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Crystal structure of the adenylyl cyclase CyaB from P. aeruginosa
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model PDB 1WC1 PDB ENTRY 1WC1
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION 7.5 298 0.1 M HEPES pH 7.5, 10 % (v/v) 2-Propanol, 20 % (w/v) PEG 4000, VAPOR DIFFUSION, temperature 298K
Crystal Properties Matthews coefficient Solvent content 1.97 37.71
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 51.36 α = 90 b = 36.31 β = 98.76 c = 94.76 γ = 90
Symmetry Space Group P 1 2 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 MARRESEARCH 2008-10-01 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON SLS BEAMLINE X10SA 0.9791 SLS X10SA
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 1.5 48 91.2 0.054 20.6 55882 50946 -3
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 1.5 1.6 61.4 0.364 4.6
Refinement Statistics Diffraction ID Structure Solution Method Cross Validation method Starting model Resolution (High) Resolution (Low) Number Reflections (All) Number Reflections (Observed) Number Reflections (R-Free) Percent Reflections (Observed) R-Factor (All) R-Factor (Observed) R-Work (Depositor) R-Free (Depositor) R-Free (DCC) R-Free Selection Details Mean Isotropic B X-RAY DIFFRACTION MOLECULAR REPLACEMENT THROUGHOUT PDB ENTRY 1WC1 1.5 47.78 48397 48397 2548 100 0.18803 0.18803 0.18584 0.23019 0.2392 RANDOM 21.926
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] 0.1 0.12 -0.06
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 36.129 r_dihedral_angle_4_deg 22.226 r_dihedral_angle_3_deg 16.014 r_scangle_it 6.645 r_dihedral_angle_1_deg 6.052 r_scbond_it 4.064 r_mcangle_it 2.705 r_angle_refined_deg 2.367 r_mcbond_it 1.647 r_chiral_restr 0.157
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 36.129 r_dihedral_angle_4_deg 22.226 r_dihedral_angle_3_deg 16.014 r_scangle_it 6.645 r_dihedral_angle_1_deg 6.052 r_scbond_it 4.064 r_mcangle_it 2.705 r_angle_refined_deg 2.367 r_mcbond_it 1.647 r_chiral_restr 0.157 r_bond_refined_d 0.028 r_gen_planes_refined 0.013
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 3054 Nucleic Acid Atoms Solvent Atoms 317 Heterogen Atoms 6
Software Software Software Name Purpose XDS data scaling MOLREP phasing REFMAC refinement XDS data reduction XSCALE data scaling