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Cu-containing nitrite reductase
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model PDB 1ZV2 PDB: 1ZV2
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, HANGING DROP 8.4 295 PEG 4000, MgCl2, Tris, pH 8.4, VAPOR DIFFUSION, HANGING DROP, temperature 295K
Crystal Properties Matthews coefficient Solvent content 2.5 50
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 72.436 α = 90 b = 72.436 β = 90 c = 148.089 γ = 120
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 MARRESEARCH 2002-06-28 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON MAX II BEAMLINE I711 1.017 MAX II I711
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 1.85 36.2 100 0.079 24723 24723
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) 1 1.85 1.92 100 0.49 4.1 2472
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-Free (Depositor) R-Free (DCC) R-Free Selection Details Mean Isotropic B X-RAY DIFFRACTION MOLECULAR REPLACEMENT THROUGHOUT PDB: 1ZV2 1.85 18.5 23444 23444 1257 99.88 0.15022 0.15022 0.14881 0.17627 0.1662 RANDOM 21.504
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] -0.65 -0.32 -0.65 0.97
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 35.361 r_dihedral_angle_4_deg 18.223 r_dihedral_angle_3_deg 13.215 r_dihedral_angle_1_deg 6.844 r_scangle_it 3.465 r_scbond_it 2.219 r_angle_refined_deg 1.461 r_mcangle_it 1.353 r_mcbond_it 0.932 r_nbtor_refined 0.31
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 35.361 r_dihedral_angle_4_deg 18.223 r_dihedral_angle_3_deg 13.215 r_dihedral_angle_1_deg 6.844 r_scangle_it 3.465 r_scbond_it 2.219 r_angle_refined_deg 1.461 r_mcangle_it 1.353 r_mcbond_it 0.932 r_nbtor_refined 0.31 r_nbd_refined 0.198 r_symmetry_vdw_refined 0.168 r_symmetry_hbond_refined 0.129 r_xyhbond_nbd_refined 0.123 r_chiral_restr 0.113 r_bond_refined_d 0.013 r_gen_planes_refined 0.006
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 2522 Nucleic Acid Atoms Solvent Atoms 236 Heterogen Atoms 5
Software Software Software Name Purpose REFMAC refinement DENZO data reduction SCALEPACK data scaling AMoRE phasing