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Yorodumi- EMDB-26197: Human Amylin2 Receptor in complex with Gs and rat amylin peptide -
+Open data
-Basic information
Entry | Database: EMDB / ID: EMD-26197 | ||||||||||||||||||||||||
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Title | Human Amylin2 Receptor in complex with Gs and rat amylin peptide | ||||||||||||||||||||||||
Map data | post-processed consensus map | ||||||||||||||||||||||||
Sample |
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Function / homology | Function and homology information Calcitonin-like ligand receptors / basement membrane assembly / vascular associated smooth muscle cell development / calcitonin binding / amylin receptor complex 1 / amylin receptor complex 2 / adrenomedullin binding / cross-receptor inhibition within G protein-coupled receptor heterodimer / amylin receptor complex 3 / adrenomedullin receptor activity ...Calcitonin-like ligand receptors / basement membrane assembly / vascular associated smooth muscle cell development / calcitonin binding / amylin receptor complex 1 / amylin receptor complex 2 / adrenomedullin binding / cross-receptor inhibition within G protein-coupled receptor heterodimer / amylin receptor complex 3 / adrenomedullin receptor activity / adrenomedullin receptor complex / adrenomedullin receptor signaling pathway / amylin receptor activity / calcitonin receptor activity / calcitonin gene-related peptide receptor activity / amylin receptor signaling pathway / positive regulation of adenylate cyclase activity / Calcitonin-like ligand receptors / positive regulation of vasculogenesis / bicellular tight junction assembly / regulation of G protein-coupled receptor signaling pathway / adherens junction assembly / negative regulation of ossification / negative regulation of vascular permeability / negative regulation of bone resorption / sprouting angiogenesis / eating behavior / negative regulation of osteoclast differentiation / positive regulation of protein kinase A signaling / PKA activation in glucagon signalling / response to amyloid-beta / hair follicle placode formation / developmental growth / D1 dopamine receptor binding / intracellular transport / cellular response to vascular endothelial growth factor stimulus / vasculogenesis / Hedgehog 'off' state / positive regulation of cAMP-mediated signaling / coreceptor activity / negative regulation of endothelial cell apoptotic process / positive regulation of calcium-mediated signaling / adenylate cyclase-activating adrenergic receptor signaling pathway / response to glucocorticoid / clathrin-coated pit / bone resorption / cellular response to hormone stimulus / sensory perception of pain / regulation of mRNA stability / activation of adenylate cyclase activity / adenylate cyclase activator activity / ossification / osteoclast differentiation / acrosomal vesicle / trans-Golgi network membrane / secretory granule / protein localization to plasma membrane / intracellular protein transport / Olfactory Signaling Pathway / G-protein beta/gamma-subunit complex binding / Activation of the phototransduction cascade / bone development / G beta:gamma signalling through PLC beta / Presynaptic function of Kainate receptors / Thromboxane signalling through TP receptor / G-protein activation / G protein-coupled acetylcholine receptor signaling pathway / Activation of G protein gated Potassium channels / Inhibition of voltage gated Ca2+ channels via Gbeta/gamma subunits / cilium / adenylate cyclase-activating G protein-coupled receptor signaling pathway / Prostacyclin signalling through prostacyclin receptor / Glucagon signaling in metabolic regulation / G beta:gamma signalling through CDC42 / hormone activity / receptor internalization / ADP signalling through P2Y purinoceptor 12 / G beta:gamma signalling through BTK / Synthesis, secretion, and inactivation of Glucagon-like Peptide-1 (GLP-1) / Sensory perception of sweet, bitter, and umami (glutamate) taste / platelet aggregation / photoreceptor disc membrane / cognition / Adrenaline,noradrenaline inhibits insulin secretion / Glucagon-type ligand receptors / Vasopressin regulates renal water homeostasis via Aquaporins / positive regulation of GTPase activity / regulation of blood pressure / G alpha (z) signalling events / cellular response to catecholamine stimulus / Glucagon-like Peptide-1 (GLP1) regulates insulin secretion / ADORA2B mediated anti-inflammatory cytokines production / ADP signalling through P2Y purinoceptor 1 / adenylate cyclase-activating dopamine receptor signaling pathway / G beta:gamma signalling through PI3Kgamma / cellular response to prostaglandin E stimulus / Cooperation of PDCL (PhLP1) and TRiC/CCT in G-protein beta folding / sensory perception of taste / GPER1 signaling / glucose metabolic process Similarity search - Function | ||||||||||||||||||||||||
Biological species | Homo sapiens (human) / Rattus norvegicus (Norway rat) / Lama glama (llama) | ||||||||||||||||||||||||
Method | single particle reconstruction / cryo EM / Resolution: 2.55 Å | ||||||||||||||||||||||||
Authors | Cao J / Belousoff MJ / Johnson RM / Wootten DL / Sexton PM | ||||||||||||||||||||||||
Funding support | Australia, Japan, 7 items
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Citation | Journal: Science / Year: 2022 Title: A structural basis for amylin receptor phenotype. Authors: Jianjun Cao / Matthew J Belousoff / Yi-Lynn Liang / Rachel M Johnson / Tracy M Josephs / Madeleine M Fletcher / Arthur Christopoulos / Debbie L Hay / Radostin Danev / Denise Wootten / Patrick M Sexton / Abstract: Amylin receptors (AMYRs) are heterodimers of the calcitonin (CT) receptor (CTR) and one of three receptor activity-modifying proteins (RAMPs), AMYR, AMYR, and AMYR. Selective AMYR agonists and dual ...Amylin receptors (AMYRs) are heterodimers of the calcitonin (CT) receptor (CTR) and one of three receptor activity-modifying proteins (RAMPs), AMYR, AMYR, and AMYR. Selective AMYR agonists and dual AMYR/CTR agonists are being developed as obesity treatments; however, the molecular basis for peptide binding and selectivity is unknown. We determined the structure and dynamics of active AMYRs with amylin, AMYR with salmon CT (sCT), AMYR with sCT or human CT (hCT), and CTR with amylin, sCT, or hCT. The conformation of amylin-bound complexes was similar for all AMYRs, constrained by the RAMP, and an ordered midpeptide motif that we call the bypass motif. The CT-bound AMYR complexes were distinct, overlapping the CT-bound CTR complexes. Our findings indicate that activation of AMYRs by CT-based peptides is distinct from their activation by amylin-based peptides. This has important implications for the development of AMYR therapeutics. | ||||||||||||||||||||||||
History |
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-Structure visualization
Supplemental images |
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-Downloads & links
-EMDB archive
Map data | emd_26197.map.gz | 85.9 MB | EMDB map data format | |
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Header (meta data) | emd-26197-v30.xml emd-26197.xml | 34.1 KB 34.1 KB | Display Display | EMDB header |
FSC (resolution estimation) | emd_26197_fsc.xml | 10 KB | Display | FSC data file |
Images | emd_26197.png | 28.8 KB | ||
Masks | emd_26197_msk_1.map | 91.1 MB | Mask map | |
Others | emd_26197_additional_1.map.gz emd_26197_additional_2.map.gz emd_26197_additional_3.map.gz emd_26197_additional_4.map.gz emd_26197_additional_5.map.gz emd_26197_half_map_1.map.gz emd_26197_half_map_2.map.gz | 84.7 MB 84.5 MB 44.1 MB 45.9 MB 84.3 MB 84.7 MB 84.7 MB | ||
Archive directory | http://ftp.pdbj.org/pub/emdb/structures/EMD-26197 ftp://ftp.pdbj.org/pub/emdb/structures/EMD-26197 | HTTPS FTP |
-Related structure data
Related structure data | 7tyxMC 7tyfC 7tyhC 7tyiC 7tylC 7tynC 7tyoC 7tywC 7tyyC 7tzfC M: atomic model generated by this map C: citing same article (ref.) |
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Similar structure data | Similarity search - Function & homologyF&H Search |
-Links
EMDB pages | EMDB (EBI/PDBe) / EMDataResource |
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Related items in Molecule of the Month |
-Map
File | Download / File: emd_26197.map.gz / Format: CCP4 / Size: 91.1 MB / Type: IMAGE STORED AS FLOATING POINT NUMBER (4 BYTES) | ||||||||||||||||||||
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Annotation | post-processed consensus map | ||||||||||||||||||||
Voxel size | X=Y=Z: 0.83 Å | ||||||||||||||||||||
Density |
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Symmetry | Space group: 1 | ||||||||||||||||||||
Details | EMDB XML:
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-Supplemental data
-Mask #1
File | emd_26197_msk_1.map | ||||||||||||
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Projections & Slices |
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Density Histograms |
-Additional map: Focussed refinement on G-proteins, Post-processed map, resampled on...
File | emd_26197_additional_1.map | ||||||||||||
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Annotation | Focussed refinement on G-proteins, Post-processed map, resampled on consensus refinement map | ||||||||||||
Projections & Slices |
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Density Histograms |
-Additional map: Focussed refinement on receptor, Post-processed map, resampled on...
File | emd_26197_additional_2.map | ||||||||||||
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Annotation | Focussed refinement on receptor, Post-processed map, resampled on consensus refinement map | ||||||||||||
Projections & Slices |
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Density Histograms |
-Additional map: Focussed refinement on receptor, unfiltered map, resampled on...
File | emd_26197_additional_3.map | ||||||||||||
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Annotation | Focussed refinement on receptor, unfiltered map, resampled on consensus refinement map | ||||||||||||
Projections & Slices |
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Density Histograms |
-Additional map: unfiltered consensus map
File | emd_26197_additional_4.map | ||||||||||||
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Annotation | unfiltered consensus map | ||||||||||||
Projections & Slices |
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Density Histograms |
-Additional map: Composite map where focussed refinements on receptor and...
File | emd_26197_additional_5.map | ||||||||||||
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Annotation | Composite map where focussed refinements on receptor and g-proteins were resampled on the consensus refinement | ||||||||||||
Projections & Slices |
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Density Histograms |
-Half map: half map 1
File | emd_26197_half_map_1.map | ||||||||||||
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Annotation | half map 1 | ||||||||||||
Projections & Slices |
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Density Histograms |
-Half map: half map 1
File | emd_26197_half_map_2.map | ||||||||||||
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Annotation | half map 1 | ||||||||||||
Projections & Slices |
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Density Histograms |
-Sample components
+Entire : Human Amylin2 Receptor in complex with Gs and rat amylin peptide
+Supramolecule #1: Human Amylin2 Receptor in complex with Gs and rat amylin peptide
+Macromolecule #1: Receptor activity-modifying protein 2
+Macromolecule #2: amylin peptide
+Macromolecule #3: Calcitonin receptor
+Macromolecule #4: Guanine nucleotide-binding protein G(s) subunit alpha isoforms short
+Macromolecule #5: Guanine nucleotide-binding protein G(I)/G(S)/G(T) subunit beta-1
+Macromolecule #6: Guanine nucleotide-binding protein G(I)/G(S)/G(O) subunit gamma-2
+Macromolecule #7: nanobody 35
+Macromolecule #8: PALMITIC ACID
+Macromolecule #9: 2-acetamido-2-deoxy-beta-D-glucopyranose
+Macromolecule #10: CHOLESTEROL HEMISUCCINATE
-Experimental details
-Structure determination
Method | cryo EM |
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Processing | single particle reconstruction |
Aggregation state | particle |
-Sample preparation
Concentration | 4 mg/mL |
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Buffer | pH: 7.4 |
Vitrification | Cryogen name: ETHANE |
-Electron microscopy
Microscope | TFS KRIOS |
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Electron beam | Acceleration voltage: 300 kV / Electron source: FIELD EMISSION GUN |
Electron optics | Illumination mode: FLOOD BEAM / Imaging mode: BRIGHT FIELDBright-field microscopy / Nominal defocus max: 1.6 µm / Nominal defocus min: 0.6 µm |
Image recording | Film or detector model: GATAN K3 BIOQUANTUM (6k x 4k) / Average electron dose: 61.8 e/Å2 |
Experimental equipment | Model: Titan Krios / Image courtesy: FEI Company |