+Open data
-Basic information
Entry | Database: EMDB / ID: EMD-37849 | |||||||||
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Title | Cryo-EM structure of CB1-beta-arrestin1 complex | |||||||||
Map data | ||||||||||
Sample |
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Keywords | cannabinoid receptor / arrestin / biased signal / class A GPCR / MEMBRANE PROTEIN | |||||||||
Function / homology | Function and homology information renal water retention / Defective AVP does not bind AVPR2 and causes neurohypophyseal diabetes insipidus (NDI) / MAP2K and MAPK activation / Vasopressin-like receptors / cannabinoid signaling pathway / regulation of penile erection / regulation of systemic arterial blood pressure by vasopressin / vasopressin receptor activity / Activation of SMO / retrograde trans-synaptic signaling by endocannabinoid ...renal water retention / Defective AVP does not bind AVPR2 and causes neurohypophyseal diabetes insipidus (NDI) / MAP2K and MAPK activation / Vasopressin-like receptors / cannabinoid signaling pathway / regulation of penile erection / regulation of systemic arterial blood pressure by vasopressin / vasopressin receptor activity / Activation of SMO / retrograde trans-synaptic signaling by endocannabinoid / Golgi Associated Vesicle Biogenesis / cannabinoid receptor activity / Lysosome Vesicle Biogenesis / negative regulation of mast cell activation / trans-synaptic signaling by endocannabinoid, modulating synaptic transmission / AP-2 adaptor complex binding / negative regulation of fatty acid beta-oxidation / clathrin heavy chain binding / Ub-specific processing proteases / negative regulation of dopamine secretion / clathrin coat of coated pit / positive regulation of acute inflammatory response to antigenic stimulus / negative regulation of serotonin secretion / regulation of feeding behavior / hemostasis / regulation of presynaptic cytosolic calcium ion concentration / desensitization of G protein-coupled receptor signaling pathway / positive regulation of systemic arterial blood pressure / telencephalon development / Cargo recognition for clathrin-mediated endocytosis / negative regulation of action potential / inositol hexakisphosphate binding / Class A/1 (Rhodopsin-like receptors) / Clathrin-mediated endocytosis / clathrin-dependent endocytosis / positive regulation of blood pressure / positive regulation of fever generation / G protein-coupled receptor internalization / regulation of metabolic process / acetylcholine receptor binding / axonal fasciculation / Thrombin signalling through proteinase activated receptors (PARs) / positive regulation of intracellular signal transduction / G alpha (s) signalling events / regulation of synaptic transmission, GABAergic / clathrin binding / negative regulation of Notch signaling pathway / small molecule binding / pseudopodium / phosphatidylinositol-3,4,5-trisphosphate binding / regulation of insulin secretion / positive regulation of receptor internalization / positive regulation of vasoconstriction / G protein-coupled receptor signaling pathway, coupled to cyclic nucleotide second messenger / endocytic vesicle / GABA-ergic synapse / maternal process involved in female pregnancy / activation of adenylate cyclase activity / response to nutrient / cellular response to hormone stimulus / regulation of synaptic transmission, glutamatergic / visual perception / negative regulation of blood pressure / peptide binding / clathrin-coated endocytic vesicle membrane / response to cocaine / response to cytokine / G protein-coupled receptor binding / G protein-coupled receptor activity / response to nicotine / adenylate cyclase-modulating G protein-coupled receptor signaling pathway / adenylate cyclase-activating G protein-coupled receptor signaling pathway / receptor internalization / memory / positive regulation of neuron projection development / Vasopressin regulates renal water homeostasis via Aquaporins / Cargo recognition for clathrin-mediated endocytosis / glucose homeostasis / Clathrin-mediated endocytosis / actin cytoskeleton / protein transport / presynaptic membrane / G alpha (i) signalling events / growth cone / cytoplasmic vesicle / ubiquitin-dependent protein catabolic process / G alpha (s) signalling events / spermatogenesis / response to ethanol / mitochondrial outer membrane / response to lipopolysaccharide / positive regulation of ERK1 and ERK2 cascade / endosome / molecular adaptor activity / positive regulation of protein phosphorylation / membrane raft / positive regulation of apoptotic process / G protein-coupled receptor signaling pathway / negative regulation of cell population proliferation / positive regulation of cell population proliferation Similarity search - Function | |||||||||
Biological species | Bos taurus (cattle) / Homo sapiens (human) | |||||||||
Method | single particle reconstruction / cryo EM / Resolution: 3.2 Å | |||||||||
Authors | Liao Y / Zhang H / Shen Q / Cai C | |||||||||
Funding support | China, 1 items
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Citation | Journal: to be published Title: Cryo-EM structure of CB1-beta-arrestin1 complex Authors: Liao Y / Zhang H / Shen Q / Cai C | |||||||||
History |
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-Structure visualization
Supplemental images |
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-Downloads & links
-EMDB archive
Map data | emd_37849.map.gz | 59.5 MB | EMDB map data format | |
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Header (meta data) | emd-37849-v30.xml emd-37849.xml | 17 KB 17 KB | Display Display | EMDB header |
Images | emd_37849.png | 55.6 KB | ||
Filedesc metadata | emd-37849.cif.gz | 6.3 KB | ||
Others | emd_37849_half_map_1.map.gz emd_37849_half_map_2.map.gz | 39.7 MB 49.7 MB | ||
Archive directory | http://ftp.pdbj.org/pub/emdb/structures/EMD-37849 ftp://ftp.pdbj.org/pub/emdb/structures/EMD-37849 | HTTPS FTP |
-Related structure data
Related structure data | 8wu1MC 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_37849.map.gz / Format: CCP4 / Size: 64 MB / Type: IMAGE STORED AS FLOATING POINT NUMBER (4 BYTES) | ||||||||||||||||||||
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Voxel size | X=Y=Z: 0.93 Å | ||||||||||||||||||||
Density |
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Symmetry | Space group: 1 | ||||||||||||||||||||
Details | EMDB XML:
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-Supplemental data
-Half map: #2
File | emd_37849_half_map_1.map | ||||||||||||
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Projections & Slices |
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Density Histograms |
-Half map: #1
File | emd_37849_half_map_2.map | ||||||||||||
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Projections & Slices |
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Density Histograms |
-Sample components
-Entire : Cryo-EM structure of human cannabinoid receptor 1 with effector p...
Entire | Name: Cryo-EM structure of human cannabinoid receptor 1 with effector protein |
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Components |
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-Supramolecule #1: Cryo-EM structure of human cannabinoid receptor 1 with effector p...
Supramolecule | Name: Cryo-EM structure of human cannabinoid receptor 1 with effector protein type: complex / ID: 1 / Parent: 0 / Macromolecule list: #1-#4 Details: MDMB-Fubinaca, cannabinoid receptor 1, arrestin2, Fab30 |
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Source (natural) | Organism: Bos taurus (cattle) |
-Macromolecule #1: Beta-arrestin-1
Macromolecule | Name: Beta-arrestin-1 / type: protein_or_peptide / ID: 1 / Number of copies: 1 / Enantiomer: LEVO |
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Source (natural) | Organism: Bos taurus (cattle) |
Molecular weight | Theoretical: 44.135273 KDa |
Recombinant expression | Organism: Spodoptera frugiperda (fall armyworm) |
Sequence | String: MGDKGTRVFK KASPNGKLTV YLGKRDFVDH IDLVEPVDGV VLVDPEYLKE RRVYVTLTCA FRYGREDLDV LGLTFRKDLF VANVQSFPP APEDKKPLTR LQERLIKKLG EHAYPFTFEI PPNLPCSVTL QPGPEDTGKA CGVDYEVKAF CAENLEEKIH K RNSVRLVI ...String: MGDKGTRVFK KASPNGKLTV YLGKRDFVDH IDLVEPVDGV VLVDPEYLKE RRVYVTLTCA FRYGREDLDV LGLTFRKDLF VANVQSFPP APEDKKPLTR LQERLIKKLG EHAYPFTFEI PPNLPCSVTL QPGPEDTGKA CGVDYEVKAF CAENLEEKIH K RNSVRLVI EKVQYAPERP GPQPTAETTR QFLMSDKPLH LEASLDKEIY YHGEPISVNV HVTNNTNKTV KKIKISVRQY AD ICLFNTA QYKCPVAMEE ADDTVAPSST FCKVYTLTPF LANNREKRGL ALDGKLKHED TNLASSTLLR EGANREILGI IVS YKVKVK LVVSRGGLLG DLASSDVAVE LPFTLMHPKP KEEPPHREVP EHETPVDTNL IELDTNDDDA AAEDFAR UniProtKB: Beta-arrestin-1 |
-Macromolecule #2: Fab30 heavy chain
Macromolecule | Name: Fab30 heavy chain / type: protein_or_peptide / ID: 2 / Number of copies: 1 / Enantiomer: LEVO |
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Source (natural) | Organism: Homo sapiens (human) |
Molecular weight | Theoretical: 25.650502 KDa |
Recombinant expression | Organism: Escherichia coli BL21(DE3) (bacteria) |
Sequence | String: EISEVQLVES GGGLVQPGGS LRLSCAASGF NVYSSSIHWV RQAPGKGLEW VASISSYYGY TYYADSVKGR FTISADTSKN TAYLQMNSL RAEDTAVYYC ARSRQFWYSG LDYWGQGTLV TVSSASTKGP SVFPLAPSSK STSGGTAALG CLVKDYFPEP V TVSWNSGA ...String: EISEVQLVES GGGLVQPGGS LRLSCAASGF NVYSSSIHWV RQAPGKGLEW VASISSYYGY TYYADSVKGR FTISADTSKN TAYLQMNSL RAEDTAVYYC ARSRQFWYSG LDYWGQGTLV TVSSASTKGP SVFPLAPSSK STSGGTAALG CLVKDYFPEP V TVSWNSGA LTSGVHTFPA VLQSSGLYSL SSVVTVPSSS LGTQTYICNV NHKPSNTKVD KKVEPKSCDK THHHHHHHHH |
-Macromolecule #3: Fab30 light chain
Macromolecule | Name: Fab30 light chain / type: protein_or_peptide / ID: 3 / Number of copies: 1 / Enantiomer: LEVO |
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Source (natural) | Organism: Homo sapiens (human) |
Molecular weight | Theoretical: 23.435064 KDa |
Recombinant expression | Organism: Escherichia coli BL21(DE3) (bacteria) |
Sequence | String: SDIQMTQSPS SLSASVGDRV TITCRASQSV SSAVAWYQQK PGKAPKLLIY SASSLYSGVP SRFSGSRSGT DFTLTISSLQ PEDFATYYC QQYKYVPVTF GQGTKVEIKR TVAAPSVFIF PPSDSQLKSG TASVVCLLNN FYPREAKVQW KVDNALQSGN S QESVTEQD ...String: SDIQMTQSPS SLSASVGDRV TITCRASQSV SSAVAWYQQK PGKAPKLLIY SASSLYSGVP SRFSGSRSGT DFTLTISSLQ PEDFATYYC QQYKYVPVTF GQGTKVEIKR TVAAPSVFIF PPSDSQLKSG TASVVCLLNN FYPREAKVQW KVDNALQSGN S QESVTEQD SKDSTYSLSS TLTLSKADYE KHKVYACEVT HQGLSSPVTK SFNRGEC |
-Macromolecule #4: Cannabinoid receptor 1,Vasopressin V2 receptor
Macromolecule | Name: Cannabinoid receptor 1,Vasopressin V2 receptor / type: protein_or_peptide / ID: 4 / Number of copies: 1 / Enantiomer: LEVO |
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Source (natural) | Organism: Homo sapiens (human) |
Molecular weight | Theoretical: 50.310129 KDa |
Recombinant expression | Organism: Spodoptera frugiperda (fall armyworm) |
Sequence | String: MKSILDGLAD TTFRTITTDL LYVGSNDIQY EDIKGDMASK LGYFPQKFPL TSFRGSPFQE KMTAGDNPQL VPADQVNITE FYNKSLSSF KENEENIQCG ENFMDIECFM VLNPSQQLAI AVLSLTLGTF TVLENLLVLC VILHSRSLRC RPSYHFIGSL A VADLLGSV ...String: MKSILDGLAD TTFRTITTDL LYVGSNDIQY EDIKGDMASK LGYFPQKFPL TSFRGSPFQE KMTAGDNPQL VPADQVNITE FYNKSLSSF KENEENIQCG ENFMDIECFM VLNPSQQLAI AVLSLTLGTF TVLENLLVLC VILHSRSLRC RPSYHFIGSL A VADLLGSV IFVYSFIDFH VFHRKDSRNV FLFKLGGVTA SFTASVGSLF LTAIDRYISI HRPLAYKRIV TRPKAVVAFC LM WTIAIVI AVLPLLGWNC EKLQSVCSDI FPHIDETYLM FWIGVTSVLL LFIVYAYMYI LWKAHSHAVR MIQRGTQKSI IIH TSEDGK VQVTRPDQAR MDIRLAKTLV LILVVLIICW GPLLAIMVYD VFGKMNKLIK TVFAFCSMLC LLNSTVNPII YALR SKDLR HAFRSMFPCA RGRTPPSLGP QDE(SEP)C(TPO)(TPO)A(SEP)(SEP) (SEP)LAKDTSS UniProtKB: Cannabinoid receptor 1, Vasopressin V2 receptor |
-Macromolecule #5: methyl N-{1-[(4-fluorophenyl)methyl]-1H-indazole-3-carbonyl}-3-me...
Macromolecule | Name: methyl N-{1-[(4-fluorophenyl)methyl]-1H-indazole-3-carbonyl}-3-methyl-L-valinate type: ligand / ID: 5 / Number of copies: 1 / Formula: KCA |
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Molecular weight | Theoretical: 397.443 Da |
Chemical component information | ChemComp-KCA: |
-Experimental details
-Structure determination
Method | cryo EM |
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Processing | single particle reconstruction |
Aggregation state | particle |
-Sample preparation
Concentration | 5 mg/mL |
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Buffer | pH: 7.5 |
Vitrification | Cryogen name: ETHANE |
-Electron microscopy
Microscope | FEI TITAN KRIOS |
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Image recording | Film or detector model: FEI FALCON IV (4k x 4k) / Average electron dose: 52.0 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: 5.0 µm / Nominal defocus min: 1.2 µm |
Experimental equipment | Model: Titan Krios / Image courtesy: FEI Company |
-Image processing
Startup model | Type of model: NONE |
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Final reconstruction | Resolution.type: BY AUTHOR / Resolution: 3.2 Å / Resolution method: FSC 0.143 CUT-OFF / Number images used: 110196 |
Initial angle assignment | Type: RANDOM ASSIGNMENT |
Final angle assignment | Type: MAXIMUM LIKELIHOOD |