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Crystal structure of predicted hydrolase of haloacid dehalogenase-like superfamily (NP_295428.1) from Deinococcus radiodurans at 1.66 A resolution
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, SITTING DROP 4.2 277 NANODROP, 0.2M NaCl, 20.0% PEG 8000, 0.1M Phosphate citrate pH 4.2, VAPOR DIFFUSION, SITTING DROP, temperature 277K
Crystal Properties Matthews coefficient Solvent content 2.38 48.4
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 74.108 α = 90 b = 74.108 β = 90 c = 160.923 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 MARMOSAIC 325 mm CCD Flat collimating mirror, toroid focusing mirror 2008-02-21 M MAD
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON SSRL BEAMLINE BL9-2 0.91837, 0.97922, 0.97908 SSRL BL9-2
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 1.66 35.355 99.8 0.055 17.74 53836 -3 24.504
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 1.66 1.72 99.7 0.716 2.1
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 (DCC) R-Free Selection Details Mean Isotropic B X-RAY DIFFRACTION MAD THROUGHOUT 1.66 35.355 53757 2734 99.87 0.161 0.16 0.187 0.2628 RANDOM 29.653
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] -0.76 -0.76 1.53
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 30.043 r_dihedral_angle_3_deg 11.921 r_dihedral_angle_4_deg 11.824 r_scangle_it 5.774 r_dihedral_angle_1_deg 4.467 r_scbond_it 3.623 r_mcangle_it 2.019 r_angle_other_deg 1.805 r_angle_refined_deg 1.669 r_mcbond_it 1.095
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 30.043 r_dihedral_angle_3_deg 11.921 r_dihedral_angle_4_deg 11.824 r_scangle_it 5.774 r_dihedral_angle_1_deg 4.467 r_scbond_it 3.623 r_mcangle_it 2.019 r_angle_other_deg 1.805 r_angle_refined_deg 1.669 r_mcbond_it 1.095 r_mcbond_other 0.234 r_chiral_restr 0.102 r_bond_refined_d 0.016 r_gen_planes_refined 0.008 r_gen_planes_other 0.003 r_bond_other_d 0.002
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 3175 Nucleic Acid Atoms Solvent Atoms 323 Heterogen Atoms 28
Software Software Software Name Purpose REFMAC refinement PHENIX refinement SHELX phasing MolProbity model building XSCALE data scaling PDB_EXTRACT data extraction MAR345 data collection XDS data reduction SHELXD phasing autoSHARP phasing