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X-ray crystal structure of Pseudoazurin Met16Phe variant
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model PDB 1BQK
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, HANGING DROP 8 293 Drop: 100 mM Tris-HCl buffer, 15.5 % PEG4000, 31 mg/mL Protein
Reservoir: 100 mM Tris-HCl buffer, 31 % PEG4000
Crystal Properties Matthews coefficient Solvent content 2.08 40.78
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 34.715 α = 90 b = 59.62 β = 105.37 c = 54.324 γ = 90
Symmetry Space Group P 1 21 1
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 210r 2010-06-28 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON PHOTON FACTORY BEAMLINE AR-NW12A 1.0 Photon Factory AR-NW12A
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 1.4 50 97.4 0.058 9.8 3.8 40971
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 1.4 1.45 96 0.231 3.7
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 1BQK 1.4 26.2 38882 2069 97.31 0.143 0.141 0.1509 0.1816 0.1887 RANDOM 15.307
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] -0.41 -0.15 0.25 0.18
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 36.894 r_dihedral_angle_4_deg 22.793 r_dihedral_angle_3_deg 16.479 r_dihedral_angle_1_deg 6.795 r_angle_refined_deg 2.643 r_angle_other_deg 1.139 r_chiral_restr 0.152 r_bond_refined_d 0.027 r_gen_planes_refined 0.014 r_bond_other_d 0.002
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 36.894 r_dihedral_angle_4_deg 22.793 r_dihedral_angle_3_deg 16.479 r_dihedral_angle_1_deg 6.795 r_angle_refined_deg 2.643 r_angle_other_deg 1.139 r_chiral_restr 0.152 r_bond_refined_d 0.027 r_gen_planes_refined 0.014 r_bond_other_d 0.002 r_gen_planes_other 0.002
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 1832 Nucleic Acid Atoms Solvent Atoms 353 Heterogen Atoms 50
Software Software Software Name Purpose REFMAC refinement MOLREP phasing