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Crystal structure of a putative branched-chain amino acid aminotransferase (TM0831) from Thermotoga maritima at 2.15 A resolution
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, SITTING DROP 4.03 277 NANODROP, 52.0% 2-methyl-2,4-pentanediol, 0.1M Citric acid pH 4.03, VAPOR DIFFUSION, SITTING DROP, temperature 277K
Crystal Properties Matthews coefficient Solvent content 3.98 69.11
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 107.71 α = 90 b = 129.76 β = 90 c = 298.69 γ = 90
Symmetry Space Group I 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 MARMOSAIC 325 mm CCD Flat collimating mirror, toroid focusing mirror 2008-01-13 M MAD
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON SSRL BEAMLINE BL9-2 0.91162, 0.97961, 0.97975 SSRL BL9-2
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 29.748 97.1 0.073 8.94 111860 -3 35.759
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 2.15 2.23 92.5 0.657 1.2
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 2.15 29.748 111840 5612 98.62 0.168 0.167 0.1707 0.2 0.2033 RANDOM 31.506
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] -0.84 1.11 -0.27
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 31.405 r_dihedral_angle_4_deg 17.318 r_dihedral_angle_3_deg 13.186 r_scangle_it 6.78 r_dihedral_angle_1_deg 5.144 r_scbond_it 4.719 r_mcangle_it 2.931 r_mcbond_it 1.859 r_angle_refined_deg 1.508 r_angle_other_deg 1.029
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 31.405 r_dihedral_angle_4_deg 17.318 r_dihedral_angle_3_deg 13.186 r_scangle_it 6.78 r_dihedral_angle_1_deg 5.144 r_scbond_it 4.719 r_mcangle_it 2.931 r_mcbond_it 1.859 r_angle_refined_deg 1.508 r_angle_other_deg 1.029 r_mcbond_other 0.516 r_symmetry_vdw_refined 0.277 r_symmetry_vdw_other 0.248 r_nbd_refined 0.199 r_nbd_other 0.195 r_xyhbond_nbd_refined 0.18 r_nbtor_refined 0.177 r_xyhbond_nbd_other 0.174 r_symmetry_hbond_refined 0.165 r_chiral_restr 0.097 r_nbtor_other 0.083 r_bond_refined_d 0.014 r_gen_planes_refined 0.005 r_bond_other_d 0.002 r_gen_planes_other 0.001
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 8737 Nucleic Acid Atoms Solvent Atoms 621 Heterogen Atoms 145
Software Software Software Name Purpose REFMAC refinement PHENIX refinement SHELX phasing MolProbity model building XSCALE data scaling PDB_EXTRACT data extraction MAR345 data collection XDS data reduction SHARP phasing SHELXD phasing