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Crystal structure of nitric oxide reductase from Pseudomonas aeruginosa in complex with antibody fragment
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, HANGING DROP 6 277 24% PEG 400, 0.1M sodium citrate, 50mM sodium chloride, 20mM magnesium chloride, pH 6.0, VAPOR DIFFUSION, HANGING DROP, temperature 277K
Crystal Properties Matthews coefficient Solvent content 3.97 68.99
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 90.47 α = 90 b = 104.52 β = 90 c = 195.36 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 RAYONIX MX225HE 2009-07-17 M SINGLE WAVELENGTH 2 1 x-ray 100 CCD RAYONIX MX-225 2010-04-25 M SINGLE WAVELENGTH 3 1 x-ray 100 CCD RAYONIX MX225HE 2010-06-08 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON SPRING-8 BEAMLINE BL41XU 1.0000 SPring-8 BL41XU 2 SYNCHROTRON SPRING-8 BEAMLINE BL26B2 1.9000 SPring-8 BL26B2 3 SYNCHROTRON SPRING-8 BEAMLINE BL41XU 1.7400 SPring-8 BL41XU
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 1,2,3 2.7 41.514 97.7 0.094 8.3 4.2 50332 50332
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) 1,2,3 2.7 2.85 99 0.786 0.786 1 4.2
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-Work (DCC) R-Free (Depositor) R-Free (DCC) R-Free Selection Details Mean Isotropic B X-RAY DIFFRACTION MOLECULAR REPLACEMENT THROUGHOUT 2.7 20 47669 2559 97.49 0.18828 0.18523 0.1847 0.24739 0.2457 RANDOM 83.756
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 0.02
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 36.848 r_dihedral_angle_3_deg 22.656 r_dihedral_angle_4_deg 18.755 r_dihedral_angle_1_deg 6.978 r_scangle_it 3.223 r_scbond_it 2.176 r_angle_refined_deg 1.913 r_mcangle_it 1.384 r_mcbond_it 0.727 r_chiral_restr 0.133
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 36.848 r_dihedral_angle_3_deg 22.656 r_dihedral_angle_4_deg 18.755 r_dihedral_angle_1_deg 6.978 r_scangle_it 3.223 r_scbond_it 2.176 r_angle_refined_deg 1.913 r_mcangle_it 1.384 r_mcbond_it 0.727 r_chiral_restr 0.133 r_bond_refined_d 0.018 r_gen_planes_refined 0.008 r_bond_other_d r_angle_other_deg r_gen_planes_other r_nbd_refined r_nbd_other r_nbtor_refined r_nbtor_other r_xyhbond_nbd_refined r_xyhbond_nbd_other r_metal_ion_refined r_metal_ion_other r_symmetry_vdw_refined r_symmetry_vdw_other r_symmetry_hbond_refined r_symmetry_hbond_other r_symmetry_metal_ion_refined r_symmetry_metal_ion_other r_mcbond_other r_rigid_bond_restr r_sphericity_free r_sphericity_bonded
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 8060 Nucleic Acid Atoms Solvent Atoms 172 Heterogen Atoms 132
Software Software Software Name Purpose MOSFLM data reduction SCALA data scaling PHASER phasing DM phasing REFMAC refinement PDB_EXTRACT data extraction