3C4X

Crystal Structure of G protein coupled receptor kinase 1 bound to ATP and magnesium chloride at 2.9A


X-RAY DIFFRACTION

Starting Model(s)

Initial Refinement Model(s)
TypeSourceAccession CodeDetails
experimental modelPDB 3C4WPDB ENTRY 3C4W

Crystallization

Crystalization Experiments
IDMethodpHTemperatureDetails
1VAPOR DIFFUSION, HANGING DROP4.3277PEG 3350, NaCl, glycerol, sodium citrate pH 4.3, ATP, magnesium chloride, VAPOR DIFFUSION, HANGING DROP, temperature 277K
Crystal Properties
Matthews coefficientSolvent content
2.4649.99

Crystal Data

Unit Cell
Length ( Å )Angle ( ˚ )
a = 54.116α = 90
b = 95.122β = 90
c = 234.823γ = 90
Symmetry
Space GroupP 21 21 21

Diffraction

Diffraction Experiment
ID #Crystal IDScattering TypeData Collection TemperatureDetectorDetector TypeDetailsCollection DateMonochromatorProtocol
11x-ray100CCDADSC QUANTUM 3152005-08-11MSINGLE WAVELENGTH
Radiation Source
ID #SourceTypeWavelength ListSynchrotron SiteBeamline
1SYNCHROTRONAPS BEAMLINE 19-ID0.97967APS19-ID

Data Collection

Overall
ID #Resolution (High)Resolution (Low)Percent Possible (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
12.92026629

Refinement

Statistics
Diffraction IDStructure Solution MethodStarting modelResolution (High)Resolution (Low)Number Reflections (Observed)Number Reflections (R-Free)Percent Reflections (Observed)R-Factor (Observed)R-WorkR-FreeMean Isotropic B
X-RAY DIFFRACTIONMOLECULAR REPLACEMENTPDB ENTRY 3C4W2.919.752655296.010.193070.1930742.257
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]
-0.010.01
RMS Deviations
KeyRefinement Restraint Deviation
r_dihedral_angle_2_deg36.997
r_dihedral_angle_4_deg17.148
r_dihedral_angle_3_deg16.492
r_dihedral_angle_1_deg5.404
r_scangle_it3.289
r_scbond_it2.37
r_mcangle_it1.248
r_angle_refined_deg1.228
r_mcbond_it0.999
r_angle_other_deg0.837
RMS Deviations
KeyRefinement Restraint Deviation
r_dihedral_angle_2_deg36.997
r_dihedral_angle_4_deg17.148
r_dihedral_angle_3_deg16.492
r_dihedral_angle_1_deg5.404
r_scangle_it3.289
r_scbond_it2.37
r_mcangle_it1.248
r_angle_refined_deg1.228
r_mcbond_it0.999
r_angle_other_deg0.837
r_nbd_refined0.223
r_symmetry_vdw_other0.202
r_nbtor_refined0.187
r_nbd_other0.178
r_symmetry_hbond_refined0.163
r_symmetry_vdw_refined0.138
r_xyhbond_nbd_refined0.137
r_mcbond_other0.134
r_nbtor_other0.085
r_chiral_restr0.065
r_bond_refined_d0.01
r_gen_planes_refined0.003
r_bond_other_d0.001
r_gen_planes_other0.001
r_xyhbond_nbd_other
r_metal_ion_refined
r_metal_ion_other
r_symmetry_hbond_other
r_symmetry_metal_ion_refined
r_symmetry_metal_ion_other
r_rigid_bond_restr
r_sphericity_free
r_sphericity_bonded
Non-Hydrogen Atoms Used in Refinement
Non-Hydrogen AtomsNumber
Protein Atoms7811
Nucleic Acid Atoms
Solvent Atoms60
Heterogen Atoms66

Software

Software
Software NamePurpose
REFMACrefinement
HKL-2000data reduction
HKL-2000data scaling