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Crystal structure of G protein coupled receptor kinase 1 bound to ADP and magnesium chloride at 3.55A
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model PDB 3C4Z PDB ENTRY 3C4Z
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, HANGING DROP 6.25 277 PEG 8000, NaBr, glycerol, MES pH 6.25, ADP pH 7.5, magnesium chloride, VAPOR DIFFUSION, HANGING DROP, temperature 277K
Crystal Properties Matthews coefficient Solvent content 2.86 57.06
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 58.657 α = 90 b = 92.527 β = 90 c = 259.383 γ = 90
Symmetry Space Group P 21 21 21
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 MARMOSAIC 300 mm CCD 2006-08-17 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON APS BEAMLINE 23-ID-D 0.97934 APS 23-ID-D
Data Collection Overall ID # Resolution (High) Resolution (Low) Percent Possible (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 3.55 30 17511
Refinement Statistics Diffraction ID Structure Solution 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) Mean Isotropic B X-RAY DIFFRACTION MOLECULAR REPLACEMENT PDB ENTRY 3C4Z 3.55 19.88 17299 97.73 0.28105 0.28105 0.2521 0.278 115.622
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] 0.06 0.01 -0.07
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 35.254 r_dihedral_angle_3_deg 18.168 r_dihedral_angle_4_deg 15.017 r_dihedral_angle_1_deg 5.467 r_scangle_it 2.065 r_scbond_it 1.411 r_angle_refined_deg 1.071 r_angle_other_deg 0.809 r_mcangle_it 0.77 r_mcbond_it 0.55
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 35.254 r_dihedral_angle_3_deg 18.168 r_dihedral_angle_4_deg 15.017 r_dihedral_angle_1_deg 5.467 r_scangle_it 2.065 r_scbond_it 1.411 r_angle_refined_deg 1.071 r_angle_other_deg 0.809 r_mcangle_it 0.77 r_mcbond_it 0.55 r_nbd_refined 0.219 r_symmetry_vdw_refined 0.19 r_nbtor_refined 0.186 r_nbd_other 0.172 r_xyhbond_nbd_refined 0.155 r_symmetry_vdw_other 0.127 r_metal_ion_refined 0.112 r_nbtor_other 0.082 r_mcbond_other 0.077 r_chiral_restr 0.058 r_symmetry_hbond_refined 0.057 r_bond_refined_d 0.008 r_gen_planes_refined 0.003 r_xyhbond_nbd_other 0.002 r_bond_other_d 0.001 r_gen_planes_other 0.001 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 Atoms Number Protein Atoms 7637 Nucleic Acid Atoms Solvent Atoms Heterogen Atoms 63
Software Software Software Name Purpose REFMAC refinement HKL-2000 data reduction HKL-2000 data scaling