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Crystal structure of a nitroreductase-like protein (smu.346) from streptococcus mutans at 1.70 A resolution
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, SITTING DROP 4.6 277 NANODROP, 0.160M (NH4)2SO4, 20.0% Glycerol, 20.0% PEG 4000, 0.1M Acetate pH 4.6, VAPOR DIFFUSION, SITTING DROP, temperature 277K
Crystal Properties Matthews coefficient Solvent content 2.19 43.8
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 49.112 α = 88.13 b = 52.478 β = 80.35 c = 93.105 γ = 62.14
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 300 mm CCD Adjustable focusing mirrors in K-B geometry 2008-10-11 M SAD
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON APS BEAMLINE 23-ID-B 0.97953 APS 23-ID-B
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 1.7 29.591 91.3 0.108 0.108 4.449 3.9 81270
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 1.7 1.74 53.4 0.471 0.471 1.6 3.8 3530
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 SAD THROUGHOUT 1.7 29.591 81269 4057 91.3 0.154 0.152 0.1642 0.188 0.1978 RANDOM 24.851
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] -0.55 0.48 -0.26 -0.92 0.02 1.11
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 32.14 r_dihedral_angle_4_deg 13.617 r_dihedral_angle_3_deg 12.757 r_dihedral_angle_1_deg 4.48 r_scangle_it 3.604 r_scbond_it 2.488 r_angle_refined_deg 1.561 r_mcangle_it 1.501 r_mcbond_it 1.115 r_angle_other_deg 0.937
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 32.14 r_dihedral_angle_4_deg 13.617 r_dihedral_angle_3_deg 12.757 r_dihedral_angle_1_deg 4.48 r_scangle_it 3.604 r_scbond_it 2.488 r_angle_refined_deg 1.561 r_mcangle_it 1.501 r_mcbond_it 1.115 r_angle_other_deg 0.937 r_symmetry_vdw_refined 0.318 r_mcbond_other 0.298 r_nbd_refined 0.227 r_symmetry_vdw_other 0.208 r_xyhbond_nbd_refined 0.198 r_nbd_other 0.197 r_nbtor_refined 0.192 r_symmetry_hbond_refined 0.174 r_xyhbond_nbd_other 0.1 r_chiral_restr 0.098 r_nbtor_other 0.092 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 6447 Nucleic Acid Atoms Solvent Atoms 644 Heterogen Atoms 218
Software Software Software Name Purpose REFMAC refinement PHENIX refinement SOLVE phasing MolProbity model building SCALA data scaling PDB_EXTRACT data extraction MAR345 data collection MOSFLM data reduction