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Crystal structure of response regulator protein TrrA (TM1360) from Thermotoga maritima in complex with Mg(2+)-BeF (SeMet, L89M)
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION 6.2 293 50% PEG200, 0.1M sodium/potassium-phosphate, 0.1M sodium chloride, pH 6.2, VAPOR DIFFUSION, temperature 293K
Crystal Properties Matthews coefficient Solvent content 1.97 37.47
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 32.678 α = 90 b = 32.678 β = 90 c = 199.242 γ = 90
Symmetry Space Group P 41 21 2
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 RIGAKU JUPITER 210 2006-03-14 M MAD
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON SPRING-8 BEAMLINE BL45XU 0.9795,0.9797,0.9787 SPring-8 BL45XU
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 1.63 50 98.9 0.037 43.7 7.3 14298 -3 18.8
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) 1.63 1.69 99.8 0.143 8.9 6.4
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 1.63 20 14289 719 98.69 0.203 0.2 0.1994 0.25 0.2443 RANDOM 19.765
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] -0.17 -0.17 0.35
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 37.869 r_dihedral_angle_4_deg 23.483 r_dihedral_angle_3_deg 12.655 r_dihedral_angle_1_deg 5.998 r_scangle_it 3.719 r_scbond_it 2.423 r_angle_refined_deg 1.446 r_mcangle_it 1.39 r_mcbond_it 1.002 r_nbtor_refined 0.306
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 37.869 r_dihedral_angle_4_deg 23.483 r_dihedral_angle_3_deg 12.655 r_dihedral_angle_1_deg 5.998 r_scangle_it 3.719 r_scbond_it 2.423 r_angle_refined_deg 1.446 r_mcangle_it 1.39 r_mcbond_it 1.002 r_nbtor_refined 0.306 r_symmetry_vdw_refined 0.25 r_nbd_refined 0.21 r_symmetry_hbond_refined 0.144 r_xyhbond_nbd_refined 0.137 r_metal_ion_refined 0.097 r_chiral_restr 0.081 r_bond_refined_d 0.012 r_gen_planes_refined 0.005
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 968 Nucleic Acid Atoms Solvent Atoms 106 Heterogen Atoms 31
Software Software Software Name Purpose REFMAC refinement PDB_EXTRACT data extraction HKL-2000 data reduction HKL-2000 data scaling SOLVE phasing