RGD Reference Report - Composition of isolated synaptic boutons reveals the amounts of vesicle trafficking proteins. - Rat Genome Database

Send us a Message
Submit Data |  Help |  Video Tutorials |  News |  Publications |  Download |  REST API |  Citing RGD |  Contact   
Search RGD Grant Resources Citing RGD About Us Contact Us
Genes Variants Community Projects QTLs Strains Markers Genome Information Ontologies Cell Lines References Download Submit Data
OntoMate (Literature Search) JBrowse (Genome Browser) Synteny Browser (VCMap) Variant Visualizer Multi-Ontology Enrichment (MOET) Gene-Ortholog Location Finder (GOLF) InterViewer (Protein-Protein Interactions) PhenoMiner (Quatitative Phenotypes) Gene Annotator OLGA (Gene List Generator) AllianceMine GViewer (Genome Viewer)
Aging & Age-Related Disease Cancer & Neoplastic Disease Cardiovascular Disease Coronavirus Disease Developmental Disease Diabetes Hematologic Disease Immune & Inflammatory Disease Infectious Disease Liver Disease Neurological Disease Obesity & Metabolic Syndrome Renal Disease Respiratory Disease Sensory Organ Disease
Find Models Genetic Models Autism Models Rat PhenoMiner (Quantitative Phenotypes) Chinchilla PhenoMiner Expected Ranges (Quantitative Phenotype) PhenoMiner Term Comparison Hybrid Rat Diversity Panel Phenotypes Phenotypes in Other Animal Models Animal Husbandry Strain Medical Records Phylogenetics Strain Availability Calendar Rats 101 Submissions Photo Archive
Pathways
Rat Community Forum Directory of Rat Laboratories Video Tutorials News RGD Publications RGD Presentations Archive Nomenclature Guidelines Resource Links Laboratory Resources Employment Resources
Advanced Search (OLGA)

Composition of isolated synaptic boutons reveals the amounts of vesicle trafficking proteins.

Authors: Wilhelm, BG  Mandad, S  Truckenbrodt, S  Krohnert, K  Schafer, C  Rammner, B  Koo, SJ  Classen, GA  Krauss, M  Haucke, V  Urlaub, H  Rizzoli, SO 
Citation: Wilhelm BG, etal., Science. 2014 May 30;344(6187):1023-8. doi: 10.1126/science.1252884.
RGD ID: 10047219
Pubmed: PMID:24876496   (View Abstract at PubMed)
DOI: DOI:10.1126/science.1252884   (Journal Full-text)

Synaptic vesicle recycling has long served as a model for the general mechanisms of cellular trafficking. We used an integrative approach, combining quantitative immunoblotting and mass spectrometry to determine protein numbers; electron microscopy to measure organelle numbers, sizes, and positions; and super-resolution fluorescence microscopy to localize the proteins. Using these data, we generated a three-dimensional model of an "average" synapse, displaying 300,000 proteins in atomic detail. The copy numbers of proteins involved in the same step of synaptic vesicle recycling correlated closely. In contrast, copy numbers varied over more than three orders of magnitude between steps, from about 150 copies for the endosomal fusion proteins to more than 20,000 for the exocytotic ones.



Gene Ontology Annotations    Click to see Annotation Detail View

Cellular Component

  
Object SymbolSpeciesTermQualifierEvidenceWithNotesSourceOriginal Reference(s)
Vamp1Ratpresynapse is_active_inEXP PMID:24876496SynGO 
Vamp1Ratpresynapse is_active_inIDA PMID:24876496SynGO 
Vamp1Ratpresynapse is_active_inIEP PMID:24876496SynGO 
ArhgdiaRatsynapse is_active_inEXP PMID:24876496SynGO 
ArhgdiaRatsynapse is_active_inIDA PMID:24876496SynGO 
Gdi2Ratsynapse is_active_inEXP PMID:24876496SynGO 
Gdi2Ratsynapse is_active_inIDA PMID:24876496SynGO 
Rab18Ratsynapse is_active_inEXP PMID:24876496SynGO 
Rab18Ratsynapse is_active_inIDA PMID:24876496SynGO 
Rab1aRatsynapse is_active_inEXP PMID:24876496SynGO 
Rab1aRatsynapse is_active_inIDA PMID:24876496SynGO 
Rab1bRatsynapse is_active_inEXP PMID:24876496SynGO 
Rab1bRatsynapse is_active_inIDA PMID:24876496SynGO 
Rab21Ratsynapse is_active_inEXP PMID:24876496SynGO 
Rab21Ratsynapse is_active_inIDA PMID:24876496SynGO 
Rab8aRatsynapse is_active_inEXP PMID:24876496SynGO 
Rab8aRatsynapse is_active_inIDA PMID:24876496SynGO 
AmphRatterminal bouton located_inHDA PMID:24876496ParkinsonsUK-UCL 
Ap2m1Ratterminal bouton located_inHDA PMID:24876496ParkinsonsUK-UCL 
AppRatterminal bouton located_inHDA PMID:24876496ParkinsonsUK-UCL 
Atp6v0a1Ratterminal bouton located_inHDA PMID:24876496ParkinsonsUK-UCL 
Calb1Ratterminal bouton located_inHDA PMID:24876496ParkinsonsUK-UCL 
Calb2Ratterminal bouton located_inHDA PMID:24876496ParkinsonsUK-UCL 
CltcRatterminal bouton located_inHDA PMID:24876496ParkinsonsUK-UCL 
Cplx1Ratterminal bouton located_inHDA PMID:24876496ParkinsonsUK-UCL 
Cplx2Ratterminal bouton located_inHDA PMID:24876496ParkinsonsUK-UCL 
Dnajc5Ratterminal bouton located_inHDA PMID:24876496ParkinsonsUK-UCL 
Epn1Ratterminal bouton located_inHDA PMID:24876496ParkinsonsUK-UCL 
Hspa8Ratterminal bouton located_inHDA PMID:24876496ParkinsonsUK-UCL 
Itsn1Ratterminal bouton located_inHDA PMID:24876496ParkinsonsUK-UCL 
NapaRatterminal bouton located_inHDA PMID:24876496ParkinsonsUK-UCL 
Pacsin1Ratterminal bouton located_inHDA PMID:24876496ParkinsonsUK-UCL 
PvalbRatterminal bouton located_inHDA PMID:24876496ParkinsonsUK-UCL 
Rab5aRatterminal bouton located_inHDA PMID:24876496ParkinsonsUK-UCL 
Rab5al1Ratterminal bouton located_inHDA PMID:24876496ParkinsonsUK-UCL 
Rab7aRatterminal bouton located_inHDA PMID:24876496ParkinsonsUK-UCL 
Scamp1Ratterminal bouton located_inHDA PMID:24876496ParkinsonsUK-UCL 
Septin5Ratterminal bouton located_inHDA PMID:24876496ParkinsonsUK-UCL 
Sgip1Ratterminal bouton located_inHDA PMID:24876496ParkinsonsUK-UCL 
Snap23Ratterminal bouton located_inHDA PMID:24876496ParkinsonsUK-UCL 
Snap25Ratterminal bouton located_inHDA PMID:24876496ParkinsonsUK-UCL 
Snap29Ratterminal bouton located_inHDA PMID:24876496ParkinsonsUK-UCL 
Snap91Ratterminal bouton located_inHDA PMID:24876496ParkinsonsUK-UCL 
SncaRatterminal bouton located_inHDA PMID:24876496ParkinsonsUK-UCL 
SncbRatterminal bouton located_inHDA PMID:24876496ParkinsonsUK-UCL 
Stx6Ratterminal bouton located_inHDA PMID:24876496ParkinsonsUK-UCL 
Stx7Ratterminal bouton located_inHDA PMID:24876496ParkinsonsUK-UCL 
Stxbp1Ratterminal bouton located_inHDA PMID:24876496ParkinsonsUK-UCL 
Sv2aRatterminal bouton located_inHDA PMID:24876496ParkinsonsUK-UCL 
Sv2bRatterminal bouton located_inHDA PMID:24876496ParkinsonsUK-UCL 
Syn1Ratterminal bouton located_inHDA PMID:24876496ParkinsonsUK-UCL 
Syn2Ratterminal bouton located_inHDA PMID:24876496ParkinsonsUK-UCL 
Syngr1Ratterminal bouton located_inHDA PMID:24876496ParkinsonsUK-UCL 
SypRatterminal bouton located_inHDA PMID:24876496ParkinsonsUK-UCL 
Syt1Ratterminal bouton located_inHDA PMID:24876496ParkinsonsUK-UCL 
Syt2Ratterminal bouton located_inHDA PMID:24876496ParkinsonsUK-UCL 
Syt7Ratterminal bouton located_inHDA PMID:24876496ParkinsonsUK-UCL 
Unc13aRatterminal bouton located_inHDA PMID:24876496ParkinsonsUK-UCL 
Vamp1Ratterminal bouton located_inHDA PMID:24876496ParkinsonsUK-UCL 
Vamp2Ratterminal bouton located_inHDA PMID:24876496ParkinsonsUK-UCL 
Vti1aRatterminal bouton located_inHDA PMID:24876496ParkinsonsUK-UCL 

Objects Annotated

Genes (Rattus norvegicus)
Amph  (amphiphysin)
Ap2m1  (adaptor related protein complex 2 subunit mu 1)
App  (amyloid beta precursor protein)
Arhgdia  (Rho GDP dissociation inhibitor alpha)
Atp6v0a1  (ATPase H+ transporting V0 subunit a1)
Calb1  (calbindin 1)
Calb2  (calbindin 2)
Cltc  (clathrin heavy chain)
Cplx1  (complexin 1)
Cplx2  (complexin 2)
Dnajc5  (DnaJ heat shock protein family (Hsp40) member C5)
Epn1  (Epsin 1)
Gdi2  (GDP dissociation inhibitor 2)
Hspa8  (heat shock protein family A (Hsp70) member 8)
Itsn1  (intersectin 1)
Napa  (NSF attachment protein alpha)
Pacsin1  (protein kinase C and casein kinase substrate in neurons 1)
Pvalb  (parvalbumin)
Rab18  (RAB18, member RAS oncogene family)
Rab1a  (RAB1A, member RAS oncogene family)
Rab1b  (RAB1B, member RAS oncogene family)
Rab21  (RAB21, member RAS oncogene family)
Rab5a  (RAB5A, member RAS oncogene family)
Rab5al1  (Rab5a, member RAS oncogene family-like 1)
Rab7a  (RAB7A, member RAS oncogene family)
Rab8a  (RAB8A, member RAS oncogene family)
Scamp1  (secretory carrier membrane protein 1)
Septin5  (septin 5)
Sgip1  (SH3GL interacting endocytic adaptor 1)
Snap23  (synaptosome associated protein 23)
Snap25  (synaptosome associated protein 25)
Snap29  (synaptosome associated protein 29)
Snap91  (synaptosome associated protein 91)
Snca  (synuclein alpha)
Sncb  (synuclein, beta)
Stx6  (syntaxin 6)
Stx7  (syntaxin 7)
Stxbp1  (syntaxin binding protein 1)
Sv2a  (synaptic vesicle glycoprotein 2a)
Sv2b  (synaptic vesicle glycoprotein 2b)
Syn1  (synapsin I)
Syn2  (synapsin II)
Syngr1  (synaptogyrin 1)
Syp  (synaptophysin)
Syt1  (synaptotagmin 1)
Syt2  (synaptotagmin 2)
Syt7  (synaptotagmin 7)
Unc13a  (unc-13 homolog A)
Vamp1  (vesicle-associated membrane protein 1)
Vamp2  (vesicle-associated membrane protein 2)
Vti1a  (vesicle transport through interaction with t-SNAREs 1A)


Additional Information