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1.
J Pept Sci ; 20(1): 7-19, 2014 Jan.
Article in English | MEDLINE | ID: mdl-24222478

ABSTRACT

Neuromedin U (NMU) is an endogenous peptide implicated in the regulation of feeding, energy homeostasis, and glycemic control, which is being considered for the therapy of obesity and diabetes. A key liability of NMU as a therapeutic is its very short half-life in vivo. We show here that conjugation of NMU to human serum albumin (HSA) yields a compound with long circulatory half-life, which maintains full potency at both the peripheral and central NMU receptors. Initial attempts to conjugate NMU via the prevalent strategy of reacting a maleimide derivative of the peptide with the free thiol of Cys34 of HSA met with limited success, because the resulting conjugate was unstable in vivo. Use of a haloacetyl derivative of the peptide led instead to the formation of a metabolically stable conjugate. HSA-NMU displayed long-lasting, potent anorectic, and glucose-normalizing activity. When compared side by side with a previously described PEG conjugate, HSA-NMU proved superior on a molar basis. Collectively, our results reinforce the notion that NMU-based therapeutics are promising candidates for the treatment of obesity and diabetes.


Subject(s)
Anti-Obesity Agents/chemical synthesis , Hypoglycemic Agents/chemical synthesis , Neuropeptides/chemical synthesis , Neuropeptides/pharmacology , Polyethylene Glycols/pharmacology , Serum Albumin/chemical synthesis , Animals , Anti-Obesity Agents/pharmacokinetics , Anti-Obesity Agents/pharmacology , Blood Glucose , Cell Line , Drug Evaluation, Preclinical , Humans , Hypoglycemic Agents/pharmacokinetics , Hypoglycemic Agents/pharmacology , Male , Mice , Mice, Inbred C57BL , Neuropeptides/pharmacokinetics , Polyethylene Glycols/pharmacokinetics , Receptors, Neurotransmitter/agonists , Serum Albumin/pharmacokinetics , Serum Albumin/pharmacology , Serum Albumin, Human , Weight Loss/drug effects
2.
J Biol Chem ; 285(51): 40135-47, 2010 Dec 17.
Article in English | MEDLINE | ID: mdl-20929859

ABSTRACT

Wnt/LRP5 signaling is a central regulatory component of bone formative and resorptive activities, and the pathway inhibitor DKK1 is a suppressor of bone formation and bone mass accrual in mice. In addition, augmented DKK1 levels are associated with high bone turnover in diverse low bone mass states in rodent models and disease etiologies in human. However, examination of the precise role of DKK1 in the normal skeleton and in higher species requires the development of refined DKK1-specific pharmacological tools. Here, we report the strategy resulting in isolation of a panel of fully human anti-DKK1 antibodies applicable to studies interrogating the roles of mouse, rhesus, and human DKK1. Selected anti-DKK1 antibodies bind primate and human DKK-1 with picomolar affinities yet do not appreciably bind to DKK2 or DKK4. Epitopes mapped within the DKK1 C-terminal domain necessary for interaction with LRP5/6 and consequently effectively neutralized DKK1 function in vitro. When introduced into naĆÆve normal growing female mice, IgGs significantly improved trabecular bone volume and structure and increased both trabecular and cortical bone mineral densities in a dose-related fashion. Furthermore, fully human DKK1-IgG displayed favorable pharmacokinetic parameters in non-human primates. In summary, we demonstrate here a rate-limiting function of physiologic DKK1 levels in the regulation of bone mass in intact female mice, amendable to specific pharmacologic neutralization by newly identified DKK1-IgGs. Importantly the fully human IgGs display a profile of attributes that recommends their testing in higher species and their use in evaluating DKK1 function in relevant disease models.


Subject(s)
Antibodies, Monoclonal/pharmacology , Antibodies, Neutralizing/pharmacology , Antibody Specificity , Bone Density/drug effects , Intercellular Signaling Peptides and Proteins/metabolism , Animals , Antibodies, Monoclonal/immunology , Antibodies, Neutralizing/immunology , Bone Density/immunology , Bone Diseases/drug therapy , Bone Diseases/immunology , Bone Diseases/metabolism , Dose-Response Relationship, Drug , Female , Humans , Intercellular Signaling Peptides and Proteins/immunology , LDL-Receptor Related Proteins/immunology , LDL-Receptor Related Proteins/metabolism , Low Density Lipoprotein Receptor-Related Protein-5 , Low Density Lipoprotein Receptor-Related Protein-6 , Macaca fascicularis , Macaca mulatta , Mice , Osteogenesis/drug effects , Osteogenesis/immunology
3.
Biochim Biophys Acta ; 1783(2): 334-44, 2008 Feb.
Article in English | MEDLINE | ID: mdl-18078820

ABSTRACT

Phosphatase of Regenerating Liver-3 (PRL-3) is a small protein tyrosine phosphatase considered an appealing therapeutic cancer target due to its involvement in metastatic progression. However, despite its importance, the direct molecular targets of PRL-3 action are not yet known. Here we report the identification of Ezrin as a specific and direct cellular substrate of PRL-3. In HCT116 colon cancer cell line, Ezrin was identified among the cellular proteins whose phosphorylation level decreased upon ectopic over-expression of wtPRL-3 but not of catalytically inactive PRL-3 mutants. Although PRL-3 over-expression in HCT116 cells appeared to affect Ezrin phosphorylation status at both tyrosine residues and Thr567, suppression of the endogenous protein by RNA interference pointed to Ezrin-Thr567 as the residue primarily affected by PRL-3 action. In vitro dephosphorylation assays suggested Ezrin-Thr567 as a direct substrate of PRL-3 also proving this enzyme as belonging to the dual specificity phosphatase family. Furthermore, the same effect on levels of pThr567, but not on pTyr residues, was observed in endothelial cells pointing to Ezrin-pThr567 dephosphorylation as a mean through which PRL-3 exerts its function in promoting tumor progression as well as in the establishment of the new vasculature needed for tumor survival and expansion.


Subject(s)
Cytoskeletal Proteins/metabolism , Neoplasm Proteins/metabolism , Protein Tyrosine Phosphatases/metabolism , Catalysis/drug effects , Endothelial Cells/drug effects , Endothelial Cells/enzymology , HCT116 Cells , Humans , Mutant Proteins/metabolism , Phosphorylation/drug effects , Phosphothreonine/metabolism , Phosphotyrosine/metabolism , RNA Interference , Substrate Specificity/drug effects , Tetradecanoylphorbol Acetate/pharmacology
4.
Electrophoresis ; 30(14): 2469-76, 2009 Jul.
Article in English | MEDLINE | ID: mdl-19639567

ABSTRACT

The protein tyrosine phosphatase PRL-3 is an appealing therapeutic cancer target for its well described involvement in the metastasis progression. Nevertheless, very little is known about PRL-3 role in tumorigenesis. In the attempt to identify the protein target of this phosphatase we have devised a model system based on the use of highly invasive HCT116 colon cancer cells over-expressing PRL-3. We used 2-D difference gel electrophoresis combined with the fluorescence staining Pro-Q Diamond selective for phosphorylated proteins to monitor changes in the phosphorylation status of possible substrates. Proteins whose phosphorylation level was negatively affected by PRL-3 over-expression were identified by MS. Two proteins were found to be significantly dephosphorylated in this condition, the cytoskeletal protein ezrin and elongation factor 2. Ezrin has already been described as having a proactive role in cancer metastasis through control of its phosphorylation status, and the PRL-3-induced modulation of ezrin phosphorylation in HCT116 and human umblical vascular endothelial cells is the subject of a separate paper by Forte et al. [Biochim. Biophys. Acta 2008, 1783, 334-344]. The combination of 2-D difference in gel electrophoresis and Pro-Q Diamond was hence confirmed successful in analyzing changes of protein phosphorylation which enable the identification of kinase/phosphatase targets.


Subject(s)
Electrophoresis, Gel, Two-Dimensional/methods , Neoplasm Proteins/analysis , Phosphoprotein Phosphatases/metabolism , Phosphoproteins/analysis , Protein Kinases/metabolism , Staining and Labeling/methods , Cell Line, Tumor , Cytoskeletal Proteins/metabolism , HCT116 Cells , Humans , Neoplasm Proteins/metabolism , Organometallic Compounds , Peptide Elongation Factor 2/metabolism , Phosphoproteins/metabolism , Phosphorylation , Protein Tyrosine Phosphatases/metabolism
5.
Rapid Commun Mass Spectrom ; 23(17): 2733-40, 2009 Sep.
Article in English | MEDLINE | ID: mdl-19639556

ABSTRACT

The Phosphatase of Regenerating Liver-3 (PRL-3) is a cysteine-based phosphatase (CBP) that is highly over-expressed in liver metastasis in colorectal cancer and suspected to be involved in the progression from tumor to metastasis. During substrate-specificity studies based on the screening of PRL-3 phosphatase activity on several phosphorylated synthetic peptides, we observed a decrease in activity depending on sample aging and storage conditions. By liquid chromatography combined with selective alkylation and mass spectrometry, we found two main PRL-3 inactivation pathways: a disulfide bond formation between the catalytic C104 and C49, blocking the enzyme in an inactive oxidized form, or the conversion of the catalytic C104 into glycine. We also found that the disulfide formation and the cysteine into glycine conversion are catalyzed by cations present in the sample after protein purification through a nickel column. By adding a cation chelator such as EDTA and de-oxygenating the sample with argon, PRL-3 phosphatase activity was preserved. These findings suggest that PRL-3, like other CBPs, is sensitive to inactivation by catalytic cysteine oxidation and this has implications for future studies of its activity and specificity.


Subject(s)
Cysteine/chemistry , Disulfides/chemistry , Glycine/chemistry , Neoplasm Proteins/chemistry , Protein Tyrosine Phosphatases/chemistry , Amino Acid Sequence , Enzyme Activation , Humans , Mass Spectrometry/methods , Molecular Sequence Data , Oxidation-Reduction
6.
Article in English | MEDLINE | ID: mdl-16431169

ABSTRACT

Nuclear proteins play a major role in controlling cell functions. Differential proteomic analysis of nuclear proteins by combined 2D gel electrophoresis (2D-E) and mass spectrometry procedures can provide useful information to understand the control of cell proliferation and differentiation. To identify proteins involved in dedifferentiation, we used a differential proteomics approach by comparing nuclear extracts from the differentiated rat thyroid cell line FRTL-5 and the derived undifferentiated Ki-mol cell line, obtained by transformation with the Ki-ras oncogene. Thirteen proteins were identified as differently expressed in the nuclear compartment between the two cell lines. RT-PCR analysis performed on seven differently expressed genes showed that only in two cases the difference may be ascribable to a transcriptional mechanism. Since one of the identified proteins, namely apurinic apyrimidinic endonuclease/redox effector factor-1 (APE1/Ref-1), is suspected to play a role in thyroid tumorigenesis, we used a glutathione S-transferase (GST)-pulldown assay coupled to a 2D electrophoretic/matrix assisted laser desorption ionization-time of flight (MALDI-TOF)-mass spectrometry (MS) analysis to detect and identify its interacting partners. We show here that beta-actin directly interacted with APE1/Ref-1, as confirmed by co-immunoprecipitation assays and that this interaction was enhanced by oxidative stress on FRTL-5 cells.


Subject(s)
Cell Nucleus/chemistry , Nuclear Proteins/analysis , Proteomics , Thyroid Gland/chemistry , Animals , Base Sequence , Blotting, Western , Cell Line , DNA Primers , Immunohistochemistry , Immunoprecipitation , Nuclear Proteins/isolation & purification , Rats , Recombinant Proteins/analysis , Recombinant Proteins/isolation & purification , Reverse Transcriptase Polymerase Chain Reaction , Spectrometry, Mass, Matrix-Assisted Laser Desorption-Ionization , Thyroid Gland/cytology
7.
J Proteomics ; 145: 237-245, 2016 08 11.
Article in English | MEDLINE | ID: mdl-27268958

ABSTRACT

UNLABELLED: Smoking is associated with several serious diseases, such as lung cancer and chronic obstructive pulmonary disease (COPD). Within our systems toxicology framework, we are assessing whether potential modified risk tobacco products (MRTP) can reduce smoking-related health risks compared to conventional cigarettes. In this article, we evaluated to what extent 2D-PAGE/MALDI MS/MS (2D-PAGE) can complement the iTRAQ LC-MS/MS results from a previously reported mouse inhalation study, in which we assessed a prototypic MRTP (pMRTP). Selected differentially expressed proteins identified by both LC-MS/MS and 2D-PAGE approaches were further verified using reverse-phase protein microarrays. LC-MS/MS captured the effects of cigarette smoke (CS) on the lung proteome more comprehensively than 2D-PAGE. However, an integrated analysis of both proteomics data sets showed that 2D-PAGE data complement the LC-MS/MS results by supporting the overall trend of lower effects of pMRTP aerosol than CS on the lung proteome. Biological effects of CS exposure supported by both methods included increases in immune-related, surfactant metabolism, proteasome, and actin cytoskeleton protein clusters. Overall, while 2D-PAGE has its value, especially as a complementary method for the analysis of effects on intact proteins, LC-MS/MS approaches will likely be the method of choice for proteome analysis in systems toxicology investigations. SIGNIFICANCE: Quantitative proteomics is anticipated to play a growing role within systems toxicology assessment frameworks in the future. To further understand how different proteomics technologies can contribute to toxicity assessment, we conducted a quantitative proteomics analysis using 2D-PAGE and isobaric tag-based LC-MS/MS approaches and compared the results produced from the 2 approaches. Using a prototypic modified risk tobacco product (pMRTP) as our test item, we show compared with cigarette smoke, how 2D-PAGE results can complement and support LC-MS/MS data, demonstrating the much lower effects of pMRTP aerosol than cigarette smoke on the mouse lung proteome. The combined analysis of 2D-PAGE and LC-MS/MS data identified an effect of cigarette smoke on the proteasome and actin cytoskeleton in the lung.


Subject(s)
Aerosols/adverse effects , Lung/chemistry , Proteome/drug effects , Proteomics/methods , Smoke/adverse effects , Actins/drug effects , Animals , Chromatography, Liquid , Cytoskeleton/drug effects , Electrophoresis, Gel, Two-Dimensional , Inhalation Exposure/adverse effects , Lung/pathology , Mice , Mice, Inbred C57BL , Proteasome Endopeptidase Complex/drug effects , Proteome/analysis , Tandem Mass Spectrometry , Tobacco Products
8.
J Mol Biol ; 319(5): 1267-77, 2002 Jun 21.
Article in English | MEDLINE | ID: mdl-12079363

ABSTRACT

The non-covalent homodimer formed by the C-terminal domains of the IgG1 heavy chains (C(H)3) is the simplest naturally occurring model system for studying immunoglobulin folding and assembly. In the native state, the intrachain disulfide bridge, which connects a three-stranded and a four-stranded beta-sheet is buried in the hydrophobic core of the protein. Here, we show that the disulfide bridge is not required for folding and association, since the reduced C(H)3 domain folds to a dimer with defined secondary and tertiary structure. However, the thermodynamic stability of the reduced C(H)3 dimer is much lower than that of the oxidized state. This allows the formation of disulfide bonds either concomitant with folding (starting from the reduced, denatured state) or after folding (starting from the reduced dimer). The analysis of the two processes revealed that, under all conditions investigated, one of the cysteine residues, Cys 86, reacts preferentially with oxidized glutathione to a mixed disulfide that subsequently interacts with the less-reactive second thiol group of the intra-molecular disulfide bond. For folded C(H)3, the second step in the oxidation process is slow. In contrast, starting from the unfolded and reduced protein, the oxidation reaction is faster. However, the overall folding reaction of C(H)3 during oxidative folding is a slow process. Especially, dimerization is slow, compared to the association starting from the denatured oxidized state. This deceleration may be due to misfolded conformations trapped by the disulfide bridge.


Subject(s)
Antibodies, Monoclonal/chemistry , Antibodies, Monoclonal/metabolism , Disulfides/metabolism , Immunoglobulin Constant Regions/metabolism , Immunoglobulin G/metabolism , Immunoglobulin Heavy Chains/metabolism , Protein Folding , Alkylation , Chromatography, Gel , Circular Dichroism , Cross-Linking Reagents , Cysteine/chemistry , Cysteine/metabolism , Dimerization , Disulfides/chemistry , Immunoglobulin Constant Regions/chemistry , Immunoglobulin G/chemistry , Immunoglobulin Heavy Chains/chemistry , Kinetics , Mass Spectrometry , Models, Molecular , Oxidation-Reduction , Peptide Mapping , Protein Denaturation , Protein Renaturation , Protein Structure, Quaternary , Protein Structure, Tertiary , Ultracentrifugation
9.
J Chromatogr B Analyt Technol Biomed Life Sci ; 815(1-2): 157-68, 2005 Feb 05.
Article in English | MEDLINE | ID: mdl-15652806

ABSTRACT

Characterizing the complete proteome of multicellular organisms is a challenging task using the currently available technologies. With the increasing degree of genetic complexity, animals acquire a broader repertoire of options to meet environmental challenges. Mammalian cells from different tissues/body fluids express different thousands of proteins with a predicted dynamic range of up to five to six orders of magnitude, thus necessitating the whole arsenal of dedicated analytical strategies for a detailed proteome characterization. Nevertheless, 2D-E analysis of whole cellular lysates still remains the most used initial approach for the proteomic description of specialized cells. It enables to obtain an overview of the main soluble protein components of a specific tissue/body fluid, allowing comparison between different cellular types and molecular description of organ specialization. Massive proteomic investigations have been reported mainly in the case of human, mouse and rat, allowing comparative analysis. For this reason, a research project focused on the 2D-E characterization of tissues and biological fluids from other domestic mammals has been undertaken in our laboratory. A number of high-resolution reference electrophoretic maps have been established for liver, kidney, muscle, plasma and red blood cells samples from Holstein Friesian bovine female individuals. Among the 1863 distinct protein features detected, 534 species were identified and associated to 209 different genes by a combination of MALDI-TOF mass fingerprint, capillary LC-ESI-IT-MS-MS and image gel matching procedures. Identified polypeptide species and differences in expression profiles between various tissues/fluids clearly reflected organ biochemical specialization. This experimental output allowed establishing a 2D-E bovine database accessible at the URL address for image comparison.


Subject(s)
Body Fluids/chemistry , Cattle/genetics , Kidney/chemistry , Muscle, Skeletal/chemistry , Proteome , Animals , Blood Proteins/genetics , Databases, Protein , Electrophoresis, Gel, Two-Dimensional , Erythrocytes/chemistry , Mass Spectrometry , Muscle, Skeletal/cytology , Proteome/genetics
10.
Protein Sci ; 12(5): 939-52, 2003 May.
Article in English | MEDLINE | ID: mdl-12717017

ABSTRACT

Protein disulfide isomerase (PDI, EC 5.3.4.1), an enzyme and chaperone, catalyses disulfide bond formation and rearrangements in protein folding. It is also a subunit in two proteins, the enzyme collagen prolyl 4-hydroxylase and the microsomal triglyceride transfer protein. It consists of two catalytically active domains, a and a', and two inactive ones, b and b', all four domains having the thioredoxin fold. Domain b' contains the primary peptide binding site, but a' is also critical for several of the major PDI functions. Mass spectrometry was used here to follow the folding pathway of bovine pancreatic ribonuclease A (RNase A) in the presence of three PDI mutants, F449R, Delta455-457, and abb', and the individual domains a and a'. The first two mutants contained alterations in the last alpha helix of domain a', while the third lacked the entire domain a'. All mutants produced genuine, correctly folded RNase A, but the appearance rate of 50% of the product, as compared to wild-type PDI, was reduced 2.5-fold in the case of PDI Delta455-457, 7.5-fold to eightfold in the cases of PDI F449R and PDI abb', and over 15-fold in the cases of the individual domains a and a'. In addition, PDI F449R and PDI abb' affected the distribution of folding intermediates. Domains a and a' catalyzed the early steps in the folding but no disulfide rearrangements, and therefore the rate observed in the presence of these individual domains was similar to that of the spontaneous process.


Subject(s)
Mutation , Protein Disulfide-Isomerases/chemistry , Ribonuclease, Pancreatic/chemistry , Animals , Cattle , Kinetics , Molecular Chaperones/chemistry , Molecular Chaperones/genetics , Protein Disulfide-Isomerases/genetics , Protein Folding , Protein Structure, Tertiary
11.
Ital J Biochem ; 52(4): 145-53, 2003 Dec.
Article in English | MEDLINE | ID: mdl-15141481

ABSTRACT

Saccharomyces cerevisiae is the optimal eukaryotic model system to study mammalian biological responses. At the same time Saccharomyces cerevisiae is also widely utilized as a biotechnological tool in the food industry. Enological Saccharomyces cerevisiae strains have been so far routinely analyzed for their microbiological aspects. Nevertheless, wine yeasts are gaining an increasing interest in the last years since they strongly affect both the vinification process and the organoleptic properties of the final product wine. The protein repertoire is responsible of such features and, consequently, 2D-PAGE can be an useful tool to evaluate and select optimal wine yeast strains. We present here the first proteomic map of a wild-type wine Saccharomyces cerevisiae strain selected for the guided fermentation of very high quality wines.


Subject(s)
Proteome/analysis , Saccharomyces cerevisiae/metabolism , Wine/microbiology , Electrophoresis, Gel, Two-Dimensional , Ethanol/metabolism , Fermentation , Glucose/metabolism , Glycogen/metabolism , Saccharomyces cerevisiae/genetics , Trehalose/metabolism
12.
Transl Oncol ; 4(1): 38-46, 2011 Feb 01.
Article in English | MEDLINE | ID: mdl-21286376

ABSTRACT

RON belongs to the c-MET family of receptor tyrosine kinases. As its well-known family member MET, RON and its ligand macrophage-stimulating protein have been implicated in the progression and metastasis of tumors and have been shown to be overexpressed in cancer. We generated and tested a large number of human monoclonal antibodies (mAbs) against human RON. Our screening yielded three high-affinity antibodies that efficiently block ligand-dependent intracellular AKT and MAPK signaling. This effect correlates with the strong reduction of ligand-activated migration of T47D breast cancer cell line. By cross-competition experiments, we showed that the antagonistic antibodies fall into three distinct epitope regions of the RON extracellular Sema domain. Notably, no inhibition of tumor growth was observed in different epithelial tumor xenografts in nude mice with any of the antibodies. These results suggest that distinct properties beside ligand antagonism are required for anti-RON mAbs to exert antitumor effects in vivo.

13.
Gene ; 432(1-2): 67-74, 2009 Mar 01.
Article in English | MEDLINE | ID: mdl-19101615

ABSTRACT

In metazoa, the spatio-temporal translation of diverse mRNAs is essential to guarantee proper oocyte maturation and early embryogenesis. The eukaryotic translation initiation factor 4E (eIF4E), which binds the 5' cap structure of eukaryotic mRNAs, associates with either stimulatory or inhibitory factors to modulate protein synthesis. In order to identify novel factors that might act at the translational level during Drosophila oogenesis, we have undertaken a functional proteomic approach and isolated the product of the Hsp83 gene, the evolutionarily conserved chaperone Hsp90, as a specific component of the cap-binding complex. Here we report that Hsp90 interacts in vitro with the translational repressor Cup. In addition, we show that Hsp83 and cup interact genetically, since lowering Hsp90 activity enhances the oogenesis alterations linked to diverse cup mutant alleles. Hsp90 and Cup co-localize in the cytoplasm of the developing germ-line cells within the germarium, thus suggesting a common function from the earliest stages of oogenesis. Taken together, our data start elucidating the role of Hsp90 during Drosophila female germ-line development and strengthen the idea that Cup has multiple essential functions during egg chamber development.


Subject(s)
Drosophila Proteins/metabolism , Drosophila melanogaster/cytology , HSP90 Heat-Shock Proteins/metabolism , Oogenesis , Protein Biosynthesis , RNA Caps/metabolism , Repressor Proteins/metabolism , Alleles , Animals , Cell Line , Drosophila Proteins/chemistry , Drosophila Proteins/genetics , Drosophila melanogaster/metabolism , Female , HSP90 Heat-Shock Proteins/genetics , Humans , Mass Spectrometry , Mutation/genetics , Ovary/cytology , Ovary/metabolism , Protein Binding , Protein Transport , Proteomics , Repressor Proteins/genetics
14.
J Biol Chem ; 284(2): 1313-23, 2009 Jan 09.
Article in English | MEDLINE | ID: mdl-19001363

ABSTRACT

PCSK9 regulates low density lipoprotein receptor (LDLR) levels and consequently is a target for the prevention of atherosclerosis and coronary heart disease. Here we studied the interaction, of LDLR EGF(A/AB) repeats with PCSK9. We show that PCSK9 binds the EGF(AB) repeats in a pH-dependent manner. Although the PCSK9 C-terminal domain is not involved in LDLR binding, PCSK9 autocleavage is required. Moreover, we report the x-ray structure of the PCSK9DeltaC-EGF(AB) complex at neutral pH. Compared with the low pH PCSK9-EGF(A) structure, the new structure revealed rearrangement of the EGF(A) His-306 side chain and disruption of the salt bridge with PCSK9 Asp-374, thus suggesting the basis for enhanced interaction at low pH. In addition, the structure of PCSK9DeltaC bound to EGF(AB)(H306Y), a mutant associated with familial hypercholesterolemia (FH), reveals that the Tyr-306 side chain forms a hydrogen bond with PCSK9 Asp-374, thus mimicking His-306 in the low pH conformation. Consistently, Tyr-306 confers increased affinity for PCSK9. Importantly, we found that although the EGF(AB)(H306Y)-PCSK9 interaction is pH-independent, LDLR(H306Y) binds PCSK9 50-fold better at low pH, suggesting that factors other than His-306 contribute to the pH dependence of PCSK9-LDLR binding. Further, we determined the structures of EGF(AB) bound to PCSK9DeltaC containing the FH-associated D374Y and D374H mutations, revealing additional interactions with EGF(A) mediated by Tyr-374/His-374 and providing a rationale for their disease phenotypes. Finally, we report the inhibitory properties of EGF repeats in a cellular assay measuring LDL uptake.


Subject(s)
Serine Endopeptidases/chemistry , Serine Endopeptidases/metabolism , Amino Acid Sequence , Cell Line , Crystallography, X-Ray , Humans , Hyperlipoproteinemia Type II , Models, Molecular , Molecular Sequence Data , Mutation/genetics , Proprotein Convertase 9 , Proprotein Convertases , Protein Binding , Protein Structure, Quaternary , Protein Structure, Tertiary , Receptors, LDL/metabolism , Serine Endopeptidases/genetics
15.
Mol Biol Cell ; 19(2): 655-67, 2008 Feb.
Article in English | MEDLINE | ID: mdl-18045992

ABSTRACT

Different signal-regulated serine/threonine kinases phosphorylate class II histone deacetylases (HDACs) to promote nuclear export, cytosolic accumulation, and activation of gene transcription. However, little is known about mechanisms operating in the opposite direction, which, possibly through phosphatases, should promote class II HDACs nuclear entry and subsequent gene repression. Here we show that HDAC4 forms a complex with the PP2A holoenzyme C alpha, A alpha, B/PR55 alpha. In vitro and in vivo binding studies demonstrate that the N-terminus of HDAC4 interacts with the catalytic subunit of PP2A. HDAC4 is dephosphorylated by PP2A and experiments using okadaic acid or RNA interference have revealed that PP2A controls HDAC4 nuclear import. Moreover, we identified serine 298 as a putative phosphorylation site important for HDAC4 nuclear import. The HDAC4 mutant mimicking phosphorylation of serine 298 is defective in nuclear import. Mutation of serine 298 to alanine partially rescues the defect in HDAC4 nuclear import observed in cells with down-regulated PP2A. These observations suggest that PP2A, via the dephosphorylation of multiple serines including the 14-3-3 binding sites and serine 298, controls HDAC4 nuclear import.


Subject(s)
Cell Nucleus/enzymology , Histone Deacetylases/metabolism , Protein Phosphatase 2/metabolism , Repressor Proteins/metabolism , Active Transport, Cell Nucleus/drug effects , Amino Acid Sequence , Caspases/metabolism , Cell Line , Cell Nucleus/drug effects , Electrophoresis, Gel, Two-Dimensional , Histone Deacetylases/chemistry , Humans , Molecular Sequence Data , Mutant Proteins/metabolism , Myogenic Regulatory Factors/metabolism , Okadaic Acid/pharmacology , Phosphorylation/drug effects , Protein Binding , Protein Interaction Mapping , Repressor Proteins/chemistry , Serine/metabolism
16.
PLoS One ; 3(1): e1508, 2008 Jan 30.
Article in English | MEDLINE | ID: mdl-18231595

ABSTRACT

A novel and efficient tagArray technology was developed that allows rapid identification of antibodies which bind to receptors with a specific expression profile, in the absence of biological information. This method is based on the cloning of a specific, short nucleotide sequence (tag) in the phagemid coding for each phage-displayed antibody fragment (phage-Ab) present in a library. In order to set up and validate the method we identified about 10,000 different phage-Abs binding to receptors expressed in their native form on the cell surface (10 k Membranome collection) and tagged each individual phage-Ab. The frequency of each phage-Ab in a given population can at this point be inferred by measuring the frequency of its associated tag sequence through standard DNA hybridization methods. Using tiny amounts of biological samples we identified phage-Abs binding to receptors preferentially expressed on primary tumor cells rather than on cells obtained from matched normal tissues. These antibodies inhibited cell proliferation in vitro and tumor development in vivo, thus representing therapeutic lead candidates.


Subject(s)
Antibodies, Monoclonal/genetics , Bacteriophages/genetics , Oligonucleotide Array Sequence Analysis , Animals , Antibodies, Monoclonal/metabolism , Antibodies, Monoclonal/pharmacokinetics , Enzyme-Linked Immunosorbent Assay , Immunoglobulin G/metabolism , Membrane Proteins/metabolism , Mice , Mice, Inbred BALB C , Surface Plasmon Resonance
17.
J Biol Chem ; 282(8): 5536-44, 2007 Feb 23.
Article in English | MEDLINE | ID: mdl-17166835

ABSTRACT

The hepatitis C virus encodes a single polyprotein that is processed by host and viral proteases to yield at least 10 mature viral proteins. The nonstructural (NS) protein 5A is a phosphoprotein, and experimental data indicate that the phosphorylation state of NS5A is important for the outcome of viral RNA replication. We were able to identify kinase inhibitors that specifically inhibit the formation of the hyperphosphorylated form of NS5A (p58) in cells. These kinase inhibitors were used for inhibitor affinity chromatography in order to identify the cellular targets of these compounds. The kinases casein kinase I (CKI), p38 MAPK, CIT (Citron Rho-interacting kinase), GAK, JNK2, PKA, RSK1/2, and RIPK2 were identified in the high affinity binding fractions of two NS5A hyperphosphorylation inhibitors (NS5A-p58-i). Even though these kinases are targets of the NS5A-p58-i, the only kinase showing an effect on NS5A hyperphosphorylation was confirmed to be CKI-alpha. Although this finding does not exclude the possibility that other kinase(s) might be involved in basal or regulatory phosphorylation of NS5A, we show here that NS5A is a direct substrate of CKI-alpha. Moreover, in vitro phosphorylation of NS5A by CKI-alpha resulted for the first time in the production of basal and hyperphosphorylated forms resembling those produced in cells. In vitro kinase reactions performed with NS5A peptides show that Ser-2204 is a preferred substrate residue for CKI-alpha after pre-phosphorylation of Ser-2201.


Subject(s)
Casein Kinase Ialpha/metabolism , Hepacivirus/metabolism , Protein Processing, Post-Translational/physiology , Viral Nonstructural Proteins/metabolism , Virus Replication/physiology , Animals , Casein Kinase Ialpha/chemistry , Casein Kinase Ialpha/isolation & purification , Cell Line , Chromatography, Affinity , Hepacivirus/chemistry , Humans , Phosphorylation/drug effects , Protein Kinase Inhibitors/pharmacology , Protein Processing, Post-Translational/drug effects , Viral Nonstructural Proteins/chemistry , Viral Nonstructural Proteins/isolation & purification , Virus Replication/drug effects
18.
Blood ; 109(5): 1834-40, 2007 Mar 01.
Article in English | MEDLINE | ID: mdl-17077323

ABSTRACT

Angiogenesis plays a key role in various physiologic and pathologic conditions, including tumor growth. Drm/gremlin, a member the Dan family of bone morphogenic protein (BMP) antagonists, is commonly thought to affect different processes during growth, differentiation, and development by heterodimerizing various BMPs. Here, we identify Drm/gremlin as a novel proangiogenic factor expressed by endothelium. Indeed, Drm/gremlin was purified to homogeneity from the conditioned medium of transformed endothelial cells using an endothelial-cell sprouting assay to follow protein isolation. Accordingly, recombinant Drm/gremlin stimulates endothelial-cell migration and invasion in fibrin and collagen gels, binds with high affinity to various endothelial cell types, and triggers tyrosine phosphorylation of intracellular signaling proteins. Also, Drm/gremlin induces neovascularization in the chick embryo chorioallantoic membrane. BMP4 does not affect Drm/gremlin interaction with endothelium, and both molecules exert a proangiogenic activity in vitro and in vivo when administered alone or in combination. Finally, Drm/gremlin is produced by the stroma of human tumor xenografts in nude mice, and it is highly expressed in endothelial cells of human lung tumor vasculature when compared with non-neoplastic lung. Our observations point to a novel, previously unrecognized capacity of Drm/gremlin to interact directly with target endothelial cells and to modulate angiogenesis.


Subject(s)
Angiogenesis Inducing Agents/pharmacology , Bone Morphogenetic Proteins/antagonists & inhibitors , Intercellular Signaling Peptides and Proteins/metabolism , Intercellular Signaling Peptides and Proteins/pharmacology , Amino Acid Sequence , Angiogenesis Inducing Agents/chemistry , Angiogenesis Inducing Agents/isolation & purification , Angiogenesis Inducing Agents/metabolism , Animals , Bone Morphogenetic Proteins/metabolism , Cells, Cultured , Chick Embryo , Cytokines , Endothelial Cells/metabolism , Immunohistochemistry , Intercellular Signaling Peptides and Proteins/chemistry , Intercellular Signaling Peptides and Proteins/isolation & purification , Mice , Molecular Sequence Data , Neoplasms/blood supply , Neoplasms/genetics , Neoplasms/metabolism , Neoplasms/pathology , Protein Binding , Signal Transduction/drug effects , Xenograft Model Antitumor Assays
19.
Biochem J ; 372(Pt 2): 443-51, 2003 Jun 01.
Article in English | MEDLINE | ID: mdl-12608891

ABSTRACT

Ecto-5'-nucleotidase (ecto-5'-NT) is a glycosylphosphatidylinositol-anchored membrane-bound protein that is ubiquitous in mammalian tissues. It is a target for a number of therapeutic drugs since increased levels of the enzyme correlate with various disease states. In this investigation, we describe the properties of a soluble ecto-5'-NT derived from bull seminal plasma. The protein was highly heterogeneous as demonstrated by chromatofocusing and two-dimensional PAGE. Sequencing analyses revealed a truncated polypeptide lacking the glycosylphospatidylinositol attachment site, suggesting that it is produced post-translationally by cleavage at Gln(547) and/or Phe(548). Heterogeneity was largely due to differential glycosylation, especially in the oligosaccharides linked to Asn(403). Significant differences in substrate specificity were observed between isoforms and, on the basis of molecular-modelling studies, were interpreted in terms of variable glycosylation causing steric hindrance of the substrate-binding site. Thus the soluble forms of ecto-5'-NT found in bull seminal plasma are unique both biochemically and structurally, and have a putative role in signalling interactions with spermatozoa following ejaculation and capacitation in the female reproductive tract.


Subject(s)
5'-Nucleotidase/chemistry , Semen/enzymology , 5'-Nucleotidase/isolation & purification , 5'-Nucleotidase/metabolism , Amino Acids/analysis , Amino Acids/chemistry , Animals , Cattle , Chromatography, High Pressure Liquid , Electrophoresis, Gel, Two-Dimensional , Male , Models, Molecular , Oligosaccharides/chemistry , Peptide Fragments/chemistry , Protein Conformation , Spectrometry, Mass, Matrix-Assisted Laser Desorption-Ionization , Spectrophotometry, Ultraviolet , Spermatozoa/chemistry , Spermatozoa/metabolism , Trypsin/metabolism
20.
EMBO J ; 21(4): 835-44, 2002 Feb 15.
Article in English | MEDLINE | ID: mdl-11847130

ABSTRACT

In human cells, Ero1-Lalpha and -Lbeta (hEROs) regulate oxidative protein folding by selectively oxidizing protein disulfide isomerase. Specific protein--protein interactions are probably crucial for regulating the formation, isomerization and reduction of disulfide bonds in the endoplasmic reticulum (ER). To identify molecules involved in ER redox control, we searched for proteins interacting with Ero1-Lalpha. Here, we characterize a novel ER resident protein (ERp44), which contains a thioredoxin domain with a CRFS motif and is induced during ER stress. ERp44 forms mixed disulfides with both hEROs and cargo folding intermediates. Whilst the interaction with transport-competent Ig-K chains is transient, ERp44 binds more stably with J chains, which are retained in the ER and eventually degraded by proteasomes. ERp44 does not bind a short-lived ribophorin mutant lacking cysteines. Its overexpression alters the equilibrium of the different Ero1-Lalpha redox isoforms, suggesting that ERp44 may be involved in the control of oxidative protein folding.


Subject(s)
Carrier Proteins/physiology , Endoplasmic Reticulum/metabolism , Membrane Proteins/physiology , Molecular Chaperones , Amino Acid Sequence , Base Sequence , Calsequestrin/chemistry , Carrier Proteins/chemistry , Carrier Proteins/genetics , Carrier Proteins/metabolism , DNA Primers , HeLa Cells , Humans , Kinetics , Membrane Proteins/chemistry , Membrane Proteins/genetics , Membrane Proteins/metabolism , Molecular Sequence Data , Protein Binding , Protein Folding , RNA, Messenger/metabolism , Sequence Homology, Amino Acid , Thioredoxins/chemistry
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