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Crystal structure of P. aeruginoas azurin containing a Tyr-His hydrogen bonded pair
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model PDB 4AZU pdb entry 4AZU
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, SITTING DROP 8 298 25-30% of poly(ethylene glycol) (PEG) 4000, 100 mM lithium nitrate, 10 mM copper sulfate and 100 mM Tris HCl, pH 8, VAPOR DIFFUSION, SITTING DROP, temperature 298K
Crystal Properties Matthews coefficient Solvent content 2.02 39.19
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 48.026 α = 90 b = 56.33 β = 90 c = 82.91 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 PIXEL DECTRIS PILATUS 6M 2011-03-11 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON SSRL BEAMLINE BL12-2 1.0332 SSRL BL12-2
Data Collection Overall ID # Resolution (High) Resolution (Low) Percent Possible (Observed) R Merge I (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 1.18 20 94.9 0.05 0.043 3.72 3.7 262814 70523 5
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 1.18 1.182 84.9 0.271 3.72 32071
Refinement Statistics Diffraction ID Structure Solution Method Cross Validation method Starting model Resolution (High) Resolution (Low) Cut-off Sigma (I) 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 MOLECULAR REPLACEMENT THROUGHOUT pdb entry 4AZU 1.18 20 5 66840 3566 94.89 0.19621 0.19621 0.19508 0.1919 0.21748 0.2138 RANDOM 12.878
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] 0.25 0.75 -1
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 39.316 r_dihedral_angle_4_deg 14.647 r_dihedral_angle_3_deg 12.535 r_dihedral_angle_1_deg 7.07 r_scangle_it 4.185 r_scbond_it 3.014 r_angle_refined_deg 2.336 r_mcangle_it 2.043 r_mcbond_it 1.334 r_chiral_restr 0.131
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 39.316 r_dihedral_angle_4_deg 14.647 r_dihedral_angle_3_deg 12.535 r_dihedral_angle_1_deg 7.07 r_scangle_it 4.185 r_scbond_it 3.014 r_angle_refined_deg 2.336 r_mcangle_it 2.043 r_mcbond_it 1.334 r_chiral_restr 0.131 r_bond_refined_d 0.029 r_gen_planes_refined 0.014 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 1934 Nucleic Acid Atoms Solvent Atoms 220 Heterogen Atoms 18
Software Software Software Name Purpose Blu-Ice data collection MOLREP phasing REFMAC refinement XDS data reduction SCALA data scaling