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Yorodumi- PDB-7kh0: Cryo-EM structure of the human arginine vasopressin AVP-vasopress... -
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-Basic information
Entry | Database: PDB / ID: 7kh0 | ||||||
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Title | Cryo-EM structure of the human arginine vasopressin AVP-vasopressin receptor V2R-Gs signaling complex | ||||||
Components |
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Keywords | SIGNALING PROTEIN / arginine vasopressin AVP / Gs / signaling complex | ||||||
Function / homology | Function and homology information 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 / positive regulation of systemic arterial blood pressure / telencephalon development / positive regulation of prostaglandin biosynthetic process / grooming behavior / negative regulation of adenylate cyclase activity / maternal behavior / membrane organization / 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 / activation of adenylate cyclase activity / positive regulation of vasoconstriction / cellular response to hormone stimulus / negative regulation of inflammatory response to antigenic stimulus / ERK1 and ERK2 cascade / adenylate cyclase-inhibiting G protein-coupled receptor signaling pathway / positive regulation of cellular pH reduction / negative regulation of cysteine-type endopeptidase activity involved in apoptotic process / 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 / clathrin-coated endocytic vesicle membrane / cell cycle / response to nicotine / G-protein beta/gamma-subunit complex binding / Olfactory Signaling Pathway / Activation of the phototransduction cascade / 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-coupled acetylcholine receptor signaling pathway / G-protein activation / 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 Similarity search - Function | ||||||
Biological species | Homo sapiens (human) Lama glama (llama) | ||||||
Method | ELECTRON MICROSCOPY / single particle reconstruction / cryo EM / Resolution: 2.8 Å | ||||||
Authors | Wang, L. / Xu, J. / Gao, S. / Sun, D. / Liu, H. / Liu, Z. / Du, Y. / Zhang, C. | ||||||
Funding support | United States, 1items
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Citation | Journal: Cell Res / Year: 2021 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 |
Movie viewer |
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Structure viewer | Molecule: MolmilJmol/JSmol |
-Downloads & links
-Download
PDBx/mmCIF format | 7kh0.cif.gz | 234.4 KB | Display | PDBx/mmCIF format |
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PDB format | pdb7kh0.ent.gz | 184 KB | Display | PDB format |
PDBx/mmJSON format | 7kh0.json.gz | Tree view | PDBx/mmJSON format | |
Others | Other downloads |
-Validation report
Arichive directory | https://data.pdbj.org/pub/pdb/validation_reports/kh/7kh0 ftp://data.pdbj.org/pub/pdb/validation_reports/kh/7kh0 | HTTPS FTP |
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-Related structure data
Related structure data | 22872MC M: map data used to model this data C: citing same article (ref.) |
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Similar structure data |
-Links
-Assembly
Deposited unit |
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1 |
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-Components
-Guanine nucleotide-binding protein ... , 3 types, 3 molecules BAG
#2: Protein | Mass: 38613.176 Da / Num. of mol.: 1 Source method: isolated from a genetically manipulated source Source: (gene. exp.) Homo sapiens (human) / Gene: GNB1 / Production host: Spodoptera frugiperda (fall armyworm) / References: UniProt: P62873 |
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#3: Protein | Mass: 43298.055 Da / Num. of mol.: 1 Source method: isolated from a genetically manipulated source Source: (gene. exp.) Homo sapiens (human) / Gene: GNAI3, GNAS, GNAS1, GSP / Production host: Spodoptera frugiperda (fall armyworm) / References: UniProt: P08754, UniProt: P63092-2 |
#5: Protein | Mass: 7432.554 Da / Num. of mol.: 1 Source method: isolated from a genetically manipulated source Source: (gene. exp.) Homo sapiens (human) / Gene: GNG2 / Production host: Spodoptera frugiperda (fall armyworm) / References: UniProt: P59768 |
-Antibody , 2 types, 2 molecules SN
#6: Antibody | Mass: 26450.531 Da / Num. of mol.: 1 Source method: isolated from a genetically manipulated source Source: (gene. exp.) Homo sapiens (human) / Production host: Spodoptera frugiperda (fall armyworm) |
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#7: Antibody | Mass: 14714.320 Da / Num. of mol.: 1 Source method: isolated from a genetically manipulated source Source: (gene. exp.) Lama glama (llama) / Production host: Escherichia coli (E. coli) |
-Protein / Protein/peptide , 2 types, 2 molecules RL
#1: Protein | Mass: 42346.090 Da / Num. of mol.: 1 Source method: isolated from a genetically manipulated source Source: (gene. exp.) Homo sapiens (human) / Gene: AVPR2, ADHR, DIR, DIR3, V2R / Production host: Homo sapiens (human) / References: UniProt: P30518 |
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#4: Protein/peptide | Mass: 1086.248 Da / Num. of mol.: 1 Source method: isolated from a genetically manipulated source Source: (gene. exp.) Homo sapiens (human) / Gene: AVP, ARVP, VP / Production host: Homo sapiens (human) / References: UniProt: P01185 |
-Details
Has ligand of interest | N |
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-Experimental details
-Experiment
Experiment | Method: ELECTRON MICROSCOPY |
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EM experiment | Aggregation state: PARTICLE / 3D reconstruction method: single particle reconstruction |
-Sample preparation
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Source (natural) |
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Source (recombinant) |
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Buffer solution | pH: 7.5 | ||||||||||||||||||||||||||||||
Specimen | Embedding applied: NO / Shadowing applied: NO / Staining applied: NO / Vitrification applied: YES | ||||||||||||||||||||||||||||||
Vitrification | Cryogen name: ETHANE |
-Electron microscopy imaging
Experimental equipment | Model: Titan Krios / Image courtesy: FEI Company |
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Microscopy | Model: FEI TITAN KRIOS |
Electron gun | Electron source: OTHER / Accelerating voltage: 300 kV / Illumination mode: OTHER |
Electron lens | Mode: OTHER |
Image recording | Electron dose: 55 e/Å2 / Film or detector model: GATAN K3 (6k x 4k) |
-Processing
Software | Name: PHENIX / Version: dev_3951: / Classification: refinement | ||||||||||||||||||||||||
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CTF correction | Type: NONE | ||||||||||||||||||||||||
3D reconstruction | Resolution: 2.8 Å / Resolution method: FSC 0.143 CUT-OFF / Num. of particles: 398038 / Symmetry type: POINT | ||||||||||||||||||||||||
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