1
|
Borisova AS, Eneyskaya EV, Bobrov KS, Jana S, Logachev A, Polev DE, Lapidus AL, Ibatullin FM, Saleem U, Sandgren M, Payne CM, Kulminskaya AA, Ståhlberg J. Sequencing, biochemical characterization, crystal structure and molecular dynamics of cellobiohydrolase Cel7A from
Geotrichum candidum
3C. FEBS J 2015; 282:4515-37. [DOI: 10.1111/febs.13509] [Citation(s) in RCA: 33] [Impact Index Per Article: 3.7] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 06/17/2015] [Revised: 08/13/2015] [Accepted: 09/04/2015] [Indexed: 01/01/2023]
Affiliation(s)
- Anna S. Borisova
- Department of Chemistry and Biotechnology Swedish University of Agricultural Sciences Uppsala Sweden
- National Research Centre «Kurchatov Institute» B.P. Konstantinov Petersburg Nuclear Physics Institute Gatchina Orlova roscha Russia
| | - Elena V. Eneyskaya
- National Research Centre «Kurchatov Institute» B.P. Konstantinov Petersburg Nuclear Physics Institute Gatchina Orlova roscha Russia
| | - Kirill S. Bobrov
- National Research Centre «Kurchatov Institute» B.P. Konstantinov Petersburg Nuclear Physics Institute Gatchina Orlova roscha Russia
| | - Suvamay Jana
- Department of Chemical and Materials Engineering University of Kentucky Lexington KY USA
| | - Anton Logachev
- Theodosius Dobzhansky Center for Genome Bioinformatics St. Petersburg State University Russia
| | - Dmitrii E. Polev
- Research Resource Centre «Molecular and Cell Technologies» St. Petersburg State University Russia
| | - Alla L. Lapidus
- Centre for Algorithmic Biotechnology St. Petersburg Academic University Russia
| | - Farid M. Ibatullin
- National Research Centre «Kurchatov Institute» B.P. Konstantinov Petersburg Nuclear Physics Institute Gatchina Orlova roscha Russia
| | - Umair Saleem
- Department of Chemistry and Biotechnology Swedish University of Agricultural Sciences Uppsala Sweden
| | - Mats Sandgren
- Department of Chemistry and Biotechnology Swedish University of Agricultural Sciences Uppsala Sweden
| | - Christina M. Payne
- Department of Chemical and Materials Engineering University of Kentucky Lexington KY USA
| | - Anna A. Kulminskaya
- National Research Centre «Kurchatov Institute» B.P. Konstantinov Petersburg Nuclear Physics Institute Gatchina Orlova roscha Russia
- Department of Medical Physics Peter the Great St. Petersburg Polytechnic University Russia
| | - Jerry Ståhlberg
- Department of Chemistry and Biotechnology Swedish University of Agricultural Sciences Uppsala Sweden
| |
Collapse
|
2
|
Pearson S, Lu H, Stenzel MH. Glycopolymer Self-Assemblies with Gold(I) Complexed to the Core as a Delivery System for Auranofin. Macromolecules 2015. [DOI: 10.1021/ma502263x] [Citation(s) in RCA: 12] [Impact Index Per Article: 1.3] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 01/17/2023]
Affiliation(s)
- Samuel Pearson
- Centre for Advanced Macromolecular
Design, School of Chemistry, The University of New South Wales, UNSW, Sydney, NSW 2052, Australia
| | - Hongxu Lu
- Centre for Advanced Macromolecular
Design, School of Chemistry, The University of New South Wales, UNSW, Sydney, NSW 2052, Australia
| | - Martina H. Stenzel
- Centre for Advanced Macromolecular
Design, School of Chemistry, The University of New South Wales, UNSW, Sydney, NSW 2052, Australia
| |
Collapse
|
3
|
Repetto E, Manzano VE, Uhrig ML, Varela O. Synthesis of Branched Dithiotrisaccharides via Ring-Opening Reaction of Sugar Thiiranes. J Org Chem 2011; 77:253-65. [DOI: 10.1021/jo2018685] [Citation(s) in RCA: 32] [Impact Index Per Article: 2.5] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/21/2022]
Affiliation(s)
- Evangelina Repetto
- CIHIDECAR-CONICET, Departamento de Química Orgánica,
Facultad de Ciencias Exactas y Naturales, Universidad de Buenos Aires, Argentina
| | - Verónica E. Manzano
- CIHIDECAR-CONICET, Departamento de Química Orgánica,
Facultad de Ciencias Exactas y Naturales, Universidad de Buenos Aires, Argentina
| | - María Laura Uhrig
- CIHIDECAR-CONICET, Departamento de Química Orgánica,
Facultad de Ciencias Exactas y Naturales, Universidad de Buenos Aires, Argentina
| | - Oscar Varela
- CIHIDECAR-CONICET, Departamento de Química Orgánica,
Facultad de Ciencias Exactas y Naturales, Universidad de Buenos Aires, Argentina
| |
Collapse
|
4
|
Manzano VE, Uhrig ML, Varela O. Straightforward synthesis of thiodisaccharides by ring-opening of sugar epoxides. J Org Chem 2008; 73:7224-35. [PMID: 18717587 DOI: 10.1021/jo8012397] [Citation(s) in RCA: 27] [Impact Index Per Article: 1.7] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/30/2022]
Abstract
3,4-Anhydro hexopyranosides have been prepared by diastereoselective epoxidation of derivatives of 2-propyl 3,4-dideoxy-alpha-D-erythro-hex-3-enopyranoside (5), selectively protected at HO-2 and HO-6. The allylic group at C-2, in 5 and derivatives, plays a critical role in the facial selectivity of the epoxidation reaction. Thus, the free HO-2 in 3 (the 6-O-acetyl derivative of 5) directs the attack of m-chloroperbenzoic acid from the more hindered alpha face of the molecule to give 2-propyl 6-O-acetyl-3,4-anhydro-alpha-D-allopyranoside (7) accompanied by the beta epoxide 6 as a very minor product. Reverse diastereoselectivity has been obtained when the HO-2 in 3 was substituted by a bulky tert-butyldimethylsilyl (TBS) group. In this case, the major isomer was the 2-O-TBS derivative of 6 (alpha-D-galacto configuration). The ring-opening of sugar epoxides by nucleophilic per-O-acetyl-1-thio-beta-D-glucopyranose (11) was employed as a convenient approach to the synthesis of (1-->3)- and (1-->4)-thiodisaccharides. For example, ring-opening of the oxirane 7 by 11 led to the expected regioisomeric per-O-acetyl thiodisaccharides beta-D-Glc-S-(1-->3)-4-thio-alpha-D-Glc-O-iPr (12) and beta-D-Glc-S-(1-->4)-4-thio-alpha-D-Gul-O-iPr (13). Regioselectivity in the construction of the (1-->4)-thioglycosidic linkage could be achieved by hindering C-3 of the 3,4-anhydro sugar with a bulky silyloxy group at the vicinal C-2. For instance, coupling of the 2-O-TBS derivative of 7 with 11 led regioselectively to the protected thiodisaccharide beta-D-Glc-S-(1-->4)-4-thio-alpha-D-Glc-O-iPr (27). The utility of the approach was demonstrated through the synthesis of sulfur-linked analogues of naturally occurring (laminarabiose and cellobiose) and non-natural disaccharides (i.e., beta-D-Glc-(1-->4)-alpha-D-Gul).
Collapse
Affiliation(s)
- Verónica E Manzano
- CIHIDECAR-CONICET, Departamento de Química Orgánica, Facultad de Ciencias Exactas y Naturales, Universidad de Buenos Aires, Argentina
| | | | | |
Collapse
|
5
|
Varrot A, Leydier S, Pell G, Macdonald JM, Stick RV, Henrissat B, Gilbert HJ, Davies GJ. Mycobacterium tuberculosis Strains Possess Functional Cellulases. J Biol Chem 2005; 280:20181-4. [PMID: 15824123 DOI: 10.1074/jbc.c500142200] [Citation(s) in RCA: 57] [Impact Index Per Article: 3.0] [Reference Citation Analysis] [Abstract] [MESH Headings] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/06/2022] Open
Abstract
The genomes of various Mycobacterium tuberculosis strains encode proteins that do not appear to play a role in the growth or survival of the bacterium in its mammalian host, including some implicated in plant cell wall breakdown. Here we show that M. tuberculosis H37Rv does indeed possess a functional cellulase. The x-ray crystal structure of this enzyme, in ligand complex forms, from 1.9 to 1.1A resolution, reveals a highly conserved substrate-binding cleft, which affords similar, and unusual, distortion of the substrate at the catalytic center. The endoglucanase activity, together with the existence of a putative membrane-associated crystalline polysaccharide-binding protein, may reflect the ancestral soil origin of the Mycobacterium or hint at a previously unconsidered environmental niche.
Collapse
Affiliation(s)
- Annabelle Varrot
- York Structural Biology Laboratory, Department of Chemistry, University of York, York, Y010 5YW, United Kingdom
| | | | | | | | | | | | | | | |
Collapse
|
6
|
Stick RV, Stubbs KA. From glycoside hydrolases to thioglycoligases: the synthesis of thioglycosides. ACTA ACUST UNITED AC 2005. [DOI: 10.1016/j.tetasy.2004.12.004] [Citation(s) in RCA: 36] [Impact Index Per Article: 1.9] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/26/2022]
|
7
|
Varrot A, Frandsen TP, von Ossowski I, Boyer V, Cottaz S, Driguez H, Schülein M, Davies GJ. Structural basis for ligand binding and processivity in cellobiohydrolase Cel6A from Humicola insolens. Structure 2003; 11:855-64. [PMID: 12842048 DOI: 10.1016/s0969-2126(03)00124-2] [Citation(s) in RCA: 94] [Impact Index Per Article: 4.5] [Reference Citation Analysis] [Abstract] [MESH Headings] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/22/2022]
Abstract
The enzymatic digestion of cellulose entails intimate involvement of cellobiohydrolases, whose characteristic active-center tunnel contributes to a processive degradation of the polysaccharide. The cellobiohydrolase Cel6A displays an active site within a tunnel formed by two extended loops, which are known to open and close in response to ligand binding. Here we present five structures of wild-type and mutant forms of Cel6A from Humicola insolens in complex with nonhydrolyzable thio-oligosaccharides, at resolutions from 1.7-1.1 A, dissecting the structural accommodation of a processing substrate chain through the active center during hydrolysis. Movement of ligand is facilitated by extensive solvent-mediated interactions and through flexibility in the hydrophobic surfaces provided by a sheath of tryptophan residues.
Collapse
Affiliation(s)
- Annabelle Varrot
- Department of Chemistry, University of York, Heslington, Y010 5YW, York, United Kingdom
| | | | | | | | | | | | | | | |
Collapse
|
8
|
Abstract
Oligosaccharides in which at least one glycosidic oxygen atom is replaced with a sulfur atom can be routinely synthesized and act as competitive inhibitors of various glycoside hydrolases. Recent studies using both X-ray crystallography and other biophysical techniques provide structural insight into binding, recognition, and the catalytic mechanism of action of these enzymes.
Collapse
Affiliation(s)
- H Driguez
- Centre de Recherches sur les Macromolécules Végétales (CERMAV-CNRS), Affiliated with Université Joseph Fourier, Grenoble B.P. 53, 38041 Grenoble cedex 9, France.
| |
Collapse
|
9
|
Fort S, Varrot A, Schülein M, Cottaz S, Driguez H, Davies GJ. Mixed-linkage cellooligosaccharides: a new class of glycoside hydrolase inhibitors. Chembiochem 2001; 2:319-25. [PMID: 11828460 DOI: 10.1002/1439-7633(20010504)2:5<319::aid-cbic319>3.0.co;2-q] [Citation(s) in RCA: 18] [Impact Index Per Article: 0.8] [Reference Citation Analysis] [Abstract] [MESH Headings] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/09/2022]
Abstract
A new class of inhibitors for beta-D-glycoside hydrolases, in which a single alpha-(1-->4)-glycosidic bond is incorporated into an otherwise all-beta-(1-->4)-linked oligosaccharide, is described. Such mixed beta/alpha-linkage cellooligosaccharides are not transition-state mimics, but instead are capable of utilising binding energy from numerous subsites, spanning either side of the catalytic centre, without the need for substrate distortion. This binding is significant; a mixed alpha/beta-D-tetrasaccharide acts competitively on a number of cellulases, displaying inhibition constants in the range of 40-300 microM. Using the Bacillus agaradhaerens enzyme Cel5A as a model system, one such mixed beta/alpha-cellooligosaccharide, methyl 4(II),4(III)-dithio-alpha-cellobiosyl-(1-->4)-beta-cellobioside, displays a K(i) value of 100 microM, an inhibition at least 150 times better than is observed with an equivalent all-beta-linked compound. The three-dimensional structure of B. agaradhaerens Cel5A in complex with methyl 4(II),4(III)-dithio-alpha-cellobiosyl-(1-->4)-beta-cellobioside has been determined at 1.8 A resolution. This confirms the expected mode of binding in which the ligand, with all four pyranosides in the (4)C(1) chair conformation, occupies the -3, -2 and +1 subsites whilst evading the catalytic (-1) subsite. Such "by-pass" compounds offer great scope for the development of a new class of beta-D-glycoside hydrolase inhibitors.
Collapse
Affiliation(s)
- S Fort
- Centre de Recherches sur les Macromolécules Végétales (CERMAV-CNRS), Affiliated with Université Joseph Fourier, Grenoble B.P. 53, 38041 Grenoble cedex 9, France
| | | | | | | | | | | |
Collapse
|
10
|
Fort S, Coutinho PM, Schülein M, Nardin R, Cottaz S, Driguez H. The rational design of an iminosugar inhibitor able to mimic substrate distortion occurring during retaining-cellulase hydrolysis. Tetrahedron Lett 2001. [DOI: 10.1016/s0040-4039(01)00486-5] [Citation(s) in RCA: 4] [Impact Index Per Article: 0.2] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 10/27/2022]
|
11
|
Abstract
We present the analysis of the activities towards soluble and insoluble substrates of seven cellulases cloned from the saprophytic fungus Humicola insolens. The activity on the soluble polymer substrate carboxymethylcellulose (CMC) was used to determine the pH activity profiles of the five endoglucanases (EG), whereas cellotriose and reduced cellohexaose were used to determine the pH activity profiles of cellobiohydrolase I (CBH) and CBH II. All the EGs show optimal activity between pH 7 and 8.5, while CBH I and CBH II peak around pH 5.5 and 9, respectively. The catalytic activities of five of these cellulases were investigated under neutral and alkaline conditions using reduced cellohexaose as a substrate in a cellobiose oxidase coupled assay. EG I and CBH I both belong to family (7) according to a recent classification of glycosyl hydrolases. They both have activity against cellotriose. Therefore, they were studied using a coupled assay involving glucose oxidase. The activity on insoluble substrate (phosphoric-acid swollen cellulose) was assessed by the formation of reducing groups. The presence of a cellulose binding domain (CBD) lowers the apparent KM. This can be explained by the dispersing action of CBD. However, the CBD also reduces the apparent k(cat) probably by slowing down the mobility. EG I, EG II and EG III show similar activity towards CMC and amorphous cellulose, while EG V, EG VI, CBH I and CBH II have the highest catalytic rate on amorphous cellulose. In summary, Humicola insolens possesses a battery of cellulose-degrading enzymes which cooperate in the efficient hydrolysis of cellulose.
Collapse
Affiliation(s)
- M Schülein
- Novo Nordisk, Novo Allé, Bagsvaerd, Denmark.
| |
Collapse
|
12
|
Thiooligosaccharides in glycobiology. GLYCOSCIENCE SYNTHESIS OF SUBSTRATE ANALOGS AND MIMETICS 1997. [DOI: 10.1007/bfb0119254] [Citation(s) in RCA: 131] [Impact Index Per Article: 4.9] [Reference Citation Analysis] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 12/23/2022]
|
13
|
Sulzenbacher G, Driguez H, Henrissat B, Schülein M, Davies GJ. Structure of the Fusarium oxysporum endoglucanase I with a nonhydrolyzable substrate analogue: substrate distortion gives rise to the preferred axial orientation for the leaving group. Biochemistry 1996; 35:15280-7. [PMID: 8952478 DOI: 10.1021/bi961946h] [Citation(s) in RCA: 195] [Impact Index Per Article: 7.0] [Reference Citation Analysis] [Abstract] [MESH Headings] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 02/03/2023]
Abstract
Endoglucanase I (EG I) is a cellulase, from glycosyl hydrolase family 7, which cleaves the beta-1,4 linkages of cellulose with overall retention of configuration. The structure of the EG I from Fusarium oxysproum, complexed to a nonhydrolyzable thiooligosaccharide substrate analogue, has been determined by X-ray crystallography at a resolution of 2.7 A utilizing the 4-fold noncrystallographic symmetry present in the asymmetric unit. The electron density map clearly reveals the presence of three glucosyl units of the inhibitor, consistent with the known number of sugar-binding subsites, located at the active site of the enzyme in the -2, -1, and +1 subsites, i.e., actually spanning the point of enzymatic cleavage. The pyranose ring at the point of potential enzymatic cleavage is clearly distorted from the standard 4C1 chair as was originally suggested for beta-retaining enzymes by Phillips [Ford, L.O., Johnson, L.N., Machin, P. A., Phillips, D.C., & Tijan, T. (1974) J. Mol. Biol, 88, 349-371]. The distortion observed goes beyond the "sofa" conformation observed in previous studies and results in a conformation whose salient feature is the resulting quasi-axial orientation for the glycosidic bond and leaving group, as predicted by stereoelectronic theory. An almost identical conformation has recently been observed in a complex of chitobiase with its unhydrolyzed substrate [Tews, I., Perrakis, A., Oppenheim, A., Dauter, Z., Wilson, K. S., & Vorgias, C. E. (1996) Nat. Struct. Biol. 3, 638-648]. The striking similarity between these two complexes extends beyond the almost identical pyranose ring distortion. The overlap of the two respective sugars places the enzymatic nucleophile of endoglucanase I in coincidence with the C2 acetamido oxygen of N-acetylglucosamine in the catalytic site of the chitobiase, substantiating the involvement of this group in the catalytic mechanism of chitobiase and related chitinolytic enzymes. The endoglucanase I complex with the thiosaccharide substrate analogue clearly illustrates the potential of nonhydrolyzable sulfur-linked oligosaccharides in the elucidation of substrate binding and catalysis by glycosyl hydrolases.
Collapse
Affiliation(s)
- G Sulzenbacher
- Department of Chemistry, University of York, Heslington, England
| | | | | | | | | |
Collapse
|
14
|
Moreau V, Viladot JL, Samain E, Planas A, Driguez H. Design and chemoenzymatic synthesis of thiooligosaccharide inhibitors of 1,3:1,4-beta-D-glucanases. Bioorg Med Chem 1996; 4:1849-55. [PMID: 9007269 DOI: 10.1016/s0968-0896(96)00166-6] [Citation(s) in RCA: 24] [Impact Index Per Article: 0.9] [Reference Citation Analysis] [Abstract] [MESH Headings] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 02/03/2023]
Abstract
A successful chemoenzymatic synthesis of oligosaccharides with an interglucosidic sulfur atom as inhibitors of 1,3:1,4-D-glucanases is described. The key compound 3a was synthesized from acetylated 1-thio-beta-laminaribiose 4 and the methyl 4'-O-triflyl-lactoside 5. After de-O-acylation, the tetrasaccharide 3b was used as an acceptor and glucose-1-P as a donor in a phosphorolytic elongation catalysed by cellodextrin phosphorylase from Clostridium thermocellum. The expected pentasaccharide 2a and hexasaccharide 1 were isolated in 56% and 13% yield, respectively. As expected, the thiooligosaccharides 1, 2a, and 3b were resistant to enzymatic cleavage by 1,3:1,4-beta-D-glucanase isolated from Bacillus licheniformis. Furthermore, they have been shown to act as competitive inhibitors of the hydrolysis of the chromophoric trisaccharide substrate 11 by this enzyme.
Collapse
Affiliation(s)
- V Moreau
- Centre de Recherches sur les Macromolécules Végétales (CERMAV-CNRS), Grenoble, France
| | | | | | | | | |
Collapse
|
15
|
Wang LX, Lee YC. Stereoselective synthesis of N-acetyl thiochitooligosaccharides. Different behaviours of methyl N-acetyl-α- and -β-thiochitobiosides during acetolysis. ACTA ACUST UNITED AC 1996. [DOI: 10.1039/p19960000581] [Citation(s) in RCA: 24] [Impact Index Per Article: 0.9] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/21/2022]
|
16
|
Samain E, Lancelon-Pin C, Férigo F, Moreau V, Chanzy H, Heyraud A, Driguez H. Phosphorolytic synthesis of cellodextrins. Carbohydr Res 1995. [DOI: 10.1016/0008-6215(95)00022-l] [Citation(s) in RCA: 51] [Impact Index Per Article: 1.8] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 10/27/2022]
|
17
|
Thiooligosaccharides: toys or tools for the studies of Glycanases. ACTA ACUST UNITED AC 1995. [DOI: 10.1016/s0921-0423(06)80098-5] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register]
|
18
|
Synthesis of sulfur analogues of methyl and allyl kojibiosides and methyl isomaltoside and conformational analysis of the kojibiosides. ACTA ACUST UNITED AC 1994. [DOI: 10.1016/s0957-4166(00)80386-9] [Citation(s) in RCA: 33] [Impact Index Per Article: 1.1] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/18/2022]
|