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Crystal structure of TTHA0281 from thermus thermophilus HB8
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 MICROBATCH 9.37 291 Protein 7.91mg/mL, PEG4000 17.5w/w(%), CHES-HCl 0.1M, MgCl2 0.05M, pH 9.37, Microbatch, temperature 291K
Crystal Properties Matthews coefficient Solvent content 1.98 37.91
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 38.996 α = 90 b = 62.743 β = 104.31 c = 65.724 γ = 90
Symmetry Space Group P 1 21 1
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 MIRRORS 2005-03-01 M MAD
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON SPRING-8 BEAMLINE BL26B2 0.97910, 0.97940, 0.98150 SPring-8 BL26B2
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 1.89 63.63 100 0.068 0.043 16.1 3.6 24539 24539 22.72
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) 1.9 1.97 99.9 0.263 0.201 4.66 3.5 2448
Refinement Statistics Diffraction ID Structure Solution Method Cross Validation method Resolution (High) Resolution (Low) Number Reflections (All) Number Reflections (Observed) Number Reflections (R-Free) Percent Reflections (Observed) R-Factor (All) 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 THROUGHPUT 1.9 50 23264 23264 1218 99.5 0.185 0.185 0.183 0.185 0.232 0.2299 RANDOM 23.43
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] -1.52 -0.94 0.17 0.89
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 34.533 r_dihedral_angle_4_deg 21.762 r_dihedral_angle_3_deg 14.462 r_dihedral_angle_1_deg 5.346 r_scangle_it 4.95 r_scbond_it 3.179 r_mcangle_it 1.933 r_angle_refined_deg 1.487 r_mcbond_it 1.479 r_nbtor_refined 0.313
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 34.533 r_dihedral_angle_4_deg 21.762 r_dihedral_angle_3_deg 14.462 r_dihedral_angle_1_deg 5.346 r_scangle_it 4.95 r_scbond_it 3.179 r_mcangle_it 1.933 r_angle_refined_deg 1.487 r_mcbond_it 1.479 r_nbtor_refined 0.313 r_symmetry_vdw_refined 0.213 r_nbd_refined 0.2 r_xyhbond_nbd_refined 0.19 r_symmetry_hbond_refined 0.175 r_chiral_restr 0.096 r_metal_ion_refined 0.061 r_bond_refined_d 0.015 r_gen_planes_refined 0.006 r_bond_other_d r_angle_other_deg r_gen_planes_other r_nbd_other r_nbtor_other r_xyhbond_nbd_other r_metal_ion_other r_symmetry_vdw_other r_symmetry_hbond_other r_symmetry_metal_ion_refined r_symmetry_metal_ion_other r_mcbond_other r_rigid_bond_restr r_sphericity_free r_sphericity_bonded
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 2491 Nucleic Acid Atoms Solvent Atoms 174 Heterogen Atoms 26
Software Software Software Name Purpose SOLVE phasing REFMAC refinement HKL-2000 data reduction SCALEPACK data scaling