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Zhong Y, Qin Y, Dang L, Jia L, Zhang Z, Wu H, Cui J, Bian H, Li Z. Alteration and localization of glycan-binding proteins in human hepatic stellate cells during liver fibrosis. Proteomics 2015; 15:3283-95. [PMID: 26058380 DOI: 10.1002/pmic.201500030] [Citation(s) in RCA: 10] [Impact Index Per Article: 1.1] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 01/19/2015] [Revised: 04/16/2015] [Accepted: 06/05/2015] [Indexed: 01/10/2023]
Abstract
Glycan-binding proteins (GBPs) play an important role in cell adhesion, bacterial/viral infection, and cellular signaling pathways. However, little is known about the precision alteration of GBPs referred to pathological changes in hepatic stellate cells (HSCs) during liver fibrosis. Here, the carbohydrate microarrays were used to probe the alteration of GBPs in the activated HSCs and quiescent HSCs. As a result, 12 carbohydrates (e.g. Gal, GalNAc, and Man-9Glycan) showed increased signal, while seven carbohydrates (e.g. NeuAc, Lac, and GlcNAc-O-Ser) showed decreased signal in activated HSCs. Three carbohydrates (Gal, GalNAc, and NeuAc) were selected and subsequently used to validate the results of the carbohydrate microarrays as well as assess the distribution and localization of their binding proteins in HSCs and liver tissues by cy/histochemistry; the results showed that GBPs mainly distributed in the cytoplasma membrane and perinuclear region of cytoplasm. The immunocytochemistry was further used to verify some GBPs really exist in Golgi apparatus of the cells. The precision alteration and localization of GBPs referred to pathological changes in HSCs may provide pivotal information to help understand the biological functions of glycans how to exert through their recognition by a wide variety of GBPs. This study could lead to the development of new anti-fibrotic strategies.
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Affiliation(s)
- Yaogang Zhong
- Laboratory for Functional Glycomics, College of Life Sciences, Northwest University, Xi'an, P. R. China
| | - Yannan Qin
- Laboratory for Functional Glycomics, College of Life Sciences, Northwest University, Xi'an, P. R. China
| | - Liuyi Dang
- Laboratory for Functional Glycomics, College of Life Sciences, Northwest University, Xi'an, P. R. China
| | - Liyuan Jia
- Laboratory for Functional Glycomics, College of Life Sciences, Northwest University, Xi'an, P. R. China
| | - Zhiwei Zhang
- Laboratory for Functional Glycomics, College of Life Sciences, Northwest University, Xi'an, P. R. China
| | - Haoxiang Wu
- Laboratory for Functional Glycomics, College of Life Sciences, Northwest University, Xi'an, P. R. China
| | - Jihong Cui
- Laboratory for Functional Glycomics, College of Life Sciences, Northwest University, Xi'an, P. R. China
| | - Huijie Bian
- Cell Engineering Research Centre and Department of Cell Biology, Fourth Military Medical University, Xi'an, P. R. China
| | - Zheng Li
- Laboratory for Functional Glycomics, College of Life Sciences, Northwest University, Xi'an, P. R. China
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Taylor ME, Drickamer K. Convergent and divergent mechanisms of sugar recognition across kingdoms. Curr Opin Struct Biol 2014; 28:14-22. [PMID: 25102772 PMCID: PMC4444583 DOI: 10.1016/j.sbi.2014.07.003] [Citation(s) in RCA: 43] [Impact Index Per Article: 4.3] [Reference Citation Analysis] [Abstract] [MESH Headings] [Grants] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 05/20/2014] [Revised: 06/23/2014] [Accepted: 07/16/2014] [Indexed: 12/03/2022]
Abstract
Protein modules that bind specific oligosaccharides are found across all kingdoms of life from single-celled organisms to man. Different, overlapping and evolving designations for sugar-binding domains in proteins can sometimes obscure common features that often reflect convergent solutions to the problem of distinguishing sugars with closely similar structures and binding them with sufficient affinity to achieve biologically meaningful results. Structural and functional analysis has revealed striking parallels between protein domains with widely different structures and evolutionary histories that employ common solutions to the sugar recognition problem. Recent studies also demonstrate that domains descended from common ancestors through divergent evolution appear more widely across the kingdoms of life than had previously been recognized.
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Affiliation(s)
- Maureen E Taylor
- Department of Life Sciences, Imperial College, London SW7 2AZ, United Kingdom
| | - Kurt Drickamer
- Department of Life Sciences, Imperial College, London SW7 2AZ, United Kingdom.
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Kamhi E, Joo EJ, Dordick JS, Linhardt RJ. Glycosaminoglycans in infectious disease. Biol Rev Camb Philos Soc 2013; 88:928-43. [DOI: 10.1111/brv.12034] [Citation(s) in RCA: 126] [Impact Index Per Article: 11.5] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 08/02/2012] [Revised: 02/07/2013] [Accepted: 02/27/2013] [Indexed: 12/14/2022]
Affiliation(s)
- Eyal Kamhi
- Department of Chemistry and Chemical Biology; Rensselaer Polytechnic Institute; Troy New York 12180-3590 U.S.A
- Drughoming Ltd; Rehovot Israel
| | - Eun Ji Joo
- Department of Chemistry and Chemical Biology; Rensselaer Polytechnic Institute; Troy New York 12180-3590 U.S.A
| | - Jonathan S. Dordick
- Department of Biology; Rensselaer Polytechnic Institute; Troy New York 12180-3590 U.S.A
- Department of Chemical and Biological Engineering; Rensselaer Polytechnic Institute; Troy New York 12180-3590 U.S.A
- Department of Biomedical Engineering; Center for Biotechnology & Interdisciplinary Studies; Rensselaer Polytechnic Institute; Troy New York 12180-3590 U.S.A
| | - Robert J. Linhardt
- Department of Chemistry and Chemical Biology; Rensselaer Polytechnic Institute; Troy New York 12180-3590 U.S.A
- Department of Biology; Rensselaer Polytechnic Institute; Troy New York 12180-3590 U.S.A
- Department of Chemical and Biological Engineering; Rensselaer Polytechnic Institute; Troy New York 12180-3590 U.S.A
- Department of Biomedical Engineering; Center for Biotechnology & Interdisciplinary Studies; Rensselaer Polytechnic Institute; Troy New York 12180-3590 U.S.A
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Microglial carbohydrate-binding receptors for neural repair. Cell Tissue Res 2012; 349:215-27. [DOI: 10.1007/s00441-012-1342-7] [Citation(s) in RCA: 22] [Impact Index Per Article: 1.8] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 09/27/2011] [Accepted: 01/25/2012] [Indexed: 01/04/2023]
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The Structure of Physarum polycephalum hemagglutinin I suggests a minimal carbohydrate recognition domain of legume lectin fold. J Mol Biol 2011; 405:560-9. [PMID: 21094650 DOI: 10.1016/j.jmb.2010.11.024] [Citation(s) in RCA: 2] [Impact Index Per Article: 0.2] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 08/30/2010] [Revised: 11/10/2010] [Accepted: 11/11/2010] [Indexed: 01/28/2023]
Abstract
Physarum polycephalum hemagglutinin I (HA1) is a 104-residue protein that is secreted to extracellular space. The crystal structure of HA1 has a β-sandwich fold found among lectin structures, such as legume lectins and galectins. Interestingly, the β-sandwich of HA1 lacks a jelly roll motif and is essentially composed of two simple up-and-down β-sheets. This up-and-down β-sheet motif is well conserved in other legume lectin-like proteins derived from animals, plants, bacteria, and viruses. It is more noteworthy that the up-and-down β-sheet motif includes many residues that make contact with the target carbohydrates. Our NMR data demonstrate that HA1 lacking a jelly roll motif also binds to its target glycopeptide. Taken together, these data show that the up-and-down β-sheet motif provides a fundamental scaffold for the binding of legume lectin-like proteins to the target carbohydrates, and the structure of HA1 suggests a minimal carbohydrate recognition domain.
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Abstract
Carbohydrates are the most abundant natural products. Besides their role in metabolism and as structural building blocks, they are fundamental constituents of every cell surface, where they are involved in vital cellular recognition processes. Carbohydrates are a relatively untapped source of new drugs and therefore offer exciting new therapeutic opportunities. Advances in the functional understanding of carbohydrate-protein interactions have enabled the development of a new class of small-molecule drugs, known as glycomimetics. These compounds mimic the bioactive function of carbohydrates and address the drawbacks of carbohydrate leads, namely their low activity and insufficient drug-like properties. Here, we examine examples of approved carbohydrate-derived drugs, discuss the potential of carbohydrate-binding proteins as new drug targets (focusing on the lectin families) and consider ways to overcome the challenges of developing this unique class of novel therapeutics.
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Affiliation(s)
- Beat Ernst
- Institute of Molecular Pharmacy, University of Basel, Klingelbergstrasse 50, Basel, Switzerland.
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Graham SA, Jégouzo SAF, Yan S, Powlesland AS, Brady JP, Taylor ME, Drickamer K. Prolectin, a glycan-binding receptor on dividing B cells in germinal centers. J Biol Chem 2009; 284:18537-44. [PMID: 19419970 PMCID: PMC2709368 DOI: 10.1074/jbc.m109.012807] [Citation(s) in RCA: 20] [Impact Index Per Article: 1.3] [Reference Citation Analysis] [Abstract] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/06/2022] Open
Abstract
Prolectin, a previously undescribed glycan-binding receptor, has been identified by re-screening of the human genome for genes encoding proteins containing potential C-type carbohydrate-recognition domains. Glycan array analysis revealed that the carbohydrate-recognition domain in the extracellular domain of the receptor binds glycans with terminal alpha-linked mannose or fucose residues. Prolectin expressed in fibroblasts is found at the cell surface, but unlike many glycan-binding receptors it does not mediate endocytosis of a neoglycoprotein ligand. However, compared with other known glycan-binding receptors, the receptor contains an unusually large intracellular domain that consists of multiple sequence motifs, including phosphorylated tyrosine residues, that allow it to interact with signaling molecules such as Grb2. Immunohistochemistry has been used to demonstrate that prolectin is expressed on a specialized population of proliferating B cells in germinal centers. Thus, this novel receptor has the potential to function in carbohydrate-mediated communication between cells in the germinal center.
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Affiliation(s)
- Sarah A Graham
- Division of Molecular Biosciences, Department of Life Sciences, Imperial College, London SW7 2AZ, United Kingdom
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Galuska SP, Geyer R, Mühlenhoff M, Geyer H. Characterization of oligo- and polysialic acids by MALDI-TOF-MS. Anal Chem 2007; 79:7161-9. [PMID: 17705556 DOI: 10.1021/ac0712446] [Citation(s) in RCA: 37] [Impact Index Per Article: 2.2] [Reference Citation Analysis] [Abstract] [MESH Headings] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/29/2022]
Abstract
Oligo- and polysialic acids (oligo/polySia) are characterized by a high diversity in nature due to the different types of sialic acids linked to each other and glycosidic linkages involved. Considering the methods that are presently available for analysis of oligo/polySia chains, only fluorometric anion-exchange high-performance liquid chromatography (HPLC) analysis, fluorometric C7/C9 detection, and western blotting are applicable to small amounts of material. Here we describe an alternative technique using matrix-assisted laser desorption/ionization time-of-flight mass spectrometry after on-target lactonization to characterize different sialic acid polymers. The MS-based method allows a rapid, highly sensitive, and unambiguous identification of native as well as fluorescently labeled sialic acid polymers without the need of standard substances due to exact mass determination. PolySia chains with at least 100 sialic moieties are easily detectable, and in addition, potential modifications of hydroxyl groups by, for instance, acetyl residues can be precisely registered. Based on different lactonization characteristics, alpha2-8- and alpha2-9-linked oligo/polySia can be distinguished. Furthermore, this method can be combined with fluorometric derivatization and HPLC separation.
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Affiliation(s)
- Sebastian P Galuska
- Institute of Biochemistry, Faculty of Medicine, University of Giessen, Friedrichstrasse 24, D-35392 Giessen, Germany
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Abstract
All cells in nature are covered by a dense and complex array of carbohydrates. Given their prominence on cell surfaces, it is not surprising that these glycans mediate and/or modulate many cellular interactions. Proteins that bind sialic acid, a sugar that is found on the surface of the cell and on secreted proteins in vertebrates, are involved in a broad range of biological processes, including intercellular adhesion, signalling and microbial attachment. Studying the roles of such proteins in vertebrates has improved our understanding of normal physiology, disease and human evolution.
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Affiliation(s)
- Ajit Varki
- Department of Medicine, Glycobiology Research and Training Center, University of California at San Diego, La Jolla, California 92093-0687, USA.
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Abstract
Glycosylation produces an abundant, diverse, and highly regulated repertoire of cellular glycans that are frequently attached to proteins and lipids. The past decade of research on glycan function has revealed that the enzymes responsible for glycosylation-the glycosyltransferases and glycosidases-are essential in the development and physiology of living organisms. Glycans participate in many key biological processes including cell adhesion, molecular trafficking and clearance, receptor activation, signal transduction, and endocytosis. This review discusses the increasingly sophisticated molecular mechanisms being discovered by which mammalian glycosylation governs physiology and contributes to disease.
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Affiliation(s)
- Kazuaki Ohtsubo
- Howard Hughes Medical Institute and Department of Cellular and Molecular Medicine, 9500 Gilman Drive-MC0625, University of California, San Diego, La Jolla, CA 92093, USA
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Abstract
The superfamily of proteins containing C-type lectin-like domains (CTLDs) is a large group of extracellular Metazoan proteins with diverse functions. The CTLD structure has a characteristic double-loop ('loop-in-a-loop') stabilized by two highly conserved disulfide bridges located at the bases of the loops, as well as a set of conserved hydrophobic and polar interactions. The second loop, called the long loop region, is structurally and evolutionarily flexible, and is involved in Ca2+-dependent carbohydrate binding and interaction with other ligands. This loop is completely absent in a subset of CTLDs, which we refer to as compact CTLDs; these include the Link/PTR domain and bacterial CTLDs. CTLD-containing proteins (CTLDcps) were originally classified into seven groups based on their overall domain structure. Analyses of the superfamily representation in several completely sequenced genomes have added 10 new groups to the classification, and shown that it is applicable only to vertebrate CTLDcps; despite the abundance of CTLDcps in the invertebrate genomes studied, the domain architectures of these proteins do not match those of the vertebrate groups. Ca2+-dependent carbohydrate binding is the most common CTLD function in vertebrates, and apparently the ancestral one, as suggested by the many humoral defense CTLDcps characterized in insects and other invertebrates. However, many CTLDs have evolved to specifically recognize protein, lipid and inorganic ligands, including the vertebrate clade-specific snake venoms, and fish antifreeze and bird egg-shell proteins. Recent studies highlight the functional versatility of this protein superfamily and the CTLD scaffold, and suggest further interesting discoveries have yet to be made.
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Affiliation(s)
- Alex N Zelensky
- Computational Proteomics and Therapy Design Group, John Curtin School of Medical Research, Australian National University, Canberra, Australia
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von der Lieth CW, Lütteke T, Frank M. The role of informatics in glycobiology research with special emphasis on automatic interpretation of MS spectra. Biochim Biophys Acta Gen Subj 2005; 1760:568-77. [PMID: 16459020 DOI: 10.1016/j.bbagen.2005.12.004] [Citation(s) in RCA: 38] [Impact Index Per Article: 2.0] [Reference Citation Analysis] [Abstract] [MESH Headings] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 10/31/2005] [Revised: 12/01/2005] [Accepted: 12/01/2005] [Indexed: 12/17/2022]
Abstract
This paper reviews the current status of bioinformatics applications and databases in glycobiology, which are based on bioinformatics approaches as well as informatics for glycobiology where an explicit encoding of glycan structures is required. The availability of the complete sequence of the human genome has accelerated the systematic identification of so far unidentified glycogenes considerably in many areas of glycobiology using well-established bioinfomatics tools. Although there has been an immense development of new glyco-related data collections as well as informatics tools and several efforts have been started to cross-link and reference the various data deposited in distributed databases, informatics for glycobiology and glycomics is still poorly developed compared to the genomics and proteomics area. The development of algorithms for the automatic interpretation of MS spectra - currently, a severe bottleneck, which hampers the rapid and reliable interpretation of MS data in high-throughput glycomics projects - is reviewed. A comprehensive list of web resources is given. Several lines of progression are discussed. There is an urgent need for the development of decentralised input facilities of experimentally determined glycan structures. Simultaneously, agreements of standards for the structural description of glycans as well as formats for the related data have to be established. The integration of glycomics with genomics/proteomics has to increase.
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Affiliation(s)
- Claus-W von der Lieth
- German Cancer Research Center, Spectroscopic Department (B090), Molecular Modelling, Heidelberg, Germany.
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Abstract
Animal glycan-recognizing proteins can be broadly classified into two groups-lectins (which typically contain an evolutionarily conserved carbohydrate-recognition domain [CRD]) and sulfated glycosaminoglycan (SGAG)-binding proteins (which appear to have evolved by convergent evolution). Proteins other than antibodies and T-cell receptors that mediate glycan recognition via immunoglobulin (Ig)-like domains are called "I-type lectins." The major homologous subfamily of I-type lectins with sialic acid (Sia)-binding properties and characteristic amino-terminal structural features are called the "Siglecs" (Sia-recognizing Ig-superfamily lectins). The Siglecs can be divided into two groups: an evolutionarily conserved subgroup (Siglecs-1, -2, and -4) and a CD33/Siglec-3-related subgroup (Siglecs-3 and -5-13 in primates), which appear to be rapidly evolving. This article provides an overview of historical and current information about the Siglecs.
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Affiliation(s)
- Ajit Varki
- Research Center for Glycoscience, National Institute of Advanced Industrial Science and Technology, Tsukuba, Ibaraki 305-8568, Japan.
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Affiliation(s)
- Ten Feizi
- The Glycosciences Laboratory, Imperial College London, Northwick Park Hospital Campus, Watford Road, Harrow, Middlesex HA1 3UJ, UK.
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