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Crystal Structure of Aspartate Semialdehyde Dehydrogenase with NADP from Candida albicans
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model PDB 1YS4
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, HANGING DROP 6.5 293 20% PEG 400, 0.1 M HEPES pH 6.5, 0.1 M Magnesium Chloride, VAPOR DIFFUSION, HANGING DROP, temperature 293K
Crystal Properties Matthews coefficient Solvent content 2.11 41.82
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 93.412 α = 90 b = 152.18 β = 90 c = 97.762 γ = 90
Symmetry Space Group C 2 2 21
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 2009-04-17 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON APS BEAMLINE 23-ID-B 1.03319 APS 23-ID-B
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 2.2 46.71 91.5 0.077 20.167 5.1 32719
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 2.2 2.28 60.6 0.467 2.3 2148
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 1YS4 2.2 46.71 32667 1657 91.42 0.227 0.225 0.22 0.279 0.2754 RANDOM 48.212
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] -1.76 1.36 0.4
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 33.647 r_dihedral_angle_4_deg 17.292 r_dihedral_angle_3_deg 15.122 r_dihedral_angle_1_deg 5.775 r_scangle_it 1.631 r_angle_refined_deg 1.115 r_scbond_it 0.942 r_mcangle_it 0.79 r_mcbond_it 0.436 r_nbtor_refined 0.295
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 33.647 r_dihedral_angle_4_deg 17.292 r_dihedral_angle_3_deg 15.122 r_dihedral_angle_1_deg 5.775 r_scangle_it 1.631 r_angle_refined_deg 1.115 r_scbond_it 0.942 r_mcangle_it 0.79 r_mcbond_it 0.436 r_nbtor_refined 0.295 r_symmetry_vdw_refined 0.202 r_nbd_refined 0.187 r_symmetry_hbond_refined 0.16 r_xyhbond_nbd_refined 0.116 r_chiral_restr 0.072 r_bond_refined_d 0.007 r_gen_planes_refined 0.003
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 5344 Nucleic Acid Atoms Solvent Atoms 140 Heterogen Atoms 48
Software Software Software Name Purpose DENZO data reduction SCALEPACK data scaling PHASER phasing REFMAC refinement PDB_EXTRACT data extraction HKL-2000 data collection HKL-2000 data reduction