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The crystal structure of AzoR (azoreductase) from Escherichia coli: Oxidized AzoR in orthorhombic crystals
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model PDB 1V4B PDB ID 1V4B
Crystallization Crystal Properties Matthews coefficient Solvent content 2.93 57.95
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 55.065 α = 90 b = 89.892 β = 90 c = 101.872 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 CCD ADSC QUANTUM 210 2003-11-07 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON PHOTON FACTORY BEAMLINE AR-NW12A 1.0000 Photon Factory AR-NW12A
Data Collection Overall ID # Resolution (High) Resolution (Low) Percent Possible (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 2.1 67.42 29939
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 ID 1V4B 2.1 41.17 28382 1519 99.03 0.17202 0.16979 0.1837 0.21395 0.2249 RANDOM 23.502
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] 2.57 -1.51 -1.06
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 32.739 r_dihedral_angle_4_deg 21.554 r_dihedral_angle_3_deg 12.641 r_dihedral_angle_1_deg 5.287 r_scangle_it 3.431 r_scbond_it 2.565 r_angle_refined_deg 1.438 r_mcangle_it 1.388 r_mcbond_it 1.182 r_angle_other_deg 0.918
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 32.739 r_dihedral_angle_4_deg 21.554 r_dihedral_angle_3_deg 12.641 r_dihedral_angle_1_deg 5.287 r_scangle_it 3.431 r_scbond_it 2.565 r_angle_refined_deg 1.438 r_mcangle_it 1.388 r_mcbond_it 1.182 r_angle_other_deg 0.918 r_symmetry_vdw_other 0.27 r_mcbond_other 0.226 r_nbd_refined 0.206 r_nbd_other 0.191 r_nbtor_refined 0.18 r_xyhbond_nbd_refined 0.133 r_symmetry_hbond_refined 0.115 r_symmetry_vdw_refined 0.091 r_chiral_restr 0.089 r_nbtor_other 0.086 r_bond_refined_d 0.017 r_gen_planes_refined 0.006 r_bond_other_d 0.001 r_gen_planes_other 0.001 r_xyhbond_nbd_other r_metal_ion_refined r_metal_ion_other r_symmetry_hbond_other r_symmetry_metal_ion_refined r_symmetry_metal_ion_other r_rigid_bond_restr r_sphericity_free r_sphericity_bonded
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 3040 Nucleic Acid Atoms Solvent Atoms 164 Heterogen Atoms 62
Software Software Software Name Purpose REFMAC refinement