4QJ3

Structure of a fragment of human phospholipase C-beta3 delta472-559, in complex with Galphaq


X-RAY DIFFRACTION

Starting Model(s)

Initial Refinement Model(s)
TypeSourceAccession CodeDetails
experimental modelPDB 3OHMPDB ENTRY 3OHM

Crystallization

Crystalization Experiments
IDMethodpHTemperatureDetails
1VAPOR DIFFUSION, HANGING DROP6277.15100 mM BisTris, 200 mM NaCl, 5% PEG 3350, pH 6.0, VAPOR DIFFUSION, HANGING DROP, temperature 277.15K
Crystal Properties
Matthews coefficientSolvent content
2.9858.75

Crystal Data

Unit Cell
Length ( Å )Angle ( ˚ )
a = 200.623α = 90
b = 88.761β = 101.39
c = 92.232γ = 90
Symmetry
Space GroupC 1 2 1

Diffraction

Diffraction Experiment
ID #Crystal IDScattering TypeData Collection TemperatureDetectorDetector TypeDetailsCollection DateMonochromatorProtocol
11x-ray110CCDMARMOSAIC 300 mm CCD2014-03-17MSINGLE WAVELENGTH
Radiation Source
ID #SourceTypeWavelength ListSynchrotron SiteBeamline
1SYNCHROTRONAPS BEAMLINE 21-ID-F0.978APS21-ID-F

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
133099.80.114.265.13198631965-2000-2
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)
133.0597.20.5271.933.9

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 3OHM329.713037330373159199.610.197410.195150.24027RANDOM58.892
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]
-0.81-0.070.84
RMS Deviations
KeyRefinement Restraint Deviation
r_dihedral_angle_2_deg34.86
r_dihedral_angle_3_deg14.777
r_dihedral_angle_4_deg13.276
r_dihedral_angle_1_deg4.92
r_long_range_B_refined2.161
r_long_range_B_other2.161
r_mcangle_it1.267
r_mcangle_other1.267
r_angle_refined_deg0.887
r_scangle_other0.861
RMS Deviations
KeyRefinement Restraint Deviation
r_dihedral_angle_2_deg34.86
r_dihedral_angle_3_deg14.777
r_dihedral_angle_4_deg13.276
r_dihedral_angle_1_deg4.92
r_long_range_B_refined2.161
r_long_range_B_other2.161
r_mcangle_it1.267
r_mcangle_other1.267
r_angle_refined_deg0.887
r_scangle_other0.861
r_mcbond_other0.679
r_mcbond_it0.678
r_angle_other_deg0.676
r_scbond_it0.442
r_scbond_other0.442
r_chiral_restr0.049
r_bond_refined_d0.004
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 Atoms8684
Nucleic Acid Atoms
Solvent Atoms28
Heterogen Atoms35

Software

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