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X-ray structure of a "NikA+Iron complex" hybrid, NikA/1
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model PDB 1ZLQ PDB ENTRY 1ZLQ
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, HANGING DROP 4.7 293 1.8M ammonium sulfate, 0.1M sodium acetate, pH 4.7, VAPOR DIFFUSION, HANGING DROP, temperature 293K
Crystal Properties Matthews coefficient Solvent content 2.28 46.04
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 86.972 α = 90 b = 94.583 β = 90 c = 124.947 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 2009-06-16 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON ESRF BEAMLINE ID14-1 0.9334 ESRF ID14-1
Data Collection Overall ID # Resolution (High) Resolution (Low) Percent Possible (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 1.79 47.3 96 0.053 17.85 3.3 92201 3 25.4
Highest Resolution Shell ID # Resolution (High) Resolution (Low) Percent Possible (All) Percent Possible (Observed) R-Sym I (Observed) Mean I Over Sigma (Observed) Redundancy Number Unique Reflections (All) 1.79 90 0.277 4.4 3.2 25400
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 1ZLQ 1.79 47.29 92201 4853 100 0.16087 0.15857 0.1736 0.20419 0.2086 RANDOM 18.556
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 -0.32 0.31
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 37.825 r_dihedral_angle_4_deg 15.124 r_dihedral_angle_3_deg 14.355 r_dihedral_angle_1_deg 6.574 r_scangle_it 5.491 r_scbond_it 3.573 r_mcangle_it 2.277 r_angle_refined_deg 2.128 r_mcbond_it 1.396 r_chiral_restr 0.269
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 37.825 r_dihedral_angle_4_deg 15.124 r_dihedral_angle_3_deg 14.355 r_dihedral_angle_1_deg 6.574 r_scangle_it 5.491 r_scbond_it 3.573 r_mcangle_it 2.277 r_angle_refined_deg 2.128 r_mcbond_it 1.396 r_chiral_restr 0.269 r_bond_refined_d 0.028 r_gen_planes_refined 0.012
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 7892 Nucleic Acid Atoms Solvent Atoms 899 Heterogen Atoms 139
Software Software Software Name Purpose MxCuBE data collection PHASER phasing REFMAC refinement XDS data reduction XDS data scaling