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Crystal structure of Pentaerythritol Tetranitrate Reductase complex with 1-nitrocyclohexene
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, SITTING DROP 6.2 293 25 % (w/v) PEG 3000, 0.1M trisodium citrate, 0.1M cacodylic acid pH 6.2, 17 % (v/v) isopropanol , VAPOR DIFFUSION, SITTING DROP, temperature 293K
Crystal Properties Matthews coefficient Solvent content 2.28 45.97
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 57.338 α = 90 b = 70.295 β = 90 c = 89.016 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 4 2008-04-08 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON ESRF BEAMLINE ID14-1 0.93 ESRF ID14-1
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 1.2 44.432 99.7 0.076 0.076 7.05 3.4 112379
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) 1.2 1.26 99.5 0.48 0.48 1.4 3.3 16224
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-Free (Depositor) R-Free (DCC) R-Free Selection Details Mean Isotropic B X-RAY DIFFRACTION THROUGHOUT 1.34 15 80902 4075 99.48 0.116 0.115 0.145 0.1634 RANDOM 11.079
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] 1.4 -0.44 -0.96
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 41.533 r_dihedral_angle_4_deg 14.764 r_dihedral_angle_3_deg 12.204 r_sphericity_free 8.017 r_dihedral_angle_1_deg 6.038 r_sphericity_bonded 4.431 r_scangle_it 3.49 r_scbond_it 2.566 r_mcangle_it 1.832 r_angle_refined_deg 1.555
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 41.533 r_dihedral_angle_4_deg 14.764 r_dihedral_angle_3_deg 12.204 r_sphericity_free 8.017 r_dihedral_angle_1_deg 6.038 r_sphericity_bonded 4.431 r_scangle_it 3.49 r_scbond_it 2.566 r_mcangle_it 1.832 r_angle_refined_deg 1.555 r_mcbond_it 1.442 r_rigid_bond_restr 1.285 r_angle_other_deg 1.049 r_mcbond_other 0.695 r_symmetry_vdw_other 0.283 r_nbd_refined 0.219 r_nbd_other 0.211 r_nbtor_refined 0.18 r_xyhbond_nbd_refined 0.161 r_symmetry_hbond_refined 0.128 r_chiral_restr 0.102 r_nbtor_other 0.087 r_symmetry_vdw_refined 0.069 r_bond_refined_d 0.014 r_gen_planes_refined 0.011 r_bond_other_d 0.002 r_gen_planes_other 0.001
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 2867 Nucleic Acid Atoms Solvent Atoms 657 Heterogen Atoms 50
Software Software Software Name Purpose SCALA data scaling REFMAC refinement PDB_EXTRACT data extraction