4QJ5

Structure of a fragment of human phospholipase C-beta3 delta472-581, bound to IP3 and in complex with Galphaq


X-RAY DIFFRACTION

Crystallization

Crystalization Experiments
IDMethodpHTemperatureDetails
1VAPOR DIFFUSION, HANGING DROP6.25277.15100 mM MES, 200 mM NaCl, 5% (v/v) PEG 3350, pH 6.25, VAPOR DIFFUSION, HANGING DROP, temperature 277.15K
Crystal Properties
Matthews coefficientSolvent content
3.1360.68

Crystal Data

Unit Cell
Length ( Å )Angle ( ˚ )
a = 205.918α = 90
b = 89.869β = 101.8
c = 93.261γ = 90
Symmetry
Space GroupC 1 2 1

Diffraction

Diffraction Experiment
ID #Crystal IDScattering TypeData Collection TemperatureDetectorDetector TypeDetailsCollection DateMonochromatorProtocol
11x-ray110CCDMARMOSAIC 300 mm CCD2014-04-18MSINGLE WAVELENGTH
Radiation Source
ID #SourceTypeWavelength ListSynchrotron SiteBeamline
1SYNCHROTRONAPS BEAMLINE 21-ID-D0.979APS21-ID-D

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
13.43096.10.1427.69532736122003-2000-2
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)
13.43.4695.90.442.052.8

Refinement

Statistics
Diffraction IDStructure Solution MethodCross Validation methodStarting modelResolution (High)Resolution (Low)Number Reflections (All)Number Reflections (Observed)Number Reflections (R-Free)Percent Reflections (Observed)R-Factor (Observed)R-WorkR-FreeR-Free Selection DetailsMean Isotropic B
X-RAY DIFFRACTIONMOLECULAR REPLACEMENTTHROUGHOUTPDB ENTRY 3OHM3.4129.342096220962104095.490.215020.211890.27671RANDOM84.894
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]
-1.37-0.031.69-0.28
RMS Deviations
KeyRefinement Restraint Deviation
r_dihedral_angle_2_deg36.353
r_dihedral_angle_3_deg15.665
r_dihedral_angle_4_deg13.79
r_dihedral_angle_1_deg5.623
r_long_range_B_refined2.64
r_long_range_B_other2.64
r_mcangle_it1.528
r_mcangle_other1.528
r_angle_refined_deg1.016
r_scangle_other0.898
RMS Deviations
KeyRefinement Restraint Deviation
r_dihedral_angle_2_deg36.353
r_dihedral_angle_3_deg15.665
r_dihedral_angle_4_deg13.79
r_dihedral_angle_1_deg5.623
r_long_range_B_refined2.64
r_long_range_B_other2.64
r_mcangle_it1.528
r_mcangle_other1.528
r_angle_refined_deg1.016
r_scangle_other0.898
r_mcbond_it0.821
r_mcbond_other0.821
r_angle_other_deg0.703
r_scbond_it0.447
r_scbond_other0.445
r_chiral_restr0.055
r_bond_refined_d0.005
r_gen_planes_refined0.003
r_bond_other_d0.001
r_gen_planes_other0.001
Non-Hydrogen Atoms Used in Refinement
Non-Hydrogen AtomsNumber
Protein Atoms8621
Nucleic Acid Atoms
Solvent Atoms2
Heterogen Atoms59

Software

Software
Software NamePurpose
HKL-2000data collection
REFMACrefinement
DENZOdata reduction
HKL-2000data scaling
REFMACphasing