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Nitroreductase from e-coli in complex with the dinitrobenzamide prodrug SN27217
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model PDB 1DS7 PDB ENTRY 1DS7
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, HANGING DROP 4.6 277 PEG 4000 (25%-29%), 0.1 mM sodium acetate, pH 4.6, VAPOR DIFFUSION, HANGING DROP, temperature 277K
Crystal Properties Matthews coefficient Solvent content 2.12 41.42
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 57.34 α = 90 b = 57.34 β = 90 c = 264.75 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 97 CCD ADSC QUANTUM 4 2001-05-01 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON ESRF BEAMLINE ID14-2 0.93 ESRF ID14-2
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 2.49 20 82.4 0.053 16 15216 15053 31.4
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) 2.49 2.58 78 0.119 4.7 1376
Refinement Statistics Diffraction ID Structure Solution Method Cross Validation method Starting model Resolution (High) Resolution (Low) Number Reflections (All) 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 MOLECULAR REPLACEMENT THROUGHOUT PDB ENTRY 1DS7 2.49 19.33 15016 15016 1184 92.5 0.218 0.214 0.214 0.2106 0.264 0.2604 RANDOM 27.8
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] -3.38 -3.38 6.75
RMS Deviations Key Refinement Restraint Deviation c_dihedral_angle_d 24.8 c_mcangle_it 10.22 c_scangle_it 8.66 c_mcbond_it 7.75 c_scbond_it 6.02 c_improper_angle_d 1.54 c_angle_deg 1.4 c_bond_d 0.012 c_bond_d_na c_bond_d_prot
RMS Deviations Key Refinement Restraint Deviation c_dihedral_angle_d 24.8 c_mcangle_it 10.22 c_scangle_it 8.66 c_mcbond_it 7.75 c_scbond_it 6.02 c_improper_angle_d 1.54 c_angle_deg 1.4 c_bond_d 0.012 c_bond_d_na c_bond_d_prot c_angle_d c_angle_d_na c_angle_d_prot c_angle_deg_na c_angle_deg_prot c_dihedral_angle_d_na c_dihedral_angle_d_prot c_improper_angle_d_na c_improper_angle_d_prot
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 3352 Nucleic Acid Atoms Solvent Atoms 232 Heterogen Atoms 89
Software Software Software Name Purpose CNS refinement DENZO data reduction SCALEPACK data scaling CNS phasing