2IZX

Molecular Basis of AKAP Specificity for PKA Regulatory Subunits


X-RAY DIFFRACTION

Starting Model(s)

Initial Refinement Model(s)
TypeSourceAccession CodeDetails
experimental modelOtherRII APO CRYSTAL STRUCTURE

Crystallization

Crystalization Experiments
IDMethodpHTemperatureDetails
17.51 M TRI-SODIUM CITRATE, 0.1 M TRIS-HCL PH 7.5
Crystal Properties
Matthews coefficientSolvent content
2.3647.9

Crystal Data

Unit Cell
Length ( Å )Angle ( ˚ )
a = 41.352α = 90
b = 45.251β = 90
c = 56.837γ = 90
Symmetry
Space GroupP 21 21 21

Diffraction

Diffraction Experiment
ID #Crystal IDScattering TypeData Collection TemperatureDetectorDetector TypeDetailsCollection DateMonochromatorProtocol
11x-ray100CCDADSC CCDCYLINDRICAL GRAZING INCIDENCE MIRROR2005-07-05MSINGLE WAVELENGTH
Radiation Source
ID #SourceTypeWavelength ListSynchrotron SiteBeamline
1SYNCHROTRONESRF BEAMLINE ID29ESRFID29

Data Collection

Overall
ID #Resolution (High)Resolution (Low)Percent Possible (Observed)R Merge 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
11.335.499.70.06164.35268632.5
Highest Resolution Shell
ID #Resolution (High)Resolution (Low)Percent Possible (All)Percent Possible (Observed)R Merge I (Observed)Mean I Over Sigma (Observed)RedundancyNumber Unique Reflections (All)
11.31.3799.80.342.52.9

Refinement

Statistics
Diffraction IDStructure Solution MethodCross Validation methodStarting modelResolution (High)Resolution (Low)Number Reflections (Observed)Number Reflections (R-Free)Percent Reflections (Observed)R-Factor (Observed)R-WorkR-FreeR-Free Selection DetailsMean Isotropic B
X-RAY DIFFRACTIONMOLECULAR REPLACEMENTTHROUGHOUTRII APO CRYSTAL STRUCTURE1.328.4225468134899.70.1660.1640.194RANDOM15.24
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]
-0.110.11-0.01
RMS Deviations
KeyRefinement Restraint Deviation
r_dihedral_angle_2_deg32.064
r_dihedral_angle_3_deg11.012
r_dihedral_angle_4_deg9.621
r_scangle_it5.582
r_scbond_it3.927
r_dihedral_angle_1_deg3.787
r_mcangle_it2.706
r_mcbond_it2.167
r_angle_refined_deg1.805
r_nbtor_refined0.324
RMS Deviations
KeyRefinement Restraint Deviation
r_dihedral_angle_2_deg32.064
r_dihedral_angle_3_deg11.012
r_dihedral_angle_4_deg9.621
r_scangle_it5.582
r_scbond_it3.927
r_dihedral_angle_1_deg3.787
r_mcangle_it2.706
r_mcbond_it2.167
r_angle_refined_deg1.805
r_nbtor_refined0.324
r_nbd_refined0.278
r_xyhbond_nbd_refined0.209
r_symmetry_vdw_refined0.166
r_chiral_restr0.144
r_symmetry_hbond_refined0.107
r_bond_refined_d0.018
r_gen_planes_refined0.01
r_bond_other_d
r_angle_other_deg
r_gen_planes_other
r_nbd_other
r_nbtor_other
r_xyhbond_nbd_other
r_metal_ion_refined
r_metal_ion_other
r_symmetry_vdw_other
r_symmetry_hbond_other
r_symmetry_metal_ion_refined
r_symmetry_metal_ion_other
r_mcbond_other
r_mcangle_other
r_scbond_other
r_scangle_other
r_long_range_B_refined
r_long_range_B_other
r_rigid_bond_restr
r_sphericity_free
r_sphericity_bonded
Non-Hydrogen Atoms Used in Refinement
Non-Hydrogen AtomsNumber
Protein Atoms800
Nucleic Acid Atoms
Solvent Atoms99
Heterogen Atoms16

Software

Software
Software NamePurpose
REFMACrefinement
MOSFLMdata reduction
SCALAdata scaling
PHASERphasing