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Yorodumi- EMDB-26178: Human Amylin1 Receptor in complex with Gs and rat amylin peptide -
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Open data
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Basic information
| Entry | ![]() | ||||||||||||||||||||||||
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| Title | Human Amylin1 Receptor in complex with Gs and rat amylin peptide | ||||||||||||||||||||||||
Map data | Post-processed consensus map | ||||||||||||||||||||||||
Sample |
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Keywords | Amylin receptor / GPCR / RAMP / MEMBRANE PROTEIN | ||||||||||||||||||||||||
| Function / homology | Function and homology informationCalcitonin-like ligand receptors / calcitonin gene-related peptide binding / CGRP receptor complex / calcitonin binding / calcitonin family receptor activity / amylin receptor complex 1 / amylin receptor complex 2 / calcitonin family receptor signaling pathway / amylin receptor complex 3 / amylin receptor activity ...Calcitonin-like ligand receptors / calcitonin gene-related peptide binding / CGRP receptor complex / calcitonin binding / calcitonin family receptor activity / amylin receptor complex 1 / amylin receptor complex 2 / calcitonin family receptor signaling pathway / amylin receptor complex 3 / amylin receptor activity / calcitonin receptor activity / calcitonin gene-related peptide receptor signaling pathway / calcitonin gene-related peptide receptor activity / positive regulation of glycoprotein biosynthetic process / amylin receptor 3 signaling pathway / amylin receptor 2 signaling pathway / amylin receptor 1 signaling pathway / amylin receptor signaling pathway / Calcitonin-like ligand receptors / regulation of G protein-coupled receptor signaling pathway / negative regulation of ossification / negative regulation of bone resorption / eating behavior / negative regulation of osteoclast differentiation / response to amyloid-beta / adenylate cyclase-activating G protein-coupled bile acid receptor signaling pathway / adenylate cyclase-activating serotonin receptor signaling pathway / positive regulation of cAMP/PKA signal transduction / regulation of skeletal muscle contraction / PKA activation in glucagon signalling / hair follicle placode formation / developmental growth / intracellular transport / bone resorption / D1 dopamine receptor binding / vascular endothelial cell response to laminar fluid shear stress / renal water homeostasis / Hedgehog 'off' state / activation of adenylate cyclase activity / coreceptor activity / cellular response to hormone stimulus / cellular response to acidic pH / adenylate cyclase-activating adrenergic receptor signaling pathway / regulation of mRNA stability / inclusion body / cellular response to glucagon stimulus / sensory perception of pain / positive regulation of calcium-mediated signaling / osteoclast differentiation / secretory granule / intracellular glucose homeostasis / acrosomal vesicle / ossification / response to glucocorticoid / adenylate cyclase activator activity / positive regulation of insulin secretion involved in cellular response to glucose stimulus / trans-Golgi network membrane / protein localization to plasma membrane / negative regulation of inflammatory response to antigenic stimulus / response to prostaglandin E / hormone activity / intracellular protein transport / protein homooligomerization / bone development / receptor internalization / platelet aggregation / protein destabilization / cognition / glucose metabolic process / G-protein beta/gamma-subunit complex binding / Olfactory Signaling Pathway / Activation of the phototransduction cascade / G beta:gamma signalling through PLC beta / Presynaptic function of Kainate receptors / Thromboxane signalling through TP receptor / G protein-coupled acetylcholine receptor signaling pathway / Activation of G protein gated Potassium channels / Inhibition of voltage gated Ca2+ channels via Gbeta/gamma subunits / G-protein activation / positive regulation of insulin secretion / G beta:gamma signalling through CDC42 / Prostacyclin signalling through prostacyclin receptor / Glucagon signaling in metabolic regulation / G beta:gamma signalling through BTK / Synthesis, secretion, and inactivation of Glucagon-like Peptide-1 (GLP-1) / ADP signalling through P2Y purinoceptor 12 / photoreceptor disc membrane / sensory perception of smell / calcium ion transport / Glucagon-type ligand receptors / Sensory perception of sweet, bitter, and umami (glutamate) taste / Adrenaline,noradrenaline inhibits insulin secretion / Vasopressin regulates renal water homeostasis via Aquaporins / Glucagon-like Peptide-1 (GLP1) regulates insulin secretion / G alpha (z) signalling events / ADP signalling through P2Y purinoceptor 1 / ADORA2B mediated anti-inflammatory cytokines production / cellular response to catecholamine stimulus / G beta:gamma signalling through PI3Kgamma / adenylate cyclase-activating dopamine receptor signaling pathway Similarity search - Function | ||||||||||||||||||||||||
| Biological species | Homo sapiens (human) / ![]() ![]() | ||||||||||||||||||||||||
| Method | single particle reconstruction / cryo EM / Resolution: 2.2 Å | ||||||||||||||||||||||||
Authors | Cao J / Belousoff MJ | ||||||||||||||||||||||||
| Funding support | Australia, Japan, 7 items
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Citation | Journal: Science / Year: 2022Title: 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
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Downloads & links
-EMDB archive
| Map data | emd_26178.map.gz | 85.5 MB | EMDB map data format | |
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| Header (meta data) | emd-26178-v30.xml emd-26178.xml | 36.5 KB 36.5 KB | Display Display | EMDB header |
| FSC (resolution estimation) | emd_26178_fsc.xml | 10.2 KB | Display | FSC data file |
| Images | emd_26178.png | 26.5 KB | ||
| Masks | emd_26178_msk_1.map | 91.1 MB | Mask map | |
| Filedesc metadata | emd-26178.cif.gz | 8.5 KB | ||
| Others | emd_26178_additional_1.map.gz emd_26178_additional_2.map.gz emd_26178_additional_3.map.gz emd_26178_half_map_1.map.gz emd_26178_half_map_2.map.gz | 81.5 MB 84.2 MB 71.5 MB 71.8 MB 71.8 MB | ||
| Archive directory | http://ftp.pdbj.org/pub/emdb/structures/EMD-26178 ftp://ftp.pdbj.org/pub/emdb/structures/EMD-26178 | HTTPS FTP |
-Related structure data
| Related structure data | ![]() 7tyfMC ![]() 7tyhC ![]() 7tyiC ![]() 7tylC ![]() 7tynC ![]() 7tyoC ![]() 7tywC ![]() 7tyxC ![]() 7tyyC ![]() 7tzfC C: citing same article ( M: atomic model generated by this map |
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| Similar structure data | Similarity search - Function & homology F&H Search |
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Links
| EMDB pages | EMDB (EBI/PDBe) / EMDataResource |
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| Related items in Molecule of the Month |
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Map
| File | Download / File: emd_26178.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 | ||||||||||||||||||||||||||||||||||||
| Projections & slices | Image control
Images are generated by Spider. | ||||||||||||||||||||||||||||||||||||
| 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_26178_msk_1.map | ||||||||||||
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| Density Histograms |
-Additional map: Locally Refined unfiltered map focussed on receptor
| File | emd_26178_additional_1.map | ||||||||||||
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| Annotation | Locally Refined unfiltered map focussed on receptor | ||||||||||||
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| Density Histograms |
-Additional map: Locallly refined post-processed map focussed on receptor.
| File | emd_26178_additional_2.map | ||||||||||||
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| Annotation | Locallly refined post-processed map focussed on receptor. | ||||||||||||
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| Density Histograms |
-Additional map: Unfiltered consensus map
| File | emd_26178_additional_3.map | ||||||||||||
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| Annotation | Unfiltered consensus map | ||||||||||||
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| Density Histograms |
-Half map: half map 1
| File | emd_26178_half_map_1.map | ||||||||||||
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| Annotation | half map 1 | ||||||||||||
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| Density Histograms |
-Half map: half map 2
| File | emd_26178_half_map_2.map | ||||||||||||
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| Annotation | half map 2 | ||||||||||||
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| Density Histograms |
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Sample components
+Entire : Human Amylin1 Receptor in complex with Gs and rat amylin peptide
+Supramolecule #1: Human Amylin1 Receptor in complex with Gs and rat amylin peptide
+Macromolecule #1: Guanine nucleotide-binding protein G(s) subunit alpha isoforms short
+Macromolecule #2: Guanine nucleotide-binding protein G(I)/G(S)/G(T) subunit beta-1
+Macromolecule #3: Receptor activity-modifying protein 1
+Macromolecule #4: Guanine nucleotide-binding protein G(I)/G(S)/G(O) subunit gamma-2
+Macromolecule #5: Nanobody 35
+Macromolecule #6: amylin peptide
+Macromolecule #7: Calcitonin receptor
+Macromolecule #8: 2-acetamido-2-deoxy-beta-D-glucopyranose
+Macromolecule #9: PALMITIC ACID
+Macromolecule #10: CHOLESTEROL HEMISUCCINATE
+Macromolecule #11: (2S)-2-{[(1R)-1-hydroxyhexadecyl]oxy}-3-{[(1R)-1-hydroxyoctadecyl...
+Macromolecule #12: PHOSPHATIDYLETHANOLAMINE
+Macromolecule #13: water
-Experimental details
-Structure determination
| Method | cryo EM |
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Processing | single particle reconstruction |
| Aggregation state | particle |
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Sample preparation
| Concentration | 4 mg/mL |
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| Buffer | pH: 7.4 |
| Vitrification | Cryogen name: ETHANE |
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Electron microscopy
| Microscope | TFS KRIOS |
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| Image recording | Film or detector model: GATAN K3 BIOQUANTUM (6k x 4k) / Average electron dose: 65.3 e/Å2 |
| Electron beam | Acceleration voltage: 300 kV / Electron source: FIELD EMISSION GUN |
| Electron optics | Illumination mode: FLOOD BEAM / Imaging mode: BRIGHT FIELD / Nominal defocus max: 1.5 µm / Nominal defocus min: 0.5 µm |
| Experimental equipment | ![]() Model: Titan Krios / Image courtesy: FEI Company |
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About Yorodumi



Keywords
Homo sapiens (human)
Authors
Australia,
Japan, 7 items
Citation






































Z (Sec.)
Y (Row.)
X (Col.)




































































Trichoplusia ni (cabbage looper)






Processing
FIELD EMISSION GUN

