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Crystal structure of Aspartate aminotransferase (TM1255) from Thermotoga maritima at 1.90 A resolution
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model PDB 1BKG
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 293 2.4 (NH4)2SO4 9 CHES , VAPOR DIFFUSION,SITTING DROP,NANODROP, temperature 293K
Crystal Properties Matthews coefficient Solvent content 2.31 46.34
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 64.048 α = 90 b = 79.509 β = 90 c = 170.184 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 4 2003-04-16 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON APS BEAMLINE 14-BM-C APS 14-BM-C
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 1.9 43.03 85.8 0.063 15.9 4.8 59510 36.89
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 1.9 2 50.6 0.422 1.7 1.8
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 MR THROUGHOUT 1BKG 1.9 43 58261 1249 85.8 0.16 0.159 0.1693 0.2 0.2016 RANDOM 31.06
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] 2.15 -0.19 -1.96
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 30.445 r_dihedral_angle_3_deg 15.962 r_dihedral_angle_4_deg 14.915 r_dihedral_angle_1_deg 6.147 r_scangle_it 4.237 r_scbond_it 2.473 r_angle_refined_deg 1.623 r_mcangle_it 1.459 r_angle_other_deg 1.2 r_mcbond_it 0.749
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 30.445 r_dihedral_angle_3_deg 15.962 r_dihedral_angle_4_deg 14.915 r_dihedral_angle_1_deg 6.147 r_scangle_it 4.237 r_scbond_it 2.473 r_angle_refined_deg 1.623 r_mcangle_it 1.459 r_angle_other_deg 1.2 r_mcbond_it 0.749 r_symmetry_vdw_other 0.366 r_symmetry_hbond_refined 0.312 r_nbd_other 0.239 r_symmetry_vdw_refined 0.221 r_xyhbond_nbd_refined 0.216 r_nbd_refined 0.21 r_chiral_restr 0.093 r_nbtor_other 0.086 r_bond_refined_d 0.017 r_gen_planes_refined 0.006 r_bond_other_d 0.002 r_gen_planes_other 0.001 r_nbtor_refined r_xyhbond_nbd_other r_metal_ion_refined r_metal_ion_other r_symmetry_hbond_other r_rigid_bond_restr r_sphericity_free r_sphericity_bonded
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 5995 Nucleic Acid Atoms Solvent Atoms 587 Heterogen Atoms 75
Software Software Software Name Purpose MOSFLM data reduction SCALA data scaling MOLREP phasing REFMAC refinement CCP4 data scaling