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- EMDB-22872: Cryo-EM structure of the human arginine vasopressin AVP-vasopress... -
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Open data
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Basic information
Entry | Database: EMDB / ID: EMD-22872 | |||||||||
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Title | Cryo-EM structure of the human arginine vasopressin AVP-vasopressin receptor V2R-Gs signaling complex | |||||||||
![]() | V2R unsharpen map | |||||||||
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Function / homology | ![]() V1B vasopressin receptor binding / Defective AVP does not bind AVPR1A,B and causes neurohypophyseal diabetes insipidus (NDI) / maternal aggressive behavior / Transport of organic anions / neurohypophyseal hormone activity / V1A vasopressin receptor binding / penile erection / renal water retention / Defective AVP does not bind AVPR2 and causes neurohypophyseal diabetes insipidus (NDI) / regulation of renal sodium excretion ...V1B vasopressin receptor binding / Defective AVP does not bind AVPR1A,B and causes neurohypophyseal diabetes insipidus (NDI) / maternal aggressive behavior / Transport of organic anions / neurohypophyseal hormone activity / V1A vasopressin receptor binding / penile erection / renal water retention / Defective AVP does not bind AVPR2 and causes neurohypophyseal diabetes insipidus (NDI) / regulation of renal sodium excretion / negative regulation of transmission of nerve impulse / Vasopressin-like receptors / regulation of systemic arterial blood pressure by vasopressin / vasopressin receptor activity / negative regulation of female receptivity / protein kinase C signaling / hyperosmotic salinity response / water transport / hemostasis / telencephalon development / positive regulation of systemic arterial blood pressure / grooming behavior / positive regulation of prostaglandin biosynthetic process / negative regulation of adenylate cyclase activity / membrane organization / maternal behavior / neuropeptide hormone activity / vasoconstriction / renal water homeostasis / positive regulation of glutamate secretion / GTP metabolic process / positive regulation of intracellular signal transduction / G protein-coupled dopamine receptor signaling pathway / response to testosterone / negative regulation of release of cytochrome c from mitochondria / cysteine-type endopeptidase inhibitor activity involved in apoptotic process / social behavior / positive regulation of macroautophagy / endocytic vesicle / Adenylate cyclase inhibitory pathway / positive regulation of vasoconstriction / cellular response to hormone stimulus / negative regulation of inflammatory response to antigenic stimulus / activation of adenylate cyclase activity / ERK1 and ERK2 cascade / adenylate cyclase-inhibiting G protein-coupled receptor signaling pathway / positive regulation of cellular pH reduction / BMAL1:CLOCK,NPAS2 activates circadian gene expression / secretory granule / generation of precursor metabolites and energy / response to cytokine / locomotory behavior / G protein-coupled receptor binding / peptide binding / response to nicotine / clathrin-coated endocytic vesicle membrane / G-protein beta/gamma-subunit complex binding / Olfactory Signaling Pathway / Activation of the phototransduction cascade / negative regulation of cysteine-type endopeptidase activity involved in apoptotic process / adenylate cyclase-modulating G protein-coupled receptor signaling pathway / 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 / Prostacyclin signalling through prostacyclin receptor / Glucagon signaling in metabolic regulation / G beta:gamma signalling through CDC42 / 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 / photoreceptor disc membrane / Adrenaline,noradrenaline inhibits insulin secretion / Glucagon-type ligand receptors / Vasopressin regulates renal water homeostasis via Aquaporins / G alpha (z) signalling events / cellular response to catecholamine stimulus / Glucagon-like Peptide-1 (GLP1) regulates insulin secretion / ADORA2B mediated anti-inflammatory cytokines production / sensory perception of taste / 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 / GPER1 signaling / GDP binding / G-protein beta-subunit binding / Inactivation, recovery and regulation of the phototransduction cascade / heterotrimeric G-protein complex / G alpha (12/13) signalling events / extracellular vesicle / signaling receptor complex adaptor activity / Thrombin signalling through proteinase activated receptors (PARs) / Cargo recognition for clathrin-mediated endocytosis / GTPase binding Similarity search - Function | |||||||||
Biological species | ![]() ![]() ![]() | |||||||||
Method | single particle reconstruction / cryo EM / Resolution: 2.8 Å | |||||||||
![]() | Wang L / Xu J / Gao S / Sun D / Liu H / Liu Z / Du Y / Zhang C | |||||||||
Funding support | ![]()
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![]() | ![]() Title: Cryo-EM structure of the AVP-vasopressin receptor 2-G signaling complex. Authors: Lei Wang / Jun Xu / Sheng Cao / Dapeng Sun / Heng Liu / Qiuyuan Lu / Zheng Liu / Yang Du / Cheng Zhang / ![]() ![]() | |||||||||
History |
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Structure visualization
Movie |
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Structure viewer | EM map: ![]() ![]() ![]() |
Supplemental images |
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Downloads & links
-EMDB archive
Map data | ![]() | 32.2 MB | ![]() | |
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Header (meta data) | ![]() ![]() | 18.5 KB 18.5 KB | Display Display | ![]() |
Images | ![]() | 127.7 KB | ||
Archive directory | ![]() ![]() | HTTPS FTP |
-Validation report
Summary document | ![]() | 398.7 KB | Display | ![]() |
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Full document | ![]() | 398.2 KB | Display | |
Data in XML | ![]() | 6.3 KB | Display | |
Data in CIF | ![]() | 7.2 KB | Display | |
Arichive directory | ![]() ![]() | HTTPS FTP |
-Related structure data
Related structure data | ![]() 7kh0MC M: atomic model generated by this map C: citing same article ( |
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Similar structure data |
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Links
EMDB pages | ![]() ![]() |
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Related items in Molecule of the Month |
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Map
File | ![]() | ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
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Annotation | V2R unsharpen map | ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Voxel size | X=Y=Z: 0.85 Å | ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Density |
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Symmetry | Space group: 1 | ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Details | EMDB XML:
CCP4 map header:
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-Supplemental data
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Sample components
+Entire : Vasopressin V2 receptor complex with Gs and AVP
+Supramolecule #1: Vasopressin V2 receptor complex with Gs and AVP
+Supramolecule #2: Vasopressin V2 receptor, Arg-vasopressin
+Supramolecule #3: Guanine nucleotide-binding protein G(I)/G(S)/G(T) subunit beta-1,...
+Supramolecule #4: Nanobody 35
+Macromolecule #1: Vasopressin V2 receptor
+Macromolecule #2: Guanine nucleotide-binding protein G(I)/G(S)/G(T) subunit beta-1
+Macromolecule #3: Guanine nucleotide-binding protein G(i) subunit alpha-3, Isoform ...
+Macromolecule #4: Arg-vasopressin
+Macromolecule #5: Guanine nucleotide-binding protein G(I)/G(S)/G(O) subunit gamma-2
+Macromolecule #6: Single Fab chain (scFv16)
+Macromolecule #7: Nanobody 35
-Experimental details
-Structure determination
Method | cryo EM |
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![]() | single particle reconstruction |
Aggregation state | particle |
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Sample preparation
Buffer | pH: 7.5 |
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Vitrification | Cryogen name: ETHANE |
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Electron microscopy
Microscope | FEI TITAN KRIOS |
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Image recording | Film or detector model: GATAN K3 (6k x 4k) / Average electron dose: 55.0 e/Å2 |
Electron beam | Acceleration voltage: 300 kV / Electron source: OTHER |
Electron optics | Illumination mode: OTHER / Imaging mode: OTHER |
Experimental equipment | ![]() Model: Titan Krios / Image courtesy: FEI Company |
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Image processing
Final reconstruction | Resolution.type: BY AUTHOR / Resolution: 2.8 Å / Resolution method: FSC 0.143 CUT-OFF / Number images used: 398038 |
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Initial angle assignment | Type: OTHER |
Final angle assignment | Type: OTHER |