scholarly journals Multivariate proteomic profiling identifies novel accessory proteins of coated vesicles

2012 ◽  
Vol 197 (1) ◽  
pp. 141-160 ◽  
Author(s):  
Georg H.H. Borner ◽  
Robin Antrobus ◽  
Jennifer Hirst ◽  
Gary S. Bhumbra ◽  
Patrycja Kozik ◽  
...  
Keyword(s):  
Mass Spectrometry ◽  
Isotope Labeling ◽  
Principal Component ◽  
Coated Vesicles ◽  
Coated Vesicle ◽  
Coat Proteins ◽  
Proteomic Profiling ◽  
Transport Vesicles ◽  
Associated Proteins ◽  
Sirna Knockdown

Despite recent advances in mass spectrometry, proteomic characterization of transport vesicles remains challenging. Here, we describe a multivariate proteomics approach to analyzing clathrin-coated vesicles (CCVs) from HeLa cells. siRNA knockdown of coat components and different fractionation protocols were used to obtain modified coated vesicle-enriched fractions, which were compared by stable isotope labeling of amino acids in cell culture (SILAC)-based quantitative mass spectrometry. 10 datasets were combined through principal component analysis into a “profiling” cluster analysis. Overall, 136 CCV-associated proteins were predicted, including 36 new proteins. The method identified >93% of established CCV coat proteins and assigned >91% correctly to intracellular or endocytic CCVs. Furthermore, the profiling analysis extends to less well characterized types of coated vesicles, and we identify and characterize the first AP-4 accessory protein, which we have named tepsin. Finally, our data explain how sequestration of TACC3 in cytosolic clathrin cages causes the severe mitotic defects observed in auxilin-depleted cells. The profiling approach can be adapted to address related cell and systems biological questions.

scholarly journals Auxilin, a newly identified clathrin-associated protein in coated vesicles from bovine brain.

1990 ◽  
Vol 111 (1) ◽  
pp. 19-29 ◽  
Author(s):  
S Ahle ◽  
E Ungewickell
Keyword(s):  
Gel Filtration ◽  
Bovine Brain ◽  
Single Step ◽  
Coated Vesicles ◽  
Coated Vesicle ◽  
Coat Proteins ◽  
Standard Type ◽  
Sds Page ◽  
Associated Proteins ◽  
Antigenic Reactivity

We have identified a new coat protein in clathrin-coated vesicles from bovine brain by urea-SDS gel electrophoresis. The protein was purified from Tris-solubilized coat proteins either by combination of hydroxyapatite chromatography and gel filtration or more rapidly in a single step by immunoaffinity chromatography. The purified protein binds to clathrin triskelia and thereby promotes clathrin assembly into regular 50-100-nm cages. We propose for the new protein the name auxilin (Latin auxilium, meaning support). Auxilin migrates as a 110-kD polypeptide in standard type SDS-PAGE, but in the presence of 6 M urea shifts to a position corresponding to 126 kD. Gel filtration in 6 M guanidinium hydrochloride gives a molecular weight of approximately 86,000. The native protein is monomeric in 0.5 M Tris. Antigenic reactivity and two-dimensional peptide maps gave no evidence of gross similarities between auxilin and any of the other known coated vesicle-associated proteins. Since the structural organization of auxilin does not resemble that of the ubiquitous heterotetrameric HA1 and HA2 adaptor complexes, that are believed to connect clathrin to receptors, it is unlikely that it functions as an adaptor. Immunoblotting did not reveal the presence of auxilin in tissues other than brain. If auxilin and AP 180 are indeed both confined to neuronal cells, as the immunochemical evidence suggests, it might be inferred that both serve to adapt clathrin-coated vesicles to an as yet undisclosed function unique to this cell type.

scholarly journals SEC16A is a RAB10 effector required for insulin-stimulated GLUT4 trafficking in adipocytes

2016 ◽  
Vol 214 (1) ◽  
pp. 61-76 ◽  
Author(s):  
Joanne Bruno ◽  
Alexandria Brumfield ◽  
Natasha Chaudhary ◽  
David Iaea ◽  
Timothy E. McGraw
Keyword(s):  
Glucose Transporter ◽  
Whole Body ◽  
Site Formation ◽  
Coated Vesicle ◽  
Coat Proteins ◽  
Insulin Stimulation ◽  
Exit Site ◽  
Recycling Endosome ◽  
Transport Vesicles ◽  
Intracellular Compartments

RAB10 is a regulator of insulin-stimulated translocation of the GLUT4 glucose transporter to the plasma membrane (PM) of adipocytes, which is essential for whole-body glucose homeostasis. We establish SEC16A as a novel RAB10 effector in this process. Colocalization of SEC16A with RAB10 is augmented by insulin stimulation, and SEC16A knockdown attenuates insulin-induced GLUT4 translocation, phenocopying RAB10 knockdown. We show that SEC16A and RAB10 promote insulin-stimulated mobilization of GLUT4 from a perinuclear recycling endosome/TGN compartment. We propose RAB10–SEC16A functions to accelerate formation of the vesicles that ferry GLUT4 to the PM during insulin stimulation. Because GLUT4 continually cycles between the PM and intracellular compartments, the maintenance of elevated cell-surface GLUT4 in the presence of insulin requires accelerated biogenesis of the specialized GLUT4 transport vesicles. The function of SEC16A in GLUT4 trafficking is independent of its previously characterized activity in ER exit site formation and therefore independent of canonical COPII-coated vesicle function. However, our data support a role for SEC23A, but not the other COPII components SEC13, SEC23B, and SEC31, in the insulin stimulation of GLUT4 trafficking, suggesting that vesicles derived from subcomplexes of COPII coat proteins have a role in the specialized trafficking of GLUT4.

scholarly journals Cloning of cDNAs encoding two related 100-kD coated vesicle proteins (alpha-adaptins).

1989 ◽  
Vol 108 (3) ◽  
pp. 833-842 ◽  
Author(s):  
M S Robinson
Keyword(s):  
Amino Acids ◽  
Mouse Brain ◽  
Southern Blotting ◽  
Protein Sequences ◽  
Coated Vesicles ◽  
Coated Vesicle ◽  
Coat Proteins ◽  
Cell Type ◽  
Brain Cdna Library

Coat proteins of approximately 100-kD (adaptins) are components of the adaptor complexes which link clathrin to receptors in coated vesicles. The alpha-adaptins, which are found exclusively in endocytic coated vesicles, separate into two bands on SDS gels, designated A and C (Robinson, M. S., 1987. J. Cell Biol. 104:887-895). Two distinct cDNAs (sequences 1 and 2) encoding the two alpha-adaptins were cloned from a mouse brain cDNA library. Southern blotting indicates that there is one copy of each of the two alpha-adaptin genes, and that there are no additional closely related genes. Based on the size of the predicted protein products of the two genes (108 and 104 kD), the relative abundance of the two messages in brain and liver, and the reactivity of a sequence 1 fusion protein with different antibodies, it was possible to conclude that sequence 1 codes for A and sequence 2 for C. The two protein sequences are strikingly homologous to each other (84% identical amino acids), the major difference being an additional stretch of 41 amino acids, rich in prolines and acidic residues, inserted into the COOH-terminal half of A. In situ hybridization carried out on mouse brain sections indicates that the same cell type may express both transcripts, but that their relative expressions vary. Antipeptide antibodies are now being raised to find out whether the proteins are localized in functionally distinct populations of endocytic coated vesicles.

scholarly journals ADP-ribosylation factor and coatomer couple fusion to vesicle budding

1994 ◽  
Vol 124 (4) ◽  
pp. 415-424 ◽  
Author(s):  
Z Elazar ◽  
L Orci ◽  
J Ostermann ◽  
M Amherdt ◽  
G Tanigawa ◽  
...  
Keyword(s):  
Brefeldin A ◽  
Retrograde Transport ◽  
Coated Vesicles ◽  
Coat Proteins ◽  
Vesicle Budding ◽  
Adp Ribosylation ◽  
Golgi Membranes ◽  
Transport Vesicles ◽  
Donor And Acceptor ◽  
Adp Ribosylation Factor

The coat proteins required for budding COP-coated vesicles from Golgi membranes, coatomer and ADP-ribosylation factor (ARF) protein, are shown to be required to reconstitute the orderly process of transport between Golgi cisternae in which fusion of transport vesicles begins only after budding ends. When either coat protein is omitted, fusion is uncoupled from budding-donor and acceptor compartments pair directly without an intervening vesicle. Coupling may therefore results from the sequestration of fusogenic membrane proteins into assembling coated vesicles that are only exposed when the coat is removed after budding is complete. This mechanism of coupling explains the phenomenon of "retrograde transport" triggered by uncouplers such as the drug brefeldin A.

A membrane-associated protein complex with selective binding to the clathrin coat adaptor AP1

1996 ◽  
Vol 109 (13) ◽  
pp. 3059-3068 ◽  
Author(s):  
W.G. Mallet ◽  
F.M. Brodsky
Keyword(s):  
Protein Complex ◽  
Binding Proteins ◽  
Gel Filtration ◽  
Coated Vesicles ◽  
Coated Vesicle ◽  
Vesicle Budding ◽  
Associated Proteins ◽  
Affinity Resin ◽  
High Concentrations ◽  
Golgi Network

Adaptors are the membrane-binding components of clathrin-coated vesicles. The interaction of the trans-Golgi coat adaptor AP1 with membrane-associated proteins was analyzed by affinity chromatography. Proteins of 83 and 52 kDa bound specifically to the core domain of AP1 and showed no interaction with AP2 or other clathrin-coated vesicle proteins. The AP1-binding proteins were tightly membrane-associated, though behaved as peripheral membrane proteins. They were detected in membranes depleted of clathrin-coated vesicles and not in coated vesicles, suggesting that the interaction of these proteins with AP1 may precede coated vesicle budding. Co-fractionation of the AP1-binding proteins with trans-Golgi network membrane was also observed. Upon gel filtration, both AP1-binding proteins eluted in a high molecular mass complex which was labile at high concentrations of Tris. The 83 kDa protein bound to AP1 affinity resin in the absence of the 52 kDa protein. In contrast, the separated 52 kDa protein did not bind AP1, suggesting that the 83 kDa protein is the AP1-binding component of the complex. Characterization of this protein complex defines a novel membrane-associated component that specifically interacts with AP1 and may contribute to its function in forming clathrin-coated vesicles.

scholarly journals Brain clathrin and clathrin-associated proteins.

1982 ◽  
Vol 201 (2) ◽  
pp. 297-304 ◽  
Author(s):  
M P Lisanti ◽  
W Schook ◽  
N Moskowitz ◽  
C Ores ◽  
S Puszkin
Keyword(s):  
Cerebral Cortex ◽  
Limited Proteolysis ◽  
Coated Vesicles ◽  
Coated Vesicle ◽  
Lattice Structures ◽  
Latex Particles ◽  
Associated Proteins ◽  
Sepharose 4B

The assembly of clathrin into baskets or cages in vitro may depend on formation of complex between clathrin and a polypeptide doublet migrating in the 30000-mol.wt. region. Clathrin with several associated proteins was isolated from coated-vesicle fractions of bovine cerebral cortex. Most associated proteins were separated by Sepharose 4B column chromatograhy. The eluted clathrin retained only the 30000-mol.wt. doublet and assembled into baskets at pH 6.5. Limited proteolysis of coated vesicles or clathrin assembled as baskets removed these clathrin-associated proteins (CAPs) without detectably altering clathrin. Enzyme-treated clathrin assembled into open-lattice structures but no longer formed baskets in vitro. Latex particles with bound enzyme cleaved the CAPs from coated vesicles and clathrin baskets, suggesting that the CAPs protrude from the exterior of the clathrin lattice.

scholarly journals Application of SWATH mass spectrometry in the identification of circulating proteins does not predict future weight gain in early psychosis

2020 ◽  
Vol 17 (1) ◽  
Author(s):  
Adrian Heald ◽  
Narges Azadbakht ◽  
Bethany Geary ◽  
Silke Conen ◽  
Helene Fachim ◽  
...  
Keyword(s):  
Mass Spectrometry ◽  
Weight Gain ◽  
Weight Change ◽  
Principal Component ◽  
Early Psychosis ◽  
Pharmacological Intervention ◽  
Proteomic Profiling ◽  
Proteomics Data ◽  
Poor Treatment ◽  
Using Data

Abstract Weight gain is a common consequence of treatment with antipsychotic drugs in early psychosis, leading to further morbidity and poor treatment adherence. Identifying tools that can predict weight change in early psychosis may contribute to better-individualised treatment and adherence. Recently we showed that proteomic profiling with sequential window acquisition of all theoretical fragment ion spectra (SWATH) mass spectrometry (MS) can identify individuals with pre-diabetes more likely to experience weight change in relation to lifestyle change. We investigated whether baseline proteomic profiles predicted weight change over time using data from the BeneMin clinical trial of the anti-inflammatory antibiotic, minocycline, versus placebo. Expression levels for 844 proteins were determined by SWATH proteomics in 83 people (60 men and 23 women). Hierarchical clustering analysis and principal component analysis of baseline proteomics data did not reveal distinct separation between the proteome profiles of participants in different weight change categories. However, individuals with the highest weight loss had higher Positive and Negative Syndrome Scale (PANSS) scores. Our findings imply that mode of treatment i.e. the pharmacological intervention for psychosis may be the determining factor in weight change after diagnosis, rather than predisposing proteomic dynamics.

scholarly journals Core Proteome and Architecture of COPI Vesicles

2018 ◽  
Author(s):  
Manuel Rhiel ◽  
Bernd Hessling ◽  
Qi Gao ◽  
Andrea Hellwig ◽  
Frank Adolf ◽  
...  
Keyword(s):  
Isotope Labeling ◽  
Protein Composition ◽  
Small Gtpase ◽  
Coated Vesicles ◽  
Coat Proteins ◽  
Intact Cells ◽  
Core Proteome ◽  
A Minor ◽  
Almost All

AbstractRetrieval of escaped ER-residents and intra-Golgi transport is facilitated by coat protein complex I (COPI)-coated vesicles. Their formation requires the activated small GTPase ADP-ribosylation factor (Arf) and the coat complex coatomer. Here we assess the protein composition of COPI vesicles by combining stable isotope labeling with amino acids in cell culture (SILAC) with in vitro reconstitution of COPI vesicles from semi-intact cells (SIC) using the minimal set of recombinant coat proteins. This approach yields an unbiased picture of the proteome of these carriers. We define a set of ~40 proteins common to COPI vesicles produced from different human as well as murine cell lines. Almost all bona fide COPI vesicle proteins are either ER-Golgi cycling proteins or Golgi-residents, while only a minor portion of secreted proteins was found. Moreover, we have investigated a putative role of γ- and ζ-COP as well as Arf isoforms in sorting and recruitment of specific proteins into COPI vesicles. As opposed to the related COPII system, all isoforms of coatomer and all COPI-forming isoforms of the small GTPase Arf produce COPI-coated vesicles with strikingly similar protein compositions. We present a model for the core architecture of COPI vesicles.

scholarly journals A novel adaptor-related protein complex.

1996 ◽  
Vol 133 (4) ◽  
pp. 749-760 ◽  
Author(s):  
F Simpson ◽  
N A Bright ◽  
M A West ◽  
L S Newman ◽  
R B Darnell ◽  
...  
Keyword(s):  
Plasma Membrane ◽  
Primary Cultures ◽  
Brefeldin A ◽  
Coated Vesicles ◽  
Membrane Association ◽  
Coat Proteins ◽  
Transport Vesicles ◽  
New Type ◽  
A Subunit ◽  
Gamma S

Coat proteins are required for the budding of the transport vesicles that mediate membrane traffic pathways, but for many pathways such proteins pathways, but for many pathways such proteins have not yet been identified. We have raised antibodies against p47, a homologue of the medium chains of the adaptor complexes of clathrin-coated vesicles (Pevsner, J., W. Volknandt, B.R. Wong, and R.H. Scheller. 1994. Gene (Amst.). 146:279-283), to determine whether this protein might be a component of a new type of coat. p47 coimmunoprecipitates with three other proteins: two unknown proteins of 160 and 25 kD, and beta-NAP, a homologue of the beta/beta'-adaptins, indicating that it is a subunit of an adaptor-like heterotetrameric complex. However, p47 is not enriched in preparations of clathrin-coated vesicles. Recruitment of the p47-containing complex onto cell membranes is stimulated by GTP gamma S and blocked by brefeldin A, indicating that, like other coat proteins, its membrane association is regulated by an ARF. The newly recruited complex is localized to non-clathrin-coated buds and vesicles associated with the TGN. Endogenous complex in primary cultures of neuronal cells is also localized to the TGN, and in addition, some complex is associated with the plasma membrane. These results indicate that the complex is a component of a novel type of coat that facilitates the budding of vesicles from the TGN, possibly for transporting newly synthesized proteins to the plasma membrane.

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