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Crystal structure of mazG-related protein from Thermotoga maritima
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, SITTING DROP 8.4 293 25% PEG3350, 0.2M MgAcetate, 0.1M Tris-HCl, pH8.4, VAPOR DIFFUSION, SITTING DROP, temperature 293.0K
Crystal Properties Matthews coefficient Solvent content 2.39 48.48
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 74.829 α = 90 b = 56.788 β = 90 c = 61.615 γ = 90
Symmetry Space Group P 21 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 120 CCD RIGAKU JUPITER 210 M MAD
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON SPRING-8 BEAMLINE BL26B2 0.97905, 0.90000, 0.97945 SPring-8 BL26B2
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 50 99.7 0.073 6.6 18461 18408 -3
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 2.07 98.8 0.258 5.7 1765
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-Free (Depositor) R-Free Selection Details Mean Isotropic B X-RAY DIFFRACTION MAD THROUGHOUT 2 20 17330 930 99.74 0.21472 0.21205 0.26312 RANDOM 37.63
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] -3.66 6.15 -2.48
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 35.791 r_dihedral_angle_4_deg 24.428 r_dihedral_angle_3_deg 17.072 r_scangle_it 6.883 r_dihedral_angle_1_deg 6.075 r_scbond_it 4.839 r_mcangle_it 2.558 r_angle_refined_deg 2.186 r_mcbond_it 1.659 r_nbtor_refined 0.331
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 35.791 r_dihedral_angle_4_deg 24.428 r_dihedral_angle_3_deg 17.072 r_scangle_it 6.883 r_dihedral_angle_1_deg 6.075 r_scbond_it 4.839 r_mcangle_it 2.558 r_angle_refined_deg 2.186 r_mcbond_it 1.659 r_nbtor_refined 0.331 r_symmetry_hbond_refined 0.282 r_nbd_refined 0.264 r_symmetry_vdw_refined 0.217 r_xyhbond_nbd_refined 0.205 r_metal_ion_refined 0.183 r_chiral_restr 0.149 r_bond_refined_d 0.03 r_gen_planes_refined 0.01
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 1871 Nucleic Acid Atoms Solvent Atoms 229 Heterogen Atoms 4
Software Software Software Name Purpose REFMAC refinement ADSC data collection HKL-2000 data reduction SCALEPACK data scaling SOLVE phasing