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Structural and functional characterization of an anesthetic binding site in the second cysteine-rich domain of protein kinase Cdelta
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model PDB 1PTQ
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, HANGING DROP 7.2 293 20% PEG 3350 in 0.2 M ammonium sulfate and 25 mM HEPES pH 7.2.
, VAPOR DIFFUSION, HANGING DROP, temperature 293K
Crystal Properties Matthews coefficient Solvent content 2.43 49.35
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 44.2 α = 90 b = 32.331 β = 93.66 c = 49.824 γ = 90
Symmetry Space Group P 1 21 1
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 ADSC QUANTUM 210 2004-04-27 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON NSLS BEAMLINE X6A 1.0 NSLS X6A
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 1.3 10 91.3 32040 31751 4 2
Refinement Statistics Diffraction ID Structure Solution Method Starting model Resolution (High) Resolution (Low) Cut-off Sigma (F) Number Reflections (All) Number Reflections (Observed) Number Reflections (R-Free) Percent Reflections (Observed) R-Factor (All) 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 1PTQ 1.3 9.944 0.04 32040 31751 1465 91.3 0.1518 0.1518 0.1504 0.1444 0.182 0.1772 10%
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] -0.6905 -0.415 -0.76 1.4505
RMS Deviations Key Refinement Restraint Deviation f_dihedral_angle_d 12.442 f_angle_d 1.082 f_chiral_restr 0.075 f_bond_d 0.006 f_plane_restr 0.004
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 1014 Nucleic Acid Atoms Solvent Atoms 239 Heterogen Atoms 34
Software Software Software Name Purpose ADSC data collection PHASER phasing PHENIX refinement HKL-2000 data reduction SCALEPACK data scaling