2024-02-14 REL RCSB RCSB RCSB 2022-07-28 2023-08-02 2023-08-02 2024-02-14 Canadian Institutes of Health Research (CIHR) 168998 Canada Negative stain EM map of the heterodimeric p110gamma-p84 complex Burke JE Dalwadi U Rathinaswamy MK Yip CK Nam SE PI3K, p110, PIK3CG, phosphoinositide, PIK3R6, p84/p87, 3-kinase, PIP3, IMMUNE SYSTEM, TRANSFERASE Rathinaswamy MK Jenkins ML Duewell BR Zhang X Harris NJ Evans JT Stariha JTB Dalwadi U Fleming KD Ranga-Prasad H Yip CK Williams RL Hansen SD Burke JE Molecular basis for differential activation of p101 and p84 complexes of PI3K gamma by Ras and GPCRs. Cell Rep US 42 112172 112172 2023 36842083 doi:10.1016/j.celrep.2023.112172 2211-1247 Ternary complex of p110 gamma with p84 Ternary complex of p110 gamma with p84 0
Both p110 and p84 subunits are from Homo sapiens
Homo sapiens singleParticle particle 0.02 8.5 20.0 Tris(hydroxymethyl)aminomethane-Hydrochloric acid 100.0 NaCl Sodium Chloride 50.0 (NH4)2SO4 Ammonium Sulfate 0.5 Tris(2-carboxyethyl)phosphine
Freshly prepared gel filtration buffer, filtered through 0.22 um filter and degassed
 NEGATIVE Uranyl Formate
Negative stain EM samples prepares by adsorbing samples on grid for 15 second, followed by blotting of sample, 2 washes with water, 1 wash with stain, and a final 30 second soak in stain and blot.
 Homemade COPPER CARBON CONTINUOUS
Specimen was a 1:1 molar ratio of p110g to p84, purified to homogeneity by gel filtration.
 FEI TECNAI SPIRIT FLOOD BEAM BRIGHT FIELD LAB6 120 100.0 6.3 1.0 1.2 49000.0 SIDE ENTRY, EUCENTRIC NITROGEN FEI EAGLE (4k x 4k) 4096 4096 1 50 1.0 25.0 1
CTF estimation and manual particle picking were done using Relion 3.0.8. Manually picked particles were 2D classified into 4 classes and used as templates for autopicking. Autopicked particles were exported to cryoSPARC 2.14.2 and subjected to 2D classification. Particles which classified well were selected and used to generate an ab initio 3D reconstruction.
20610
Particles were picked using the cryoSPARC template picker.
Ab initio reconstruction
 17.1 FSC 0.143 CUT-OFF cryoSPARC 2.14.3 10344 MAXIMUM LIKELIHOOD cryoSPARC 2.14.2
cryoSPARC SGD-based ab intio reconstruction
 MAXIMUM LIKELIHOOD cryoSPARC 3.0
cryoSPARC non-uniform refinement
 50 cryoSPARC 2.14.2 emd_27738.map.gz 1 IMAGE STORED AS FLOATING POINT NUMBER (4 BYTES) 72 72 72 0 0 0 72 72 72 336.24 336.24 336.24 90.0 90.0 90.0 X Y Z -0.11330669 8.215298000000001 0.11702216 0.6311536 4.67 4.67 4.67 4.42 AUTHOR Negative stain EM ab initio model of the heterodimeric p110gamma-p84 complex emd_27738_half_map_1.map.gz 1 IMAGE STORED AS FLOATING POINT NUMBER (4 BYTES) 72 72 72 0 0 0 72 72 72 336.24 336.24 336.24 90.0 90.0 90.0 X Y Z -2.13355 8.882828 0.0038402672 0.79941034 4.67 4.67 4.67 AUTHOR emd_27738_half_map_2.map.gz 1 IMAGE STORED AS FLOATING POINT NUMBER (4 BYTES) 72 72 72 0 0 0 72 72 72 336.24 336.24 336.24 90.0 90.0 90.0 X Y Z -2.115127 8.90348 0.007895182 0.80120116 4.67 4.67 4.67 AUTHOR