☰ Navigation Tabs
Crystal Structure Analysis of PKC (alpha)-C2 domain complexed with Ca2+ and PtdIns(4,5)P2
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model PDB 1DSY C2 DOMAIN FROM PROTEIN KINASE C (ALPHA) COMPLEXED WITH CA2+ AND PHOSPHATIDYLSERINE
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, HANGING DROP 6.5 293 20% PEG 8000, 50mM potassium phosphate, pH 6.5, VAPOR DIFFUSION, HANGING DROP, temperature 293K
Crystal Properties Matthews coefficient Solvent content 2.72 54.84
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 57.848 α = 90 b = 57.848 β = 90 c = 90.479 γ = 120
Symmetry Space Group P 32 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 96 CCD ADSC QUANTUM 4 2007-09-01 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON ESRF BEAMLINE ID14-2 ESRF ID14-2
Data Collection Overall ID # Resolution (High) Resolution (Low) Percent Possible (Observed) R Sym 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 1.9 30 99 0.06 13.3 4 14140 2 2
Highest Resolution Shell ID # Resolution (High) Resolution (Low) Percent Possible (All) Percent Possible (Observed) R-Sym I (Observed) Mean I Over Sigma (Observed) Redundancy Number Unique Reflections (All) 1 1.9 2 97.3 0.464 1.6
Refinement Statistics Diffraction ID Structure Solution Method Cross Validation 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) R-Free Selection Details Mean Isotropic B X-RAY DIFFRACTION MOLECULAR REPLACEMENT THROUGHOUT C2 DOMAIN FROM PROTEIN KINASE C (ALPHA) COMPLEXED WITH CA2+ AND PHOSPHATIDYLSERINE 2 20 11566 609 98.8 0.24434 0.24274 0.2429 0.2773 0.2845 RANDOM 16.343
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] -0.08 -0.04 -0.08 0.13
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 27.332 r_dihedral_angle_3_deg 9.422 r_dihedral_angle_4_deg 8.357 r_dihedral_angle_1_deg 4.423 r_angle_refined_deg 0.707 r_scangle_it 0.641 r_scbond_it 0.384 r_mcangle_it 0.259 r_mcbond_it 0.131 r_chiral_restr 0.038
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 27.332 r_dihedral_angle_3_deg 9.422 r_dihedral_angle_4_deg 8.357 r_dihedral_angle_1_deg 4.423 r_angle_refined_deg 0.707 r_scangle_it 0.641 r_scbond_it 0.384 r_mcangle_it 0.259 r_mcbond_it 0.131 r_chiral_restr 0.038 r_bond_refined_d 0.002 r_gen_planes_refined 0.002
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 1124 Nucleic Acid Atoms Solvent Atoms 92 Heterogen Atoms 32
Software Software Software Name Purpose ADSC data collection AMoRE phasing REFMAC refinement MOSFLM data reduction SCALA data scaling