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Crystal Structure of the sugar binding domain of the archaeal transcriptional regulator TrmB
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, SITTING DROP 4.6 291 100mM sodium acetate, 8%(w/v) PEG 4000, pH 4.6, VAPOR DIFFUSION, SITTING DROP, temperature 291K
Crystal Properties Matthews coefficient Solvent content 2.32 46.98
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 56.857 α = 90 b = 56.857 β = 90 c = 132.482 γ = 120
Symmetry Space Group P 32 2 1
Diffraction Diffraction Experiment ID # Crystal ID Scattering Type Data Collection Temperature Detector Detector Type Details Collection Date Monochromator Protocol 1 1 x-ray M SINGLE WAVELENGTH 2 1 3 1 4 1 5 1 6 1 7 1 8 1 9 1
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON SLS BEAMLINE X06SA 0.85, 0.978, 0.979, 1.699 SLS X06SA
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 1.45 39.53 97.2 0.049 36.1 44046
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 1.45 1.54 87.5 0.29 8.12 55823
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 (All) R-Work (Depositor) R-Work (DCC) R-Free (Depositor) R-Free (DCC) R-Free Selection Details Mean Isotropic B X-RAY DIFFRACTION MIRAS THROUGHOUT 1.45 39.53 43989 2224 98.7 0.164 0.162 0.1581 0.195 0.1935 RANDOM 16.215
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 0.02 0.05 -0.07
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 34.578 r_dihedral_angle_4_deg 16.826 r_dihedral_angle_3_deg 12.483 r_dihedral_angle_1_deg 11.865 r_sphericity_free 9.977 r_sphericity_bonded 5.659 r_scangle_it 5.169 r_scbond_it 3.745 r_mcangle_it 2.703 r_rigid_bond_restr 2.197
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 34.578 r_dihedral_angle_4_deg 16.826 r_dihedral_angle_3_deg 12.483 r_dihedral_angle_1_deg 11.865 r_sphericity_free 9.977 r_sphericity_bonded 5.659 r_scangle_it 5.169 r_scbond_it 3.745 r_mcangle_it 2.703 r_rigid_bond_restr 2.197 r_mcbond_it 1.956 r_angle_refined_deg 1.822 r_nbtor_refined 0.32 r_chiral_restr 0.298 r_nbd_refined 0.221 r_symmetry_vdw_refined 0.194 r_symmetry_hbond_refined 0.128 r_xyhbond_nbd_refined 0.116 r_bond_refined_d 0.017 r_gen_planes_refined 0.009
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 1878 Nucleic Acid Atoms Solvent Atoms 105 Heterogen Atoms 28
Software Software Software Name Purpose XSCALE data scaling SOLVE phasing RESOLVE phasing REFMAC refinement PDB_EXTRACT data extraction