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Crystal structure of a bacterial nitric oxide sensor: an ortholog of mammalian soluble guanylate cyclase heme domain
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION 6 277 MPD, cacodylate, pH 6, VAPOR DIFFUSION, temperature 277K
Crystal Properties Matthews coefficient Solvent content 3.25 54
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 120.607 α = 90 b = 120.607 β = 90 c = 120.607 γ = 90
Symmetry Space Group P 42 3 2
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 315 2003-02-03 M MAD
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON SSRL BEAMLINE BL9-2 1.7403,1.7379,1.6241,1.1159 SSRL BL9-2
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 2.5 85 99.8 0.057 41 11 10884 10884 1 1 87
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 2.5 2.54 100 0.67 2.5 6
Refinement Statistics Diffraction ID Structure Solution Method Cross Validation method Resolution (High) Resolution (Low) Cut-off Sigma (F) Number Reflections (All) Number Reflections (Observed) Number Reflections (R-Free) Percent Reflections (Observed) R-Factor (All) 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 MAD THROUGHOUT 2.5 84.51 1 10841 10318 523 99.45 0.2647 0.26471 0.2634 0.2751 0.29147 0.2727 RANDOM 39.135
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]
RMS Deviations Key Refinement Restraint Deviation r_scangle_it 7.833 r_dihedral_angle_1_deg 6.87 r_scbond_it 4.885 r_mcangle_it 2.811 r_angle_refined_deg 1.991 r_mcbond_it 1.573 r_angle_other_deg 0.871 r_nbd_refined 0.331 r_symmetry_vdw_other 0.294 r_nbd_other 0.292
RMS Deviations Key Refinement Restraint Deviation r_scangle_it 7.833 r_dihedral_angle_1_deg 6.87 r_scbond_it 4.885 r_mcangle_it 2.811 r_angle_refined_deg 1.991 r_mcbond_it 1.573 r_angle_other_deg 0.871 r_nbd_refined 0.331 r_symmetry_vdw_other 0.294 r_nbd_other 0.292 r_xyhbond_nbd_refined 0.283 r_metal_ion_refined 0.256 r_symmetry_vdw_refined 0.167 r_chiral_restr 0.121 r_nbtor_other 0.105 r_symmetry_hbond_refined 0.056 r_bond_refined_d 0.023 r_gen_planes_refined 0.021 r_gen_planes_other 0.007 r_bond_other_d 0.001 r_dihedral_angle_2_deg r_dihedral_angle_3_deg r_dihedral_angle_4_deg r_nbtor_refined r_xyhbond_nbd_other r_metal_ion_other r_symmetry_hbond_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 1609 Nucleic Acid Atoms Solvent Atoms 11 Heterogen Atoms 45
Software Software Software Name Purpose REFMAC refinement HKL-2000 data reduction HKL-2000 data scaling SHARP phasing SHELXS phasing