3OF1

Crystal Structure of Bcy1, the Yeast Regulatory Subunit of PKA


X-RAY DIFFRACTION

Starting Model(s)

Initial Refinement Model(s)
TypeSourceAccession CodeDetails
experimental modelPDB 1RGS1RGS A-domain

Crystallization

Crystalization Experiments
IDMethodpHTemperatureDetails
1VAPOR DIFFUSION, HANGING DROP829815% polyethylene glycol 3350, 0.1M Tris-HCl, pH 8.0, VAPOR DIFFUSION, HANGING DROP, temperature 298.0K
Crystal Properties
Matthews coefficientSolvent content
2.3447.45

Crystal Data

Unit Cell
Length ( Å )Angle ( ˚ )
a = 146.425α = 90
b = 45.042β = 92.51
c = 39.103γ = 90
Symmetry
Space GroupC 1 2 1

Diffraction

Diffraction Experiment
ID #Crystal IDScattering TypeData Collection TemperatureDetectorDetector TypeDetailsCollection DateMonochromatorProtocol
11x-ray200CCDADSC QUANTUM 3152008-04-03MSINGLE WAVELENGTH
Radiation Source
ID #SourceTypeWavelength ListSynchrotron SiteBeamline
1SYNCHROTRONALS BEAMLINE 8.2.21.0000ALS8.2.2

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)RedundancyNumber Reflections (All)Number Reflections (Observed)Observed Criterion Sigma (F)Observed Criterion Sigma (I)B (Isotropic) From Wilson Plot
12.25091.40.0580.05123.23.4128451284522
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)RedundancyNumber Unique Reflections (All)
2.22.2855.50.2340.2273.81.9713

Refinement

Statistics
Diffraction IDStructure Solution MethodCross Validation methodStarting modelResolution (High)Resolution (Low)Cut-off Sigma (F)Number Reflections (All)Number Reflections (Observed)Number Reflections (R-Free)Percent Reflections (Observed)R-Factor (Observed)R-WorkR-FreeR-Free Selection DetailsMean Isotropic B
X-RAY DIFFRACTIONMOLECULAR REPLACEMENTTHROUGHOUT1RGS A-domain2.21502128451123256591.40.20.20.263RANDOM44.627
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]
2.36-0.37-0.7-1.7
RMS Deviations
KeyRefinement Restraint Deviation
r_dihedral_angle_2_deg38.369
r_dihedral_angle_4_deg21.236
r_dihedral_angle_3_deg19.809
r_dihedral_angle_1_deg7.885
r_scangle_it4.601
r_scbond_it3.274
r_angle_refined_deg2.2
r_mcangle_it2.165
r_mcbond_it1.287
r_nbtor_refined0.312
RMS Deviations
KeyRefinement Restraint Deviation
r_dihedral_angle_2_deg38.369
r_dihedral_angle_4_deg21.236
r_dihedral_angle_3_deg19.809
r_dihedral_angle_1_deg7.885
r_scangle_it4.601
r_scbond_it3.274
r_angle_refined_deg2.2
r_mcangle_it2.165
r_mcbond_it1.287
r_nbtor_refined0.312
r_symmetry_vdw_refined0.251
r_nbd_refined0.241
r_symmetry_hbond_refined0.225
r_xyhbond_nbd_refined0.214
r_chiral_restr0.162
r_bond_refined_d0.025
r_gen_planes_refined0.009
Non-Hydrogen Atoms Used in Refinement
Non-Hydrogen AtomsNumber
Protein Atoms1820
Nucleic Acid Atoms
Solvent Atoms93
Heterogen Atoms44

Software

Software
Software NamePurpose
ADSCdata collection
AMoREphasing
REFMACrefinement
HKL-2000data reduction
HKL-2000data scaling