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Crystals Structure of Aspartate beta-Semialdehyde Dehydrogenase complex with NADP and 2-aminoterephthalate
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model PDB 2GZ3 PDB entry 2GZ3
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, HANGING DROP 6.5 298 20 % PEG 3350, 0.1 M MES, 0.1 M ammonium acetate, 10 mM DTT, pH 6.5, VAPOR DIFFUSION, HANGING DROP, temperature 298K
Crystal Properties Matthews coefficient Solvent content 2.36 47.88
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 60.099 α = 90 b = 99.28 β = 101.02 c = 64.54 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 RAYONIX MX-300 Horizontally and vertically focusing bimorph mirrors in Kirkpatrick-Baez configuration 2010-11-04 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON APS BEAMLINE 23-ID-B 1.033 APS 23-ID-B
Data Collection Overall ID # Resolution (High) Resolution (Low) Percent Possible (Observed) R Sym 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 1.6 29.33 92.7 0.055 17.5 3 90598
Highest Resolution Shell ID # Resolution (High) Resolution (Low) Percent Possible (All) Percent Possible (Observed) R-Sym I (Observed) Mean I Over Sigma (Observed) Redundancy Number Unique Reflections (All) 1 1.6 1.66 66.9 0.297 3.5 2.5
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 FOURIER SYNTHESIS THROUGHOUT PDB entry 2GZ3 1.6 29.33 86052 4493 92.24 0.1611 0.16002 0.158 0.18202 0.1806 RANDOM 21.764
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] 0.05 -0.54 0.88 -1.14
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 35.918 r_dihedral_angle_4_deg 20.067 r_dihedral_angle_3_deg 12.654 r_dihedral_angle_1_deg 6.002 r_scangle_it 3.335 r_scbond_it 2.026 r_angle_refined_deg 1.416 r_mcangle_it 1.161 r_mcbond_it 0.631 r_chiral_restr 0.094
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 35.918 r_dihedral_angle_4_deg 20.067 r_dihedral_angle_3_deg 12.654 r_dihedral_angle_1_deg 6.002 r_scangle_it 3.335 r_scbond_it 2.026 r_angle_refined_deg 1.416 r_mcangle_it 1.161 r_mcbond_it 0.631 r_chiral_restr 0.094 r_bond_refined_d 0.012 r_gen_planes_refined 0.006 r_bond_other_d r_angle_other_deg r_gen_planes_other r_nbd_refined r_nbd_other r_nbtor_refined r_nbtor_other r_xyhbond_nbd_refined r_xyhbond_nbd_other r_metal_ion_refined r_metal_ion_other r_symmetry_vdw_refined r_symmetry_vdw_other r_symmetry_hbond_refined r_symmetry_hbond_other r_symmetry_metal_ion_refined r_symmetry_metal_ion_other r_mcbond_other r_rigid_bond_restr r_sphericity_free r_sphericity_bonded
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 5465 Nucleic Acid Atoms Solvent Atoms 709 Heterogen Atoms 138
Software Software Software Name Purpose Blu-Ice data collection REFMAC refinement HKL-2000 data reduction SCALEPACK data scaling