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Crystal structure of predicted HD superfamily hydrolase (104161995) from uncultured Thermotogales bacterium at 1.45 A resolution
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, SITTING DROP 5 277 NANODROP, 24.0% 2-methyl-2,4-pentanediol, 0.2M Sodium chloride, 0.1M Sodium acetate pH 5.0, VAPOR DIFFUSION, SITTING DROP, temperature 277K
Crystal Properties Matthews coefficient Solvent content 2.12 42.03
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 138.518 α = 90 b = 40.662 β = 95.32 c = 37.789 γ = 90
Symmetry Space Group C 1 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 100 CCD MARMOSAIC 325 mm CCD Flat mirror (vertical focusing) 2007-04-14 M MAD
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON SSRL BEAMLINE BL11-1 0.91837, 0.97916, 0.97867 SSRL BL11-1
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 1.45 27.441 99.9 0.065 0.065 7.2 3.7 37299 17.32
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) 1.45 1.49 99.8 0.701 0.701 1.1 3.7 2695
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-Factor (Observed) R-Work (Depositor) R-Free (Depositor) R-Free (DCC) R-Free Selection Details Mean Isotropic B X-RAY DIFFRACTION MAD THROUGHOUT 1.45 27.441 37299 1864 99.85 0.183 0.183 0.183 0.193 0.2084 RANDOM 20.351
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] 0.26 -0.96 -1.13 0.69
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 23.742 r_dihedral_angle_3_deg 12.714 r_dihedral_angle_4_deg 12.265 r_scangle_it 7.859 r_scbond_it 5.641 r_dihedral_angle_1_deg 3.536 r_mcangle_it 3.003 r_mcbond_it 2.218 r_angle_refined_deg 1.561 r_angle_other_deg 0.986
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 23.742 r_dihedral_angle_3_deg 12.714 r_dihedral_angle_4_deg 12.265 r_scangle_it 7.859 r_scbond_it 5.641 r_dihedral_angle_1_deg 3.536 r_mcangle_it 3.003 r_mcbond_it 2.218 r_angle_refined_deg 1.561 r_angle_other_deg 0.986 r_mcbond_other 0.524 r_symmetry_vdw_refined 0.221 r_nbd_refined 0.218 r_symmetry_vdw_other 0.206 r_symmetry_hbond_refined 0.186 r_nbtor_refined 0.183 r_xyhbond_nbd_refined 0.178 r_nbd_other 0.156 r_chiral_restr 0.103 r_nbtor_other 0.089 r_bond_refined_d 0.018 r_gen_planes_refined 0.007 r_bond_other_d 0.002 r_gen_planes_other 0.002
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 1444 Nucleic Acid Atoms Solvent Atoms 156 Heterogen Atoms 13
Software Software Software Name Purpose MolProbity model building SHELX phasing REFMAC refinement SCALA data scaling PDB_EXTRACT data extraction MAR345 data collection MOSFLM data reduction CCP4 data scaling SHELXD phasing autoSHARP phasing