8G2P

Structure of Ternary Complex of cGAS with dsDNA and Bound ATP and GTP


X-RAY DIFFRACTION

Starting Model(s)

Initial Refinement Model(s)
TypeSourceAccession CodeDetails
experimental modelPDB 4LEZ 

Crystallization

Crystalization Experiments
IDMethodpHTemperatureDetails
1VAPOR DIFFUSION, HANGING DROP6.5277.150.2 M ammonium acetate, 32% MPD, with 0.1 M Bis-Tris pH 6.5
Crystal Properties
Matthews coefficientSolvent content
2.5652

Crystal Data

Unit Cell
Length ( Å )Angle ( ˚ )
a = 78.219α = 90
b = 99.102β = 90
c = 141.944γ = 90
Symmetry
Space GroupP 21 21 21

Diffraction

Diffraction Experiment
ID #Crystal IDScattering TypeData Collection TemperatureDetectorDetector TypeDetailsCollection DateMonochromatorProtocol
11x-ray100PIXELDECTRIS EIGER X 16M2022-03-30MSINGLE WAVELENGTH
Radiation Source
ID #SourceTypeWavelength ListSynchrotron SiteBeamline
1SYNCHROTRONNSLS-II BEAMLINE 17-ID-20.979NSLS-II17-ID-2

Data Collection

Overall
ID #Resolution (High)Resolution (Low)Percent Possible (Observed)R Merge I (Observed)Rrim I (All)Rpim I (All)CC (Half)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
12.5229.7899.50.0710.0830.0440.99914.76.737823
Highest Resolution Shell
ID #Resolution (High)Resolution (Low)Percent Possible (All)Percent Possible (Observed)R Merge I (Observed)Rrim I (All)Rpim I (All)CC (Half)Mean I Over Sigma (Observed)RedundancyNumber Unique Reflections (All)
12.522.620.6960.820.4290.7856.7

Refinement

Statistics
Diffraction IDStructure Solution MethodCross Validation methodResolution (High)Resolution (Low)Number Reflections (Observed)Number Reflections (R-Free)Percent Reflections (Observed)R-Factor (All)R-WorkR-FreeMean Isotropic B
X-RAY DIFFRACTIONMOLECULAR REPLACEMENTFREE R-VALUE2.52129.77337765189899.4730.1920.18990.241966.529
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]
0.1570.639-0.796
RMS Deviations
KeyRefinement Restraint Deviation
r_dihedral_angle_3_deg16.865
r_dihedral_angle_6_deg16.179
r_lrange_it7.41
r_lrange_other7.41
r_dihedral_angle_2_deg7.346
r_dihedral_angle_1_deg6.851
r_paralell_plane_angle_deg5.656
r_scangle_it5.185
r_scangle_other5.184
r_mcangle_it4.582
RMS Deviations
KeyRefinement Restraint Deviation
r_dihedral_angle_3_deg16.865
r_dihedral_angle_6_deg16.179
r_lrange_it7.41
r_lrange_other7.41
r_dihedral_angle_2_deg7.346
r_dihedral_angle_1_deg6.851
r_paralell_plane_angle_deg5.656
r_scangle_it5.185
r_scangle_other5.184
r_mcangle_it4.582
r_mcangle_other4.582
r_scbond_it3.489
r_scbond_other3.488
r_mcbond_it2.93
r_mcbond_other2.928
r_angle_refined_deg1.868
r_angle_other_deg0.491
r_metal_ion_refined0.43
r_dihedral_angle_other_2_deg0.375
r_symmetry_nbd_refined0.235
r_nbd_refined0.231
r_symmetry_xyhbond_nbd_refined0.211
r_symmetry_nbd_other0.206
r_xyhbond_nbd_refined0.201
r_nbd_other0.199
r_nbtor_refined0.197
r_ncsr_local_group_30.15
r_ncsr_local_group_50.136
r_ncsr_local_group_10.125
r_ncsr_local_group_70.124
r_ncsr_local_group_40.121
r_ncsr_local_group_20.115
r_ncsr_local_group_60.106
r_symmetry_nbtor_other0.083
r_chiral_restr0.075
r_symmetry_xyhbond_nbd_other0.075
r_bond_refined_d0.012
r_xyhbond_nbd_other0.009
r_gen_planes_refined0.008
r_bond_other_d0.002
r_gen_planes_other0.001
Non-Hydrogen Atoms Used in Refinement
Non-Hydrogen AtomsNumber
Protein Atoms5738
Nucleic Acid Atoms1464
Solvent Atoms115
Heterogen Atoms130

Software

Software
Software NamePurpose
XDSdata reduction
Aimlessdata scaling
MOLREPphasing
Cootmodel building
REFMACrefinement