2024-10-16 REL PDBe PDBe PDBe 2023-06-08 2024-02-07 2024-02-07 2024-10-16 Research Foundation - Flanders (FWO) 12S0519N Belgium Research Foundation - Flanders (FWO) G0B4918N Belgium Cryo-EM structure of a pre-dimerized murine IL-12 complete extracellular signaling complex (Class 1), obtained after local refinement. Felix J Bloch Y Savvides SN Complex, Cytokine, Receptor, SIGNALING PROTEIN Bloch Y Felix J Merceron R Provost M Symakani RA De Backer R Lambert E Mehdipour AR Savvides SN Structures of complete extracellular receptor assemblies mediated by IL-12 and IL-23. Nat.Struct.Mol.Biol. US 31 591 597 2024 38287195 doi:10.1038/s41594-023-01190-6 1545-9985 EMD-16820 other EM volume
Cryo-EM structure of a pre-dimerized murine IL-12 complete extracellular signaling complex (Class 1)
 EMD-16821 other EM volume
Cryo-EM structure of a pre-dimerized murine IL-12 complete extracellular signaling complex (Class 2)
 8pb1 FULLOVERLAP Murine IL-12 in complex with mIL-12Rbeta1-DAPK1 and mIL-12Rbeta2-Calmodulin. Murine IL-12 in complex with mIL-12Rbeta1-DAPK1 and mIL-12Rbeta2-Calmodulin. 0 1 2 3 4 Mus musculus 0.216 Interleukin-12 subunit alpha Mus musculus 0.025927495999999998 1 Homo sapiens LEVO RVIPVSGPARCLSQSRNLLKTTDDMVKTAREKLKHYSCTAEDIDHEDITRDQTSTLKTCLPLELHKNESCLATRETSSTT RGSCLPPQKTSLMMTLCLGSIYEDLKMYQTEFQAINAALQNHNHQQIILDKGMLVAIDELMQSLNHNGETLRQKPPVGEA DPYRVKMKLCILLHAFSTRVVTINRVMGYLSSAGTSDEVDGGSGGSGLNDIFEAQKIEWHEGRTKHHHHHH P43431 Interleukin-12 subunit beta Mus musculus 0.03583732 1 Homo sapiens LEVO MWELEKDVYVVEVDWTPDAPGETVNLTCDTPEEDDITWTSDQRHGVIGSGKTLTITVKEFLDAGQYTCHKGGETLSHSHL LLHKKENGIWSTEILKNFKNKTFLKCEAPNYSGRFTCSWLVQRNMDLKFNIKSSSSSPDSRAVTCGMASLSAEKVTLDQR DYEKYSVSCQEDVTCPTAEETLPIELALEARQQNKYENYSTSFFIRDIIKPDPPKNLQMKPLKNSQVEVSWEYPDSWSTP HSYFSLKFFVRIQRKKEKMKETEEGCNQKGAFLVEKTSTEVQCKGGNVCVQAQDRYYNSSCSKWACVPCRVRS P43432 Interleukin-12 receptor subunit beta-1,Death-associated protein kinase 1 Mus musculus 0.063789156 1 Homo sapiens LEVO QLGASGPGDGCCVEKTSFPEGASGSPLGPRNLSCYRVSKTDYECSWQYDGPEDNVSHVLWCCFVPPNHTHTGQERCRYFS SGPDRTVQFWEQDGIPVLSKVNFWVESRLGNRTMKSQKISQYLYNWTKTTPPLGHIKVSQSHRQLRMDWNVSEEAGAEVQ FRRRMPTTNWTLGDCGPQVNSGSGVLGDIRGSMSESCLCPSENMAQEIQIRRRRRLSSGAPGGPWSDWSMPVCVPPEVLP QAKIKFLVEPLNQGGRRRLTMQGQSPQLAVPEGCRGRPGAQVKKHLVLVRMLSCRCQAQTSKTVPLGKKLNLSGATYDLN VLAKTRFGRSTIQKWHLPAQELTETRALNVSVGGNMTSMQWAAQAPGTTYCLEWQPWFQHRNHTHCTLIVPEEEDPAKMV THSWSSKPTLEQEECYRITVFASKNPKNPMLWATVLSSYYFGGNASRAGTPRHVSVRNQTGDSVSVEWTASQLSTCPGVL TQYVVRCEAEDGAWESEWLVPPTKTQVTLDGLRSRVMYKVQVRADTARLPGAWSHPQRFSFEGTGGSGGSGGAARKKWKQ SVRLISLCQRLS Q60837 P53355 2.7.11.1 Interleukin-12 receptor subunit beta-2,Calmodulin-1 Mus musculus 0.08572334399999999 1 Homo sapiens LEVO NIDVCKLGTVTVQPAPVIPLGSAANISCSLNPKQGCSHYPSSNELILLKFVNDVLVENLHGKKVHDHTGHSSTFQVTNLS LGMTLFVCKLNCSNSQKKPPVPVCGVEISVGVAPEPPQNISCVQEGENGTVACSWNSGKVTYLKTNYTLQLSGPNNLTCQ KQCFSDNRQNCNRLDLGINLSPDLAESRFIVRVTAINDLGNSSSLPHTFTFLDIVIPLPPWDIRINFLNASGSRGTLQWE DEGQVVLNQLRYQPLNSTSWNMVNATNAKGKYDLRDLRPFTEYEFQISSKLHLSGGSWSNWSESLRTRTPEEEPVGILDI WYMKQDIDYDRQQISLFWKSLNPSEARGKILHYQVTLQEVTKKTTLQNTTRHTSWTRVIPRTGAWTASVSAANSKGASAP THINIVDLCGTGLLAPHQVSAKSENMDNILVTWQPPKKADSAVREYIVEWRALQPGSITKFPPHWLRIPPDNMSALISEN IKPYICYEIRVHALSESQGGCSSIRGDSKHKAPVSGPHITAITEKKERLFISWTHIPFPEQRGCILHYRIYWKERDSTAQ PELCEIQYRRSQNSHPISSLQPRVTYVLWMTAVTAAGESPQGNEREFCPQGKANGTGGSGGSGGLTEEQIAEFKEAFSLF DKDGDGTITTKELGTVMRSLGQNPTEAELQDMINEVDADGNGTIDFPEFLTMMARKMKDTDSEEEIREAFRVFDKDGNGY ISAAELRHVMTNLGEKLTDEEVDEMIREADIDGDGQVNYEEFVQMMTAK P97378 P0DP23 2-acetamido-2-deoxy-beta-D-glucopyranose 0.000221208 4 NAG water 1.8015e-05 1 HOH singleParticle particle 7.4 150.0 NaCl sodium chloride 25.0 C8H18N2O4S HEPES 5.0 CaCl calcium chloride
HEPES-buffered saline (HBS) with added calcium chloride: 25 mM HEPES, pH 7.4, 150 mM NaCl, 5 mM CaCl
 ETHANE 95 LEICA PLUNGER
Leica EM GP2, 5 s. blotting time..
JEOL CRYO ARM 300 FLOOD BEAM BRIGHT FIELD FIELD EMISSION GUN 300 1.0 2.5 60000.0 NITROGEN GATAN K3 (6k x 4k) 8145 3.37 61.8 1 2151468 C1 3.5 FSC 0.143 CUT-OFF cryoSPARC 4.2.1
The final map was obtained after performing a local refinement in cryoSPARC, using a mask around mIL-12 in complex with D1-D2 of mIL12Rbeta1 and D1-D2 of mIL-12Rbeta2.
268498 MAXIMUM LIKELIHOOD cryoSPARC MAXIMUM LIKELIHOOD cryoSPARC 2 cryoSPARC emd_17580.map.gz 1 IMAGE STORED AS FLOATING POINT NUMBER (4 BYTES) 440 440 440 0 0 0 440 440 440 332.2 332.2 332.2 90.0 90.0 90.0 X Y Z -0.21597698 0.46153858 0.00040332862 0.00656297 0.75500005 0.75500005 0.75500005 0.08 AUTHOR Main map: Sharpened map of the murine IL12:IL12Rbeta1-DAPK1:IL12Rbeta2-Calmodulin complex (Class 1, local refinement) used for model refinement in Phenix. Additional map: deepEMhancer sharpened map. RIGID BODY FIT emd_17580_msk_2.map emd_17580_msk_1.map emd_17580_additional_1.map.gz 1 IMAGE STORED AS FLOATING POINT NUMBER (4 BYTES) 440 440 440 0 0 0 440 440 440 332.2 332.2 332.2 90.0 90.0 90.0 X Y Z -0.021656627 1.9563677 0.00041764707 0.0116935 0.75500005 0.75500005 0.75500005 AUTHOR DeepEMhancer sharpened map of the murine IL12:IL12Rbeta1-DAPK1:IL12Rbeta2-Calmodulin complex (Class 1, local refinement) used for model building in Coot and visualization. emd_17580_half_map_2.map.gz 1 IMAGE STORED AS FLOATING POINT NUMBER (4 BYTES) 440 440 440 0 0 0 440 440 440 332.2 332.2 332.2 90.0 90.0 90.0 X Y Z -0.38593444 0.5569538 0.00034571212 0.045696467 0.75500005 0.75500005 0.75500005 AUTHOR Half map 2 of the murine IL12:IL12Rbeta1-DAPK1:IL12Rbeta2-Calmodulin complex (Class 1), obtained after local refinement. emd_17580_half_map_1.map.gz 1 IMAGE STORED AS FLOATING POINT NUMBER (4 BYTES) 440 440 440 0 0 0 440 440 440 332.2 332.2 332.2 90.0 90.0 90.0 X Y Z -0.40924543 0.5707141 0.00034772247 0.045388285 0.75500005 0.75500005 0.75500005 AUTHOR Half map 1 of the murine IL12:IL12Rbeta1-DAPK1:IL12Rbeta2-Calmodulin complex (Class 1), obtained after local refinement.