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Crystal structure of putative class I ribonucleotide reductase (NP_241368.1) from Bacillus halodurans at 1.90 A resolution
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, SITTING DROP 7.5 277 NANODROP, 10.0% Glycerol, 5.0% PEG 3000, 30.0% PEG 400, 0.1M HEPES pH 7.5, VAPOR DIFFUSION, SITTING DROP, temperature 277K
Crystal Properties Matthews coefficient Solvent content 2.38 48.43
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 175.26 α = 90 b = 72.78 β = 124.9 c = 111.77 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) 2007-07-26 M MAD
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON SSRL BEAMLINE BL11-1 0.91837, 0.97926 SSRL BL11-1
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 1.9 28.502 98.2 0.055 7.13 90521 -3 27.44
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 1.9 1.97 97 0.389 1.7
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-Work (DCC) R-Free (Depositor) R-Free (DCC) R-Free Selection Details Mean Isotropic B X-RAY DIFFRACTION MAD THROUGHOUT 1.9 28.502 90520 4538 99.52 0.184 0.183 0.187 0.215 0.2143 RANDOM 19.585
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] -1.23 -0.95 -0.46 0.6
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 34.801 r_dihedral_angle_4_deg 17.402 r_dihedral_angle_3_deg 12.015 r_scangle_it 7.089 r_scbond_it 5.537 r_dihedral_angle_1_deg 3.635 r_mcangle_it 2.932 r_mcbond_it 2.158 r_angle_refined_deg 1.613 r_angle_other_deg 1.292
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 34.801 r_dihedral_angle_4_deg 17.402 r_dihedral_angle_3_deg 12.015 r_scangle_it 7.089 r_scbond_it 5.537 r_dihedral_angle_1_deg 3.635 r_mcangle_it 2.932 r_mcbond_it 2.158 r_angle_refined_deg 1.613 r_angle_other_deg 1.292 r_mcbond_other 0.578 r_symmetry_hbond_refined 0.218 r_nbd_refined 0.194 r_symmetry_vdw_other 0.187 r_nbtor_refined 0.183 r_xyhbond_nbd_refined 0.175 r_symmetry_vdw_refined 0.144 r_nbd_other 0.141 r_chiral_restr 0.092 r_nbtor_other 0.088 r_metal_ion_refined 0.071 r_xyhbond_nbd_other 0.063 r_bond_refined_d 0.017 r_gen_planes_refined 0.007 r_bond_other_d 0.004 r_gen_planes_other 0.002
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 7328 Nucleic Acid Atoms Solvent Atoms 340 Heterogen Atoms 80
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 SHARP phasing