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Cystal structure of aspartate semialdehyde dehydrogenase from Cryptococcus neoformans
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model PDB 3HSK
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, HANGING DROP 7.5 293 PEG8000, Ethylene glycol
Crystal Properties Matthews coefficient Solvent content 2.96 58.38
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 76.59 α = 90 b = 130.96 β = 92.87 c = 91.94 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 MARMOSAIC 300 mm CCD 2014-12-11 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON APS BEAMLINE 21-ID-G 0.9786 APS 21-ID-G
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 2.6 66.05 100 0.088 4.4 7.3 55730
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 2.6 2.68 100 0.415 4.4 7.1
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 3hsk 2.6 66.05 52836 2849 99.96 0.1831 0.1812 0.1867 0.2202 0.2236 RANDOM 45.009
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] 2.8 1.87 -0.19 -2.78
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 36.397 r_dihedral_angle_4_deg 15.962 r_dihedral_angle_3_deg 15.562 r_dihedral_angle_1_deg 6.449 r_mcangle_it 5.348 r_mcbond_it 3.525 r_mcbond_other 3.522 r_angle_refined_deg 1.513 r_angle_other_deg 1.183 r_chiral_restr 0.082
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 36.397 r_dihedral_angle_4_deg 15.962 r_dihedral_angle_3_deg 15.562 r_dihedral_angle_1_deg 6.449 r_mcangle_it 5.348 r_mcbond_it 3.525 r_mcbond_other 3.522 r_angle_refined_deg 1.513 r_angle_other_deg 1.183 r_chiral_restr 0.082 r_bond_refined_d 0.012 r_gen_planes_refined 0.008 r_bond_other_d 0.007 r_gen_planes_other 0.006
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 10796 Nucleic Acid Atoms Solvent Atoms 619 Heterogen Atoms 4
Software Software Software Name Purpose Aimless data scaling iMOSFLM data reduction REFMAC refinement PDB_EXTRACT data extraction PHASER phasing Coot model building