2024-10-23 REL PDBe PDBe PDBe 2022-08-26 2023-04-05 2023-04-05 2024-10-23 Research Foundation - Flanders (FWO) G0G0619N Belgium Mouse leptin:LEP-R complex cryoEM structure (3:3 model) Verstraete K Savvides SN Verschueren KG Tsirigotaki A leptin, LEP-R, obesity, metabolism, energy balance, CYTOKINE Tsirigotaki A Dansercoer A Verschueren KHG Markovic I Pollmann C Hafer M Felix J Birck C Van Putte W Catteeuw D Tavernier J Fernando Bazan J Piehler J Savvides SN Verstraete K Mechanism of receptor assembly via the pleiotropic adipokine Leptin. Nat.Struct.Mol.Biol. US 30 551 563 2023 36959263 doi:10.1038/s41594-023-00941-9 1545-9985 8avc FULLOVERLAP Stucture of mouse leptin in complex with a trimerized form of the mouse Lep-R extracellular region Stucture of mouse leptin in complex with a trimerized form of the mouse Lep-R extracellular region 0 1 2
The mLEP-R ectodomain was C-terminally fused to a trimeric GCN4 isoleucine zipper tag and secreted from HEK93 FreeStyle cells and complex with refolded mouse leptin produced in E.coli.
Mus musculus 0.444 Leptin Mus musculus 0.018873282999999998
N-terminally His-tagged mouse leptin was refolded from inclusion bodies produced in E.coli.
3 Escherichia coli BL21(DE3) LEVO MGSSHHHHHHPGGPGSENLYFQGGSTGGVPIQKVQDDTKTLIKTIVTRINDISHTQSVSAKQRVTGLDFIPGLHPILSLS KMDQTLAVYQQVLTSLPSQNVLQIANDLENLRDLLHLLAFSKSCSLPQTSGLQKPESLDGVLEASLYSTEVVALSRLQGS LQDILQQLDVSPEC P41160 Leptin receptor Mus musculus 0.097479391 3 Homo sapiens LEVO LNLAYPISPWKFKLFCGPPNTTDDSFLSPAGAPNNASALKGASEAIVEAKFNSSGIYVPELSKTVFHCCFGNEQGQNCSA LTDNTEGKTLASVVKASVFRQLGVNWDIECWMKGDLTLFICHMEPLPKNPFKNYDSKVHLLYDLPEVIDDSPLPPLKDSF QTVQCNCSLRGCECHVPVPRAKLNYALLMYLEITSAGVSFQSPLMSLQPMLVVKPDPPLGLHMEVTDDGNLKISWDSQTM APFPLQYQVKYLENSTIVREAAEIVSATSLLVDSVLPGSSYEVQVRSKRLDGSGVWSDWSSPQVFTTQDVVYFPPKILTS VGSNASFHCIYKNENQIISSKQIVWWRNLAEKIPEIQYSIVSDRVSKVTFSNLKATRPRGKFTYDAVYCCNEQACHHRYA ELYVIDVNINISCETDGYLTKMTCRWSPSTIQSLVGSTVQLRYHRRSLYCPDSPSIHPTSEPKNCVLQRDGFYECVFQPI FLLSGYTMWIRINHSLGSLDSPPTCVLPDSVVKPLPPSNVKAEITVNTGLLKVSWEKPVFPENNLQFQIRYGLSGKEIQW KTHEVFDAKSKSASLLVSDLCAVYVVQVRCRRLDGLGYWSNWSSPAYTLVMDVKVPMRGPEFWRKMDGDVTKKERNVTLL WKPLTKNDSLCSVRRYVVKHRTAHNGTWSEDVGNRTNLTFLWTEPAHTVTVLAVNSLGASLVNFNLTFSWPMSKVSAVES LSAYPLSSSCVILSWTLSPDDYSLLYLVIEWKILNEDDGMKWLRIPSNVKKFYIHDNFIPIEKYQFSLYPVFMEGVGKPK IINGFTKDAIDKQQNDAGSTGGSGGSGGSGGSGGSRMKQIEDKIEEILSKIYHIENEIARIKKLIGER P48356 NICKEL (II) ION 5.8692999999999995e-05 3 NI singleParticle particle 0.3 7.4 20.0 C8H18N2O4S HEPES 150.0 NaCl sodium chloride
20 mM HEPES, 150 mM NaCl, pH 7.4
 C-flat-1.2/1.3 COPPER 300 CARBON HOLEY GLOW DISCHARGE AIR ETHANE 99 22 LEICA EM GP
This sample was monodisperse.
 TFS KRIOS FLOOD BEAM OTHER FIELD EMISSION GUN 300 2.7 1.2 2.5 105000.0 GATAN K3 BIOQUANTUM (6k x 4k) 1 13230 45.0 1 141157
Movies were processed via patch-based motion correction and CTF estimation as implemented in cryoSPARC v3.3.1. Initial 2D classes were obtained by the blob picker function in cryoSPARC, followed by particle picking via TOPAZ as implemented in cryoSPARC. Junk particles were removed by multiple rounds of 2D classification and ab initio 3D classification resulting in a particle set of 141,157 particles.
 Hybrid model: crystallographic structure (pdb 7z3r) + Alphafold model mouse LEPR 1 C1 4.6 FSC 0.143 CUT-OFF cryoSPARC v3.3.1 Non-uniform refinement 37530 MAXIMUM LIKELIHOOD cryoSPARC v3.3.1 MAXIMUM LIKELIHOOD cryoSPARC v3.3.1 2 33128.0 cryoSPARC v3.3.1 Ab initio emd_15678.map.gz 1 IMAGE STORED AS FLOATING POINT NUMBER (4 BYTES) 224 224 224 0 0 0 224 224 224 371.392 371.392 371.392 90.0 90.0 90.0 X Y Z -0.38276014 1.9273546 0.00032553636 0.025291251 1.658 1.658 1.658 0.178 AUTHOR Sharpenend cryo-EM map following non-uniform refinement FLEXIBLE FIT REAL emd_15678_msk_1.map emd_15678_additional_1.map.gz 1 IMAGE STORED AS FLOATING POINT NUMBER (4 BYTES) 224 224 224 0 0 0 224 224 224 371.392 371.392 371.392 90.0 90.0 90.0 X Y Z -0.17875375 1.561388 0.00032553638 0.021873426 1.658 1.658 1.658 AUTHOR Non-sharpened cryo-EM map following non-uniform refinement emd_15678_half_map_1.map.gz 1 IMAGE STORED AS FLOATING POINT NUMBER (4 BYTES) 224 224 224 0 0 0 224 224 224 371.392 371.392 371.392 90.0 90.0 90.0 X Y Z -0.3200861 1.6586734 0.0010535715 0.0353916 1.658 1.658 1.658 AUTHOR Half map A emd_15678_half_map_2.map.gz 1 IMAGE STORED AS FLOATING POINT NUMBER (4 BYTES) 224 224 224 0 0 0 224 224 224 371.392 371.392 371.392 90.0 90.0 90.0 X Y Z -0.38594177 1.6130524 0.0010832036 0.035481803 1.658 1.658 1.658 AUTHOR Half map B