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Crystal structure of Amino Transferase (RER070207001803) from Eubacterium rectale at 2.10 A resolution
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, SITTING DROP 7 277 1.0000M LiCl, 20.0000% PEG-6000, 0.1M HEPES pH 7.0, NANODROP, VAPOR DIFFUSION, SITTING DROP, temperature 277K
Crystal Properties Matthews coefficient Solvent content 2.33 47.11
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 65.564 α = 82.51 b = 68.387 β = 79.52 c = 98.112 γ = 75.68
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 325 mm CCD Flat collimating mirror, toroid focusing mirror 2008-08-10 M MAD
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON SSRL BEAMLINE BL9-2 0.91837,0.97936,0.97917 SSRL BL9-2
Data Collection Overall ID # Resolution (High) Resolution (Low) Percent Possible (Observed) R Merge I (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 2.1 29.881 97.6 0.069 0.069 9.121 2 92103 25.239
Highest Resolution Shell ID # Resolution (High) Resolution (Low) Percent Possible (All) Percent Possible (Observed) R Merge I (Observed) R-Sym I (Observed) Mean I Over Sigma (Observed) Redundancy Number Unique Reflections (All) 1 2.1 2.15 96.7 0.35 0.35 2.1 2 6769
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 MAD THROUGHOUT 2.1 29.881 92101 4610 97.57 0.175 0.173 0.1779 0.222 0.2277 RANDOM 36.74
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] -1.47 0.48 0.22 -1.69 -1.15 3.14
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 31.234 r_dihedral_angle_4_deg 13.839 r_dihedral_angle_3_deg 11.051 r_scangle_it 3.922 r_dihedral_angle_1_deg 3.871 r_scbond_it 3.038 r_angle_refined_deg 1.618 r_mcangle_it 1.602 r_angle_other_deg 1.312 r_mcbond_it 0.982
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 31.234 r_dihedral_angle_4_deg 13.839 r_dihedral_angle_3_deg 11.051 r_scangle_it 3.922 r_dihedral_angle_1_deg 3.871 r_scbond_it 3.038 r_angle_refined_deg 1.618 r_mcangle_it 1.602 r_angle_other_deg 1.312 r_mcbond_it 0.982 r_nbd_refined 0.167 r_mcbond_other 0.163 r_symmetry_hbond_refined 0.161 r_nbtor_refined 0.156 r_symmetry_vdw_other 0.146 r_nbd_other 0.137 r_symmetry_vdw_refined 0.112 r_xyhbond_nbd_refined 0.104 r_chiral_restr 0.095 r_nbtor_other 0.072 r_bond_refined_d 0.015 r_gen_planes_refined 0.005 r_bond_other_d 0.003 r_gen_planes_other 0.002
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 12432 Nucleic Acid Atoms Solvent Atoms 772 Heterogen Atoms 114
Software Software Software Name Purpose REFMAC refinement PHENIX refinement SHELX phasing MolProbity model building SCALA data scaling PDB_EXTRACT data extraction MOSFLM data reduction SHARP phasing