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Khan F, Kaza S. Crystal structure of an L-type lectin domain from archaea. Proteins 2023; 91:456-465. [PMID: 36301308 DOI: 10.1002/prot.26440] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 06/29/2022] [Revised: 09/26/2022] [Accepted: 10/20/2022] [Indexed: 11/06/2022]
Abstract
The crystal structures of an L-type lectin domain from Methanocaldococcus jannaschii in apo and mannose-bound forms have been determined. A thorough investigation of L-type lectin domains from several organisms provides insight into the differences in these domains from different kingdoms of life. While the overall fold of the L-type lectin domain is conserved, differences in the lengths of the carbohydrate-binding loops and significant variations in the Mn2+ -binding site compared to the Ca2+ -binding site are observed. Furthermore, the sequence and phylogenetic analyses suggest that the archaeal L-type lectin domain is evolutionarily closer to the plant legume lectins than to its bacterial or animal counterparts. This is the first report of the biochemical, structural, sequence, and phylogenetic analyses of an L-type lectin domain from archaea and serves to enhance our understanding of the species-specific differences and evolution of L-type lectin domains.
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Affiliation(s)
- Farha Khan
- Molecular Biophysics Unit, Indian Institute of Science, Bangalore, Karnataka, India
| | - Suguna Kaza
- Molecular Biophysics Unit, Indian Institute of Science, Bangalore, Karnataka, India
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Zuo R, Xie M, Gao F, Liu J, Tang M, Cheng X, Liu Y, Bai Z, Liu S. Genome-wide identification and functional exploration of the legume lectin genes in Brassica napus and their roles in Sclerotinia disease resistance. FRONTIERS IN PLANT SCIENCE 2022; 13:963263. [PMID: 35968144 PMCID: PMC9374194 DOI: 10.3389/fpls.2022.963263] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [Grants] [Track Full Text] [Figures] [Subscribe] [Scholar Register] [Received: 06/07/2022] [Accepted: 06/28/2022] [Indexed: 06/15/2023]
Abstract
As one of the largest classes of lectins, legume lectins have a variety of desirable features such as antibacterial and insecticidal activities as well as anti-abiotic stress ability. The Sclerotinia disease (SD) caused by the soil-borne fungus Sclerotinia sclerotiorum is a devastating disease affecting most oil crops such as Brassica napus. Here, we identified 130 legume lectin (LegLu) genes in B. napus, which could be phylogenetically classified into seven clusters. The BnLegLu gene family has been significantly expanded since the whole-genome duplication (WGD) or segmental duplication. Gene structure and conserved motif analysis suggested that the BnLegLu genes were well conserved in each cluster. Moreover, relative to those genes only containing the legume lectin domain in cluster VI-VII, the genes in cluster I-V harbored a transmembrane domain and a kinase domain linked to the legume lectin domain in the C terminus. The expression of most BnLegLu genes was relatively low in various tissues. Thirty-five BnLegLu genes were responsive to abiotic stress, and 40 BnLegLu genes were strongly induced by S. sclerotiorum, with a most significant up-regulation of 715-fold, indicating their functional roles in SD resistance. Four BnLegLu genes were located in the candidate regions of genome-wide association analysis (GWAS) results which resulted from a worldwide rapeseed population consisting of 324 accessions associated with SD. Among them, the positive role of BnLegLus-16 in SD resistance was validated by transient expression in tobacco leaves. This study provides important information on BnLegLu genes, particularly about their roles in SD resistance, which may help targeted functional research and genetic improvement in the breeding of B. napus.
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Affiliation(s)
- Rong Zuo
- The Key Laboratory of Biology and Genetic Improvement of Oil Crops, The Ministry of Agriculture and Rural Affairs of PRC, Oil Crops Research Institute, Chinese Academy of Agricultural Sciences, Wuhan, China
| | - Meili Xie
- The Key Laboratory of Biology and Genetic Improvement of Oil Crops, The Ministry of Agriculture and Rural Affairs of PRC, Oil Crops Research Institute, Chinese Academy of Agricultural Sciences, Wuhan, China
| | - Feng Gao
- The Key Laboratory of Biology and Genetic Improvement of Oil Crops, The Ministry of Agriculture and Rural Affairs of PRC, Oil Crops Research Institute, Chinese Academy of Agricultural Sciences, Wuhan, China
| | - Jie Liu
- The Key Laboratory of Biology and Genetic Improvement of Oil Crops, The Ministry of Agriculture and Rural Affairs of PRC, Oil Crops Research Institute, Chinese Academy of Agricultural Sciences, Wuhan, China
| | | | - Xiaohui Cheng
- The Key Laboratory of Biology and Genetic Improvement of Oil Crops, The Ministry of Agriculture and Rural Affairs of PRC, Oil Crops Research Institute, Chinese Academy of Agricultural Sciences, Wuhan, China
| | - Yueying Liu
- The Key Laboratory of Biology and Genetic Improvement of Oil Crops, The Ministry of Agriculture and Rural Affairs of PRC, Oil Crops Research Institute, Chinese Academy of Agricultural Sciences, Wuhan, China
| | - Zetao Bai
- The Key Laboratory of Biology and Genetic Improvement of Oil Crops, The Ministry of Agriculture and Rural Affairs of PRC, Oil Crops Research Institute, Chinese Academy of Agricultural Sciences, Wuhan, China
| | - Shengyi Liu
- The Key Laboratory of Biology and Genetic Improvement of Oil Crops, The Ministry of Agriculture and Rural Affairs of PRC, Oil Crops Research Institute, Chinese Academy of Agricultural Sciences, Wuhan, China
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Abstract
Lectins are widely distributed proteins having ability of binding selectively and reversibly with carbohydrates moieties and glycoconjugates. Although lectins have been reported from different biological sources, the legume lectins are the best-characterized family of plant lectins. Legume lectins are a large family of homologous proteins with considerable similarity in amino acid sequence and their tertiary structures. Despite having strong sequence conservation, these lectins show remarkable variability in carbohydrate specificity and quaternary structures. The ability of legume lectins in recognizing glycans and glycoconjugates on cells and other intracellular structures make them a valuable research tool in glycomic research. Due to variability in binding with glycans, glycoconjugates and multiple biological functions, legume lectins are the subject of intense research for their diverse application in different fields such as glycobiology, biomedical research and crop improvement. The present review specially focuses on structural and functional characteristics of legume lectins along with their potential areas of application.
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Affiliation(s)
- Rajan Katoch
- Biochemistry Laboratory, Department of Genetics and Plant Breeding, CSKHPKV, Palampur, 176 062 India
| | - Ankur Tripathi
- Biochemistry Laboratory, Department of Genetics and Plant Breeding, CSKHPKV, Palampur, 176 062 India
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Nascimento KS, Silva MTL, Oliveira MV, Lossio CF, Pinto-Junior VR, Osterne VJS, Cavada BS. Dalbergieae lectins: A review of lectins from species of a primitive Papilionoideae (leguminous) tribe. Int J Biol Macromol 2019; 144:509-526. [PMID: 31857177 DOI: 10.1016/j.ijbiomac.2019.12.117] [Citation(s) in RCA: 12] [Impact Index Per Article: 2.4] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 09/06/2019] [Revised: 11/06/2019] [Accepted: 12/14/2019] [Indexed: 01/24/2023]
Abstract
Lectins are (glyco)proteins capable of reversibly binding to specific carbohydrates, thus having various functions and applications. Plant lectins are the best studied, and the Leguminoseae family is highlighted in a number of published works, especially species of the Papilionoideae subfamily. Dalbergieae is one of the tribes in this subfamily comprising 49 genera and over 1300 species. From this tribe, about 26 lectins were studied, among which we can highlight the Arachis hypogaea lectin, widely used in cancer studies. Dalbergieae lectins demonstrate various carbohydrate specificities and biological activities including anti-inflammatory, vasorelaxant, nociceptive, antibacterial, antiviral among others. Structurally, these lectins are quite similar in their three-dimensional folding but present significant differences in oligomerization patterns and in the conservation of carbohydrate-recognition domain. Despite the existence of structural data from some lectins, only sparse literature has reported on this tribe's diversity, not to mention the range of biological effects, determined through specific assays. Therefore, this work will review the most important studies on Dalbergieae lectins and their potential biomedical applications.
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Affiliation(s)
- Kyria Santiago Nascimento
- Departamento de Bioquímica e Biologia Molecular, Universidade Federal do Ceará (UFC), Fortaleza, Ceará, Brazil.
| | - Mayara Torquato Lima Silva
- Departamento de Bioquímica, Universidade Federal de Santa Catarina (UFSC), Florianópolis, Santa Catarina, Brazil
| | - Messias Vital Oliveira
- Departamento de Bioquímica e Biologia Molecular, Universidade Federal do Ceará (UFC), Fortaleza, Ceará, Brazil
| | - Claudia Figueiredo Lossio
- Departamento de Bioquímica e Biologia Molecular, Universidade Federal do Ceará (UFC), Fortaleza, Ceará, Brazil
| | | | - Vinicius Jose Silva Osterne
- Departamento de Bioquímica e Biologia Molecular, Universidade Federal do Ceará (UFC), Fortaleza, Ceará, Brazil
| | - Benildo Sousa Cavada
- Departamento de Bioquímica e Biologia Molecular, Universidade Federal do Ceará (UFC), Fortaleza, Ceará, Brazil.
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Agrawal SB, Ghosh D, Gaikwad SM. Investigation of structural and saccharide binding transitions of Bauhinia purpurea and Wisteria floribunda lectins. Arch Biochem Biophys 2019; 662:134-142. [DOI: 10.1016/j.abb.2018.12.003] [Citation(s) in RCA: 4] [Impact Index Per Article: 0.8] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 10/09/2018] [Revised: 11/19/2018] [Accepted: 12/03/2018] [Indexed: 11/28/2022]
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Crystal structure of Pisum arvense seed lectin (PAL) and characterization of its interaction with carbohydrates by molecular docking and dynamics. Arch Biochem Biophys 2017; 630:27-37. [DOI: 10.1016/j.abb.2017.07.013] [Citation(s) in RCA: 8] [Impact Index Per Article: 1.1] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 05/25/2017] [Revised: 07/19/2017] [Accepted: 07/23/2017] [Indexed: 02/07/2023]
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Legume Lectins: Proteins with Diverse Applications. Int J Mol Sci 2017; 18:ijms18061242. [PMID: 28604616 PMCID: PMC5486065 DOI: 10.3390/ijms18061242] [Citation(s) in RCA: 84] [Impact Index Per Article: 12.0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 04/29/2017] [Revised: 06/01/2017] [Accepted: 06/05/2017] [Indexed: 12/26/2022] Open
Abstract
Lectins are a diverse class of proteins distributed extensively in nature. Among these proteins; legume lectins display a variety of interesting features including antimicrobial; insecticidal and antitumor activities. Because lectins recognize and bind to specific glycoconjugates present on the surface of cells and intracellular structures; they can serve as potential target molecules for developing practical applications in the fields of food; agriculture; health and pharmaceutical research. This review presents the current knowledge of the main structural characteristics of legume lectins and the relationship of structure to the exhibited specificities; provides an overview of their particular antimicrobial; insecticidal and antitumor biological activities and describes possible applications based on the pattern of recognized glyco-targets.
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Yadav P, Shahane G, Ramasamy S, Sengupta D, Gaikwad S. Structuralfunctional insights and studies on saccharide binding of Sophora japonica seed lectin. Int J Biol Macromol 2016; 91:75-84. [DOI: 10.1016/j.ijbiomac.2016.05.047] [Citation(s) in RCA: 12] [Impact Index Per Article: 1.5] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 03/22/2016] [Revised: 05/12/2016] [Accepted: 05/12/2016] [Indexed: 11/26/2022]
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Surya S, Abhilash J, Geethanandan K, Sadasivan C, Haridas M. A profile of protein-protein interaction: Crystal structure of a lectin-lectin complex. Int J Biol Macromol 2016; 87:529-36. [DOI: 10.1016/j.ijbiomac.2016.02.081] [Citation(s) in RCA: 1] [Impact Index Per Article: 0.1] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 01/27/2016] [Revised: 02/29/2016] [Accepted: 02/29/2016] [Indexed: 10/22/2022]
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Almeida AC, Osterne VJDS, Santiago MQ, Pinto-Junior VR, Silva-Filho JC, Lossio CF, Nascimento FLF, Almeida RPH, Teixeira CS, Leal RB, Delatorre P, Rocha BAM, Assreuy AMS, Nascimento KS, Cavada BS. Structural analysis of Centrolobium tomentosum seed lectin with inflammatory activity. Arch Biochem Biophys 2016; 596:73-83. [PMID: 26946944 DOI: 10.1016/j.abb.2016.03.001] [Citation(s) in RCA: 24] [Impact Index Per Article: 3.0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 01/07/2016] [Revised: 02/29/2016] [Accepted: 03/02/2016] [Indexed: 12/16/2022]
Abstract
A glycosylated lectin (CTL) with specificity for mannose and glucose has been detected and purified from seeds of Centrolobium tomentosum, a legume plant from Dalbergieae tribe. It was isolated by mannose-sepharose affinity chromatography. The primary structure was determined by tandem mass spectrometry and consists of 245 amino acids, similar to other Dalbergieae lectins. CTL structures were solved from two crystal forms, a monoclinic and a tetragonal, diffracted at 2.25 and 1.9 Å, respectively. The carbohydrate recognition domain (CRD), metal-binding site and glycosylation site were characterized, and the structural basis for mannose/glucose-binding was elucidated. The lectin adopts the canonical dimeric organization of legume lectins. CTL showed acute inflammatory effect in paw edema model. The protein was subjected to ligand screening (dimannosides and trimannoside) by molecular docking, and interactions were compared with similar lectins possessing the same ligand specificity. This is the first crystal structure of mannose/glucose native seed lectin with proinflammatory activity isolated from the Centrolobium genus.
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Affiliation(s)
- Alysson Chaves Almeida
- Laboratório de Moléculas Biologicamente Ativas - BioMol-Lab, Departamento de Bioquímica e Biologia Molecular, Universidade Federal do Ceará, Fortaleza, Ceará, Brazil
| | - Vinicius Jose da Silva Osterne
- Laboratório de Moléculas Biologicamente Ativas - BioMol-Lab, Departamento de Bioquímica e Biologia Molecular, Universidade Federal do Ceará, Fortaleza, Ceará, Brazil
| | - Mayara Queiroz Santiago
- Laboratório de Moléculas Biologicamente Ativas - BioMol-Lab, Departamento de Bioquímica e Biologia Molecular, Universidade Federal do Ceará, Fortaleza, Ceará, Brazil
| | - Vanir Reis Pinto-Junior
- Laboratório de Moléculas Biologicamente Ativas - BioMol-Lab, Departamento de Bioquímica e Biologia Molecular, Universidade Federal do Ceará, Fortaleza, Ceará, Brazil
| | - Jose Caetano Silva-Filho
- Departamento de Biologia Molecular, Centro de Ciências Exatas e da Natureza - Campus I, Universidade Federal da Paraíba, João Pessoa, Paraíba, Brazil
| | - Claudia Figueiredo Lossio
- Laboratório de Moléculas Biologicamente Ativas - BioMol-Lab, Departamento de Bioquímica e Biologia Molecular, Universidade Federal do Ceará, Fortaleza, Ceará, Brazil
| | | | | | - Claudener Souza Teixeira
- Departamento de Bioquímica e Biologia Molecular, Universidade Federal do Ceará, Fortaleza, Ceará, Brazil
| | - Rodrigo Bainy Leal
- Departamento de Bioquímica, Centro de Ciências Biológicas, Universidade Federal de Santa Catarina, Florianópolis, Santa Catarina, Brazil
| | - Plinio Delatorre
- Departamento de Biologia Molecular, Centro de Ciências Exatas e da Natureza - Campus I, Universidade Federal da Paraíba, João Pessoa, Paraíba, Brazil
| | | | - Ana Maria Sampaio Assreuy
- Instituto de Superior de Ciências Fisiológicas-ISCB, Universidade Estadual do Ceará, Fortaleza, Ceará, Brazil
| | - Kyria Santiago Nascimento
- Laboratório de Moléculas Biologicamente Ativas - BioMol-Lab, Departamento de Bioquímica e Biologia Molecular, Universidade Federal do Ceará, Fortaleza, Ceará, Brazil
| | - Benildo Sousa Cavada
- Laboratório de Moléculas Biologicamente Ativas - BioMol-Lab, Departamento de Bioquímica e Biologia Molecular, Universidade Federal do Ceará, Fortaleza, Ceará, Brazil.
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Pattern Recognition in Legume Lectins to Extrapolate Amino Acid Variability to Sugar Specificity. ADVANCES IN EXPERIMENTAL MEDICINE AND BIOLOGY 2014. [DOI: 10.1007/978-3-319-11280-0_13] [Citation(s) in RCA: 3] [Impact Index Per Article: 0.3] [Reference Citation Analysis] [Track Full Text] [Subscribe] [Scholar Register]
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Shetty KN, Latha VL, Rao RN, Nadimpalli SK, Suguna K. Affinity of a galactose-specific legume lectin from Dolichos lablab to adenine revealed by X-ray cystallography. IUBMB Life 2014; 65:633-44. [PMID: 23794513 DOI: 10.1002/iub.1177] [Citation(s) in RCA: 12] [Impact Index Per Article: 1.2] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 02/10/2013] [Accepted: 03/31/2013] [Indexed: 11/06/2022]
Abstract
Crystal structure analysis of a galactose-specific lectin from a leguminous food crop Dolichos lablab (Indian lablab beans) has been carried out to obtain insights into its quaternary association and lectin-carbohydrate interactions. The analysis led to the identification of adenine binding sites at the dimeric interfaces of the heterotetrameric lectin. Structural details of similar adenine binding were reported in only one legume lectin, Dolichos biflorus, before this study. Here, we present the structure of the galactose-binding D. lablab lectin at different pH values in the native form and in complex with galactose and adenine. This first structure report on this lectin also provides a high resolution atomic view of legume lectin-adenine interactions. The tetramer has two canonical and two DB58-like interfaces. The binding of adenine, a non-carbohydrate ligand, is found to occur at four hydrophobic sites at the core of the tetramer at the DB58-like dimeric interfaces and does not interfere with the carbohydrate-binding site. To support the crystallographic observations, the adenine binding was further quantified by carrying out isothermal calorimetric titration. By this method, we not only estimated the affinity of the lectin to adenine but also showed that adenine binds with negative cooperativity in solution.
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Affiliation(s)
- Kartika N Shetty
- Molecular Biophysics Unit, Indian Institute of Science, Bangalore, Karnataka, India
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Shi Z, An N, Zhao S, Li X, Bao JK, Yue BS. In silico analysis of molecular mechanisms of legume lectin-induced apoptosis in cancer cells. Cell Prolif 2013; 46:86-96. [PMID: 23294355 DOI: 10.1111/cpr.12009] [Citation(s) in RCA: 19] [Impact Index Per Article: 1.7] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 06/06/2012] [Accepted: 10/20/2012] [Indexed: 12/14/2022] Open
Abstract
OBJECTIVES The legume lectin family, one of the most extensively studied plant lectin families, has received increasing attention for the remarkable anti-tumor activities of its members for binding specific cancer cell surface glycoconjugates. MicroRNAs, a class of small, non-coding RNAs, control translation and stability of mRNAs at post-transcriptional and translational levels. To date, accumulating evidence has revealed that microRNAs are involved in progression of a number of human diseases, especially cancers. However, the molecular manners of microRNA-modulated apoptosis in legume lectin-treated cancer cells are still under investigation. MATERIALS AND METHODS We performed in silico analyses to study the interactions between three typical legume lectins (ConA, SFL and SAL) and some specific sugar-containing receptors (for example, EGFR, TNFR1, HSP70 and HSP90). Additionally, we predicted some relevant microRNAs which could significantly regulate these aforementioned targetreceptors and thus inhibiting down-stream cancer-related signaling pathways. RESULTS The results showed that these three legume lectins could competitively bind sugar-containing receptors such as EGFR, TNFR1, HSP70 and HSP90 in two ways, via anti-apoptotic or survival pathways. On the one hand, the legume lectins could induce cancer cell death through triggering receptor-mediated signaling pathways, which resulted from indirect binding between legume lectins and mannoses resided in receptors. On the other hand, direct binding between legume lectins and receptors could lead to steric hindrance, which would disturb efficient interactions between them, and thus, the legume lectins would induce cancer cell death by triggering receptor-mediated signaling pathways. In addition, we identified several relevant microRNAs that regulated these targeted receptors, thereby ultimately causing cancer cell apoptosis. CONCLUSIONS These findings provide new perspectives for exploring microRNA-modulated cell death in legume lectin-treated cancer cells, which could be utilized in combination therapy for future cancer drug development.
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Affiliation(s)
- Z Shi
- School of Life Sciences and Key Laboratory of Bio-resources and Eco-environment, Ministry of Education, Sichuan University, Chengdu, 610064, China
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Sharma A, Vijayan M. Quaternary association in β-prism I fold plant lectins: Insights from X-ray crystallography, modelling and molecular dynamics. J Biosci 2011; 36:793-808. [DOI: 10.1007/s12038-011-9166-2] [Citation(s) in RCA: 10] [Impact Index Per Article: 0.8] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 10/15/2022]
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Geethanandan K, Abhilash J, Bharath SR, Sadasivan C, Haridas M. Crystallization and preliminary X-ray studies of a galactose-specific lectin from the seeds of Spatholobus parviflorus. Acta Crystallogr Sect F Struct Biol Cryst Commun 2011; 67:700-2. [PMID: 21636916 PMCID: PMC3107147 DOI: 10.1107/s174430911101387x] [Citation(s) in RCA: 5] [Impact Index Per Article: 0.4] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 02/24/2011] [Accepted: 04/12/2011] [Indexed: 11/11/2022]
Abstract
A galactose-specific seed lectin was purified from the legume Spatholobus parviflorus and crystallized using the hanging-drop vapour-diffusion technique. The crystals belonged to space group P1, with unit-cell parameters a = 60.998, b = 60.792, c = 78.179 Å, α = 101.32, β = 91.38, γ = 104.32°. X-ray diffraction data were collected under cryoconditions (100 K) to a resolution of 2.04 Å using a MAR image-plate detector system mounted on a rotating-anode X-ray (Cu Kα) generator. Molecular replacement using legume-lectin coordinates as a search model gave a tetrameric structure.
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Affiliation(s)
- K. Geethanandan
- Department of Biotechnology and Microbiology, Kannur University, Kerala 670 661, India
| | - Joseph Abhilash
- Department of Biotechnology and Microbiology, Kannur University, Kerala 670 661, India
| | - S. R. Bharath
- Molecular Biophysics Unit, Indian Institute of Science, Bangalore 560 012, India
| | - C. Sadasivan
- Department of Biotechnology and Microbiology, Kannur University, Kerala 670 661, India
- Inter University Centre for Bioscience, Kannur University, Kerala 670 661, India
| | - M. Haridas
- Department of Biotechnology and Microbiology, Kannur University, Kerala 670 661, India
- Inter University Centre for Bioscience, Kannur University, Kerala 670 661, India
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Abhilash J, Geethanandan K, Bharath SR, Sadasivan C, Haridas M. Crystallization and preliminary X-ray diffraction analysis of a galactose-specific lectin from the seeds of Butea monosperma. Acta Crystallogr Sect F Struct Biol Cryst Commun 2011; 67:524-6. [PMID: 21505258 PMCID: PMC3080167 DOI: 10.1107/s1744309111006853] [Citation(s) in RCA: 3] [Impact Index Per Article: 0.2] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 11/25/2010] [Accepted: 02/22/2011] [Indexed: 11/10/2022]
Abstract
The galactose-specific lectin from the seeds of Butea monosperma has been crystallized by the hanging-drop vapour-diffusion technique. The crystals belonged to space group P1, with unit-cell parameters a = 78.45, b = 78.91, c = 101.85 Å, α = 74.30, β = 76.65, γ = 86.88°. X-ray diffraction data were collected to a resolution of 2.44 Å under cryoconditions (100 K) using a MAR image-plate detector system mounted on a rotating-anode X-ray generator. Molecular-replacement calculations carried out using the coordinates of several structures of legume lectins as search models indicate that the galactose-specific lectin from B. monosperma forms an octamer.
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Affiliation(s)
- Joseph Abhilash
- Department of Biotechnology and Microbiology, Kannur University, Kannur, Kerala 670 661, India
| | - K. Geethanandan
- Department of Biotechnology and Microbiology, Kannur University, Kannur, Kerala 670 661, India
| | - S. R. Bharath
- Molecular Biophysics Unit, Indian Institute of Science, Bangalore 560 012, India
| | - C. Sadasivan
- Department of Biotechnology and Microbiology, Kannur University, Kannur, Kerala 670 661, India
- Inter-University Centre for Biosciences, Kannur University, Kannur, Kerala 670 661, India
| | - M. Haridas
- Department of Biotechnology and Microbiology, Kannur University, Kannur, Kerala 670 661, India
- Inter-University Centre for Biosciences, Kannur University, Kannur, Kerala 670 661, India
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Valadez-Vega C, Guzmán-Partida AM, Soto-Cordova FJ, Álvarez-Manilla G, Morales-González JA, Madrigal-Santillán E, Villagómez-Ibarra JR, Zúñiga-Pérez C, Gutiérrez-Salinas J, Becerril-Flores MA. Purification, biochemical characterization, and bioactive properties of a lectin purified from the seeds of white tepary bean (phaseolus acutifolius variety latifolius). Molecules 2011; 16:2561-82. [PMID: 21441861 PMCID: PMC6259754 DOI: 10.3390/molecules16032561] [Citation(s) in RCA: 13] [Impact Index Per Article: 1.0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 01/19/2011] [Revised: 03/17/2011] [Accepted: 03/17/2011] [Indexed: 02/07/2023] Open
Abstract
The present work shows the characterization of Phaseolus acutifolius variety latifolius, on which little research has been published, and provides detailed information on the corresponding lectin. This protein was purified from a semi-domesticated line of white tepary beans from Sonora, Mexico, by precipitation of the aqueous extract with ammonium sulfate, followed by affinity chromatography on an immobilized fetuin matrix. MALDI TOF analysis of Phaseolus acutifolius agglutinin (PAA) showed that this lectin is composed of monomers with molecular weights ranging between 28 and 31 kDa. At high salt concentrations, PAA forms a dimer of 63 kDa, but at low salt concentrations, the subunits form a tetramer. Analysis of PAA on 2D-PAGE showed that there are mainly three types of subunits with isoelectric points of 4.2, 4.4, and 4.5. The partial sequence obtained by LC/MS/MS of tryptic fragments from the PAA subunits showed 90-100% identity with subunits from genus Phaseolus lectins in previous reports. The tepary bean lectin showed lower hemagglutination activity than Phaseolus vulgaris hemagglutinin (PHA-E) toward trypsinized human A and O type erythrocytes. The hemagglutination activity was inhibited by N-glycans from glycoproteins. Affinity chromatography with the immobilized PAA showed a high affinity to glycopeptides from thyroglobulin, which also has N-glycans with a high content of N-acetylglucosamine. PAA showed less mitogenic activity toward human lymphocytes than PHA-L and Con A. The cytotoxicity of PAA was determined by employing three clones of the 3T3 cell line, demonstrating variability among the clones as follows: T4 (DI₅₀ 51.5 µg/mL); J20 (DI₅₀ 275 µg/mL), and N5 (DI₅₀ 72.5 µg/mL).
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Affiliation(s)
- Carmen Valadez-Vega
- Institute of Health Sciences, Universidad Autónoma del Estado de Hidalgo, Ex-Hacienda de la Concepción, Tilcuautla, CP 42080 Pachuca de Soto, Hgo, Mexico; E-Mails: (J.A.M.-G.); (E.M.-S.); (C.Z.-P.); (M.A.B.-F.)
- Author to whom correspondence should be addressed; E-Mail: ; Tel.: +52-771-717-2000; Fax: +52-771-717-2000, extension 5111
| | - Ana María Guzmán-Partida
- Center for Food Research and Development, A. C. Carretera a la Victoria Km 0.6 C.P. 83304. Hermosillo, Sonora, Mexico; E-Mails: (A.M.G.-P.); (F.J.S.-C.)
| | - Francisco Javier Soto-Cordova
- Center for Food Research and Development, A. C. Carretera a la Victoria Km 0.6 C.P. 83304. Hermosillo, Sonora, Mexico; E-Mails: (A.M.G.-P.); (F.J.S.-C.)
| | | | - José A. Morales-González
- Institute of Health Sciences, Universidad Autónoma del Estado de Hidalgo, Ex-Hacienda de la Concepción, Tilcuautla, CP 42080 Pachuca de Soto, Hgo, Mexico; E-Mails: (J.A.M.-G.); (E.M.-S.); (C.Z.-P.); (M.A.B.-F.)
| | - Eduardo Madrigal-Santillán
- Institute of Health Sciences, Universidad Autónoma del Estado de Hidalgo, Ex-Hacienda de la Concepción, Tilcuautla, CP 42080 Pachuca de Soto, Hgo, Mexico; E-Mails: (J.A.M.-G.); (E.M.-S.); (C.Z.-P.); (M.A.B.-F.)
| | - José Roberto Villagómez-Ibarra
- Basic Science and Engineering Institute, Universidad Autónoma del Estado de Hidalgo, Carr. A-Pachuca-Tulancingo Km 4.5 Cd Universitaria, CP 42184, Mineral de la Reforma, Hgo, Mexico; E-Mail: (J.R.V.-I.)
| | - Clara Zúñiga-Pérez
- Institute of Health Sciences, Universidad Autónoma del Estado de Hidalgo, Ex-Hacienda de la Concepción, Tilcuautla, CP 42080 Pachuca de Soto, Hgo, Mexico; E-Mails: (J.A.M.-G.); (E.M.-S.); (C.Z.-P.); (M.A.B.-F.)
| | - José Gutiérrez-Salinas
- Laboratory of Biochemistry and Experimental Medicine, Division of Biomedical Research, National Medical Center “20 de Noviembre”, ISSSTE, México D.F., Mexico; E-Mail: (J.G.-S.)
| | - Marco A. Becerril-Flores
- Institute of Health Sciences, Universidad Autónoma del Estado de Hidalgo, Ex-Hacienda de la Concepción, Tilcuautla, CP 42080 Pachuca de Soto, Hgo, Mexico; E-Mails: (J.A.M.-G.); (E.M.-S.); (C.Z.-P.); (M.A.B.-F.)
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18
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Complete primary structure of a newly characterized galactose-specific lectin from the seeds of Dolichos lablab. Glycoconj J 2008; 26:161-72. [DOI: 10.1007/s10719-008-9173-1] [Citation(s) in RCA: 4] [Impact Index Per Article: 0.3] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 05/30/2008] [Revised: 07/24/2008] [Accepted: 07/28/2008] [Indexed: 11/25/2022]
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19
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Gubaidullin II, Baimiev AK, Chemeris AV, Vakhitov VA. Construction of chimeric lectins with new sugar-binding properties. DOKL BIOCHEM BIOPHYS 2007; 411:349-50. [PMID: 17396579 DOI: 10.1134/s160767290606007x] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [MESH Headings] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/23/2022]
Affiliation(s)
- I I Gubaidullin
- Institute of Biochemistry and Genetics, Ufa Scientific Center Russian Academy of Sciences, pr Oktyabrya 71, Ufa, 450054 Bashkortostan, Russia
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20
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Brinda K, Surolia A, Vishveshwara S. Insights into the quaternary association of proteins through structure graphs: a case study of lectins. Biochem J 2006; 391:1-15. [PMID: 16173917 PMCID: PMC1237133 DOI: 10.1042/bj20050434] [Citation(s) in RCA: 48] [Impact Index Per Article: 2.7] [Reference Citation Analysis] [Abstract] [MESH Headings] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/17/2022]
Abstract
The unique three-dimensional structure of both monomeric and oligomeric proteins is encoded in their sequence. The biological functions of proteins are dependent on their tertiary and quaternary structures, and hence it is important to understand the determinants of quaternary association in proteins. Although a large number of investigations have been carried out in this direction, the underlying principles of protein oligomerization are yet to be completely understood. Recently, new insights into this problem have been gained from the analysis of structure graphs of proteins belonging to the legume lectin family. The legume lectins are an interesting family of proteins with very similar tertiary structures but varied quaternary structures. Hence they have become a very good model with which to analyse the role of primary structures in determining the modes of quaternary association. The present review summarizes the results of a legume lectin study as well as those obtained from a similar analysis carried out here on the animal lectins, namely galectins, pentraxins, calnexin, calreticulin and rhesus rotavirus Vp4 sialic-acid-binding domain. The lectin structure graphs have been used to obtain clusters of non-covalently interacting amino acid residues at the intersubunit interfaces. The present study, performed along with traditional sequence alignment methods, has provided the signature sequence motifs for different kinds of quaternary association seen in lectins. Furthermore, the network representation of the lectin oligomers has enabled us to detect the residues which make extensive interactions ('hubs') across the oligomeric interfaces that can be targetted for interface-destabilizing mutations. The present review also provides an overview of the methodology involved in representing oligomeric protein structures as connected networks of amino acid residues. Further, it illustrates the potential of such a representation in elucidating the structural determinants of protein-protein association in general and will be of significance to protein chemists and structural biologists.
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Affiliation(s)
- K. V. Brinda
- Molecular Biophysics Unit, Indian Institute of Science, Bangalore, India 560012
| | - Avadhesha Surolia
- Molecular Biophysics Unit, Indian Institute of Science, Bangalore, India 560012
- Correspondence can be addressed to either of these authors (email or )
| | - Sarawathi Vishveshwara
- Molecular Biophysics Unit, Indian Institute of Science, Bangalore, India 560012
- Correspondence can be addressed to either of these authors (email or )
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21
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Sinha S, Mitra N, Kumar G, Bajaj K, Surolia A. Unfolding studies on soybean agglutinin and concanavalin a tetramers: a comparative account. Biophys J 2005; 88:1300-10. [PMID: 15542553 PMCID: PMC1305132 DOI: 10.1529/biophysj.104.051052] [Citation(s) in RCA: 44] [Impact Index Per Article: 2.3] [Reference Citation Analysis] [Abstract] [MESH Headings] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 08/06/2004] [Accepted: 11/03/2004] [Indexed: 11/18/2022] Open
Abstract
The unfolding pathway of two very similar tetrameric legume lectins soybean agglutinin (SBA) and Concanavalin A (ConA) were determined using GdnCl-induced denaturation. Both proteins displayed a reversible two-state unfolding mechanism. The analysis of isothermal denaturation data provided values for conformational stability of the two proteins. It was found that the DeltaG of unfolding of SBA was much higher than ConA at all the temperatures at which the experiments were done. ConA had a T(g) 18 degrees C less than SBA. The higher conformational stability of SBA in comparison to ConA is largely due to substantial differences in their degrees of subunit interactions. Ionic interactions at the interface of the two proteins especially at the noncanonical interface seem to play a significant role in the observed stability differences between these two proteins. Furthermore, SBA is a glycoprotein with a GlcNac2Man9 chain attached to Asn-75 of each subunit. The sugar chain in SBA lies at the noncanonical interface of the protein, and it is found to interact with the amino acid residues in the adjacent noncanonical interface. These interactions further stabilize SBA with respect to ConA, which is not glycosylated.
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Affiliation(s)
- Sharmistha Sinha
- Molecular Biophysics Unit, Indian Institute of Science, Bangalore-560012, India
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22
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Brinda KV, Mitra N, Surolia A, Vishveshwara S. Determinants of quaternary association in legume lectins. Protein Sci 2005; 13:1735-49. [PMID: 15215518 PMCID: PMC2279936 DOI: 10.1110/ps.04651004] [Citation(s) in RCA: 56] [Impact Index Per Article: 2.9] [Reference Citation Analysis] [Abstract] [MESH Headings] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 10/26/2022]
Abstract
It is well known that the sequence of amino acids in proteins code for its tertiary structure. It is also known that there exists a relationship between sequence and the quaternary structure of proteins. The question addressed here is whether the nature of quaternary association can be predicted from the sequence, similar to the three-dimensional structure prediction from the sequence. The class of proteins called legume lectins is an interesting model system to investigate this problem, because they have very high sequence and tertiary structure homology, with diverse forms of quaternary association. Hence, we have used legume lectins as a probe in this paper to (1) gain novel insights about the relationship between sequence and quaternary structure; (2) identify the sequence motifs that are characteristic of a given type of quaternary association; and (3) predict the quaternary association from the sequence motif.
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Affiliation(s)
- K V Brinda
- Molecular Biophysics Unit, Indian Institute of Science, Bangalore 560012, India
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23
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Kulkarni KA, Srivastava A, Mitra N, Sharon N, Surolia A, Vijayan M, Suguna K. Effect of glycosylation on the structure of Erythrina corallodendron lectin. Proteins 2004; 56:821-7. [PMID: 15281133 DOI: 10.1002/prot.20168] [Citation(s) in RCA: 11] [Impact Index Per Article: 0.6] [Reference Citation Analysis] [Abstract] [MESH Headings] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 10/26/2022]
Abstract
The three-dimensional structure of the recombinant form of Erythrina corallodendron lectin, complexed with lactose, has been elucidated by X-ray crystallography at 2.55 A resolution. Comparison of this non-glycosylated structure with that of the native glycosylated lectin reveals that the tertiary and quaternary structures are identical in the two forms, with local changes observed at one of the glycosylation sites (Asn17). These changes take place in such a way that hydrogen bonds with the neighboring protein molecules in rECorL compensate those made by the glycan with the protein in ECorL. Contrary to an earlier report, this study demonstrates that the glycan attached to the lectin does not influence the oligomeric state of the lectin. Identical interactions between the lectin and the non-covalently bound lactose in the two forms indicate, in line with earlier reports, that glycosylation does not affect the carbohydrate specificity of the lectin. The present study, the first of its kind involving a glycosylated protein with a well-defined glycan and the corresponding deglycosylated form, provides insights into the structural aspects of protein glycosylation.
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Affiliation(s)
- K A Kulkarni
- Molecular Biophysics Unit, Indian Institute of Science, Bangalore, India
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24
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Leulliot N, Quevillon-Cheruel S, Sorel I, Graille M, Meyer P, Liger D, Blondeau K, Janin J, van Tilbeurgh H. Crystal Structure of Yeast Allantoicase Reveals a Repeated Jelly Roll Motif. J Biol Chem 2004; 279:23447-52. [PMID: 15020593 DOI: 10.1074/jbc.m401336200] [Citation(s) in RCA: 19] [Impact Index Per Article: 1.0] [Reference Citation Analysis] [Abstract] [MESH Headings] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/06/2022] Open
Abstract
Allantoicase (EC 3.5.3.4) catalyzes the conversion of allantoate into ureidoglycolate and urea, one of the final steps in the degradation of purines to urea. The mechanism of most enzymes involved in this pathway, which has been known for a long time, is unknown. In this paper we describe the three-dimensional crystal structure of the yeast allantoicase determined at a resolution of 2.6 A by single anomalous diffraction. This constitutes the first structure for an enzyme of this pathway. The structure reveals a repeated jelly roll beta-sheet motif, also present in proteins of unrelated biochemical function. Allantoicase has a hexameric arrangement in the crystal (dimer of trimers). Analysis of the protein sequence against the structural data reveals the presence of two totally conserved surface patches, one on each jelly roll motif. The hexameric packing concentrates these patches into conserved pockets that probably constitute the active site.
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Affiliation(s)
- Nicolas Leulliot
- Institut de Biochimie et de Biophysique Moléculaire et Cellulaire (CNRS-Unité Mixte de Recherche 8619), Université Paris-Sud, Bâtiment 430, 91405 Orsay, France
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25
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Loris R, Van Walle I, De Greve H, Beeckmans S, Deboeck F, Wyns L, Bouckaert J. Structural Basis of Oligomannose Recognition by the Pterocarpus angolensis Seed Lectin. J Mol Biol 2004; 335:1227-40. [PMID: 14729339 DOI: 10.1016/j.jmb.2003.11.043] [Citation(s) in RCA: 38] [Impact Index Per Article: 1.9] [Reference Citation Analysis] [Abstract] [MESH Headings] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/29/2022]
Abstract
The crystal structure of a Man/Glc-specific lectin from the seeds of the bloodwood tree (Pterocarpus angolensis), a leguminous plant from central Africa, has been determined in complex with mannose and five manno-oligosaccharides. The lectin contains a classical mannose-specificity loop, but its metal-binding loop resembles that of lectins of unrelated specificity from Ulex europaeus and Maackia amurensis. As a consequence, the interactions with mannose in the primary binding site are conserved, but details of carbohydrate-binding outside the primary binding site differ from those seen in the equivalent carbohydrate complexes of concanavalin A. These observations explain the differences in their respective fine specificity profiles for oligomannoses. While Man(alpha1-3)Man and Man(alpha1-3)[Man(alpha1-6)]Man bind to PAL in low-energy conformations identical with that of ConA, Man(alpha1-6)Man is required to adopt a different conformation. Man(alpha1-2)Man can bind only in a single binding mode, in sharp contrast to ConA, which creates a higher affinity for this disaccharide by allowing two binding modes.
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Affiliation(s)
- Remy Loris
- Laboratorium voor Ultrastructuur, Instituut voor Moleculaire Biologie, Building E, Vrije Universiteit Brussel and Vlaams Instituut voor Biotechnologie, Pleinlaan 2, B-1050 Brussel, Belgium.
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26
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Schrag JD, Procopio DO, Cygler M, Thomas DY, Bergeron JJM. Lectin control of protein folding and sorting in the secretory pathway. Trends Biochem Sci 2003; 28:49-57. [PMID: 12517452 DOI: 10.1016/s0968-0004(02)00004-x] [Citation(s) in RCA: 127] [Impact Index Per Article: 6.0] [Reference Citation Analysis] [Abstract] [MESH Headings] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/26/2022]
Abstract
Glycan moieties are essential for folding, sorting and targeting of glycoproteins through the secretory pathway to various cellular compartments. The molecular mechanisms that underlie these processes, however, are only now coming to light. Recent crystallographic and NMR studies of proteins located in the endoplasmic reticulum (ER), Golgi complex and ER-Golgi intermediate compartment have illuminated their roles in glycoprotein folding and secretion. Calnexin and calreticulin, both ER-resident proteins, have lectin domains that are crucial for their function as chaperones. The crystal structure of the carbohydrate-recognition domain of ER-Golgi intermediate compartment (ERGIC)-53 complements the biochemical and functional characterization of the protein, confirming that a lectin domain is essential for the role of this protein in sorting and transfer of glycoproteins from the ER to the Golgi complex. The lectin domains of calnexin and ERGIC-53 are structurally similar, although there is little primary sequence similarity. By contrast, sequence similarity between ERGIC-53 and vesicular integral membrane protein (VIP36), a Golgi-resident protein, leaves little doubt that a similar lectin domain is central to the transport and/or sorting functions of VIP36. The theme emerging from these studies is that carbohydrate recognition and modification are central to mediation of glycoprotein folding and secretion.
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Affiliation(s)
- Joseph D Schrag
- Biotechnology Research Institute, NRC of Canada, Montreal, PQ, Canada
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