO data reduction SCALEPACK data scaling PHASER phasing REFMAC refinement PDB_EXTRACT data extraction