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Crystal structure of aspartate aminotransferase (E.C. 2.6.1.1) (YP_194538.1) from Lactobacillus acidophilus NCFM at 2.15 A resolution
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, SITTING DROP 7.9 277 0.2000M (NH4)2HPO4, 20.0000% PEG-3350, No Buffer pH 7.9, NANODROP, VAPOR DIFFUSION, SITTING DROP, temperature 277K
Crystal Properties Matthews coefficient Solvent content 2.36 47.92
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 89.78 α = 90 b = 107.75 β = 90 c = 119.68 γ = 90
Symmetry Space Group P 21 21 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 ADSC QUANTUM 315 2008-08-27 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON ALS BEAMLINE 8.2.2 ALS 8.2.2
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 2.15 29.921 99.9 0.147 9.204 3.6 63504 26.801
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 2.1 2.15 99.9 0.805 3.6 4791
Refinement Statistics Diffraction ID Structure Solution Method Cross Validation method 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 SAD THROUGHOUT 2.15 29.921 63132 3199 99.25 0.18 0.177 0.1806 0.238 0.2333 RANDOM 31.258
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] 1.24 -1.42 0.18
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 34.566 r_dihedral_angle_4_deg 17.248 r_dihedral_angle_3_deg 12.436 r_dihedral_angle_1_deg 3.73 r_scangle_it 3.236 r_scbond_it 2.362 r_angle_refined_deg 1.665 r_mcangle_it 1.637 r_angle_other_deg 1.055 r_mcbond_it 1.053
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 34.566 r_dihedral_angle_4_deg 17.248 r_dihedral_angle_3_deg 12.436 r_dihedral_angle_1_deg 3.73 r_scangle_it 3.236 r_scbond_it 2.362 r_angle_refined_deg 1.665 r_mcangle_it 1.637 r_angle_other_deg 1.055 r_mcbond_it 1.053 r_mcbond_other 0.264 r_symmetry_vdw_other 0.218 r_nbd_refined 0.193 r_nbd_other 0.19 r_nbtor_refined 0.174 r_xyhbond_nbd_refined 0.167 r_symmetry_vdw_refined 0.156 r_chiral_restr 0.1 r_nbtor_other 0.087 r_symmetry_hbond_refined 0.082 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 8294 Nucleic Acid Atoms Solvent Atoms 563 Heterogen Atoms 20
Software Software Software Name Purpose REFMAC refinement PHENIX refinement SHELX phasing MolProbity model building SCALEPACK data scaling PDB_EXTRACT data extraction HKL-2000 data reduction SHELXD phasing autoSHARP phasing