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Crystal structure of a putative metalloenzyme of the duf664 family (dr_1065) from deinococcus radiodurans at 1.80 A resolution
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, SITTING DROP 6 277 NANODROP, 1.6M (NH4)2SO4, 0.1M MES pH 6.0, VAPOR DIFFUSION, SITTING DROP, temperature 277K
Crystal Properties Matthews coefficient Solvent content 2.87 57.19
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 57.933 α = 90 b = 57.933 β = 90 c = 250.773 γ = 120
Symmetry Space Group P 65 2 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 mirror (vertical focusing) 2007-02-01 M MAD
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON SSRL BEAMLINE BL11-1 0.97905, 0.97932, 0.91837 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 1.8 125 91.1 0.07 0.07 7.1 6.9 22207 21.72
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 1.8 1.85 61.4 0.268 0.268 2.5 2.6 1047
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-Work (DCC) R-Free (Depositor) R-Free (DCC) R-Free Selection Details Mean Isotropic B X-RAY DIFFRACTION MAD THROUGHOUT 1.8 125 22101 1137 91.06 0.157 0.157 0.155 0.1688 0.188 0.1935 RANDOM 19.024
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] -1.32 -0.66 -1.32 1.98
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 36.358 r_dihedral_angle_4_deg 15.484 r_dihedral_angle_3_deg 11.829 r_scangle_it 6.492 r_dihedral_angle_1_deg 5.626 r_scbond_it 4.621 r_mcangle_it 2.609 r_mcbond_it 2.02 r_angle_refined_deg 1.548 r_angle_other_deg 0.912
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 36.358 r_dihedral_angle_4_deg 15.484 r_dihedral_angle_3_deg 11.829 r_scangle_it 6.492 r_dihedral_angle_1_deg 5.626 r_scbond_it 4.621 r_mcangle_it 2.609 r_mcbond_it 2.02 r_angle_refined_deg 1.548 r_angle_other_deg 0.912 r_mcbond_other 0.505 r_symmetry_vdw_other 0.303 r_nbd_refined 0.217 r_nbd_other 0.185 r_nbtor_refined 0.181 r_xyhbond_nbd_refined 0.161 r_symmetry_vdw_refined 0.136 r_chiral_restr 0.102 r_symmetry_hbond_refined 0.089 r_nbtor_other 0.087 r_bond_refined_d 0.015 r_gen_planes_refined 0.008 r_bond_other_d 0.001 r_gen_planes_other 0.001
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 1428 Nucleic Acid Atoms Solvent Atoms 266 Heterogen Atoms 23
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