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Wild-type pentaerythritol tetranitrate reductase containing a C-terminal 8-histidine tag
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model PDB 1H50 PDB ENTRY 1H50
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, SITTING DROP 6.2 293 100mM sodium cacodylate, 100 mM sodium acetate, 16-18% isopropanol, pH 6.2, VAPOR DIFFUSION, SITTING DROP, temperature 293K
Crystal Properties Matthews coefficient Solvent content 2.21 44.41
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 58.961 α = 90 b = 68.954 β = 90 c = 88.476 γ = 90
Symmetry Space Group P 21 21 21
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 ADSC QUANTUM 1 2009-09-01 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON ESRF BEAMLINE ID14-4 1.07 ESRF ID14-4
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 1.4 54.393 99.5 0.067 0.067 12.7 3.4 71252 71252
Highest Resolution Shell ID # Resolution (High) Resolution (Low) Percent Possible (All) Percent Possible (Observed) R Merge I (Observed) R-Sym I (Observed) Rrim I (All) Rpim I (All) Mean I Over Sigma (Observed) Redundancy Number Unique Reflections (All) 1.4 1.48 99.9 0.29 0.29 0.345 0.184 2.5 3.4 10357
Refinement Statistics Diffraction ID Structure Solution Method Cross Validation method Starting model 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 MOLECULAR REPLACEMENT THROUGHOUT PDB ENTRY 1H50 1.4 27.97 71195 3605 99.34 0.1273 0.1258 0.1355 0.1559 0.1605 RANDOM 14.9066
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] -0.01 0.01
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 40.298 r_dihedral_angle_4_deg 16.168 r_dihedral_angle_3_deg 12.111 r_sphericity_free 5.991 r_dihedral_angle_1_deg 5.738 r_scangle_it 3.293 r_sphericity_bonded 2.698 r_scbond_it 2.457 r_mcangle_it 1.678 r_angle_refined_deg 1.436
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 40.298 r_dihedral_angle_4_deg 16.168 r_dihedral_angle_3_deg 12.111 r_sphericity_free 5.991 r_dihedral_angle_1_deg 5.738 r_scangle_it 3.293 r_sphericity_bonded 2.698 r_scbond_it 2.457 r_mcangle_it 1.678 r_angle_refined_deg 1.436 r_mcbond_it 1.303 r_rigid_bond_restr 1.209 r_angle_other_deg 0.949 r_mcbond_other 0.578 r_symmetry_vdw_other 0.318 r_symmetry_hbond_refined 0.248 r_nbd_other 0.218 r_nbd_refined 0.217 r_nbtor_refined 0.178 r_xyhbond_nbd_refined 0.148 r_symmetry_vdw_refined 0.106 r_chiral_restr 0.086 r_nbtor_other 0.086 r_bond_refined_d 0.012 r_gen_planes_refined 0.009 r_bond_other_d 0.002 r_gen_planes_other 0.001
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 2776 Nucleic Acid Atoms Solvent Atoms 698 Heterogen Atoms 35
Software Software Software Name Purpose SCALA data scaling MOLREP phasing REFMAC refinement PDB_EXTRACT data extraction ADSC data collection MOSFLM data reduction