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Volumn 25, Issue 1, 2008, Pages 155-167

Insight into ligand diversity and novel biological roles for family 32 carbohydrate-binding modules

Author keywords

Carbohydrate binding module; Evolution; Family 32; Multimodularity; Structural characterization

Indexed keywords

ALPHA GLUCOSIDASE; BACTERIAL PROTEIN; CARBOHYDRATE; LECTIN; POLYPEPTIDE; TOXIN;

EID: 38349101110     PISSN: 07374038     EISSN: 15371719     Source Type: Journal    
DOI: 10.1093/molbev/msm243     Document Type: Article
Times cited : (60)

References (48)
  • 1
    • 34248173904 scopus 로고    scopus 로고
    • Specific recognition of saturated and 4,5-unsaturated hexuronate sugars by a periplasmic binding protein involved in pectin catabolism
    • Abbott DW, Boraston AB. 2007. Specific recognition of saturated and 4,5-unsaturated hexuronate sugars by a periplasmic binding protein involved in pectin catabolism. J Mol Biol.
    • (2007) J Mol Biol
    • Abbott, D.W.1    Boraston, A.B.2
  • 3
    • 0028220048 scopus 로고
    • Synonymous codon usage in Drosophila melanogaster: Natural selection and translational accuracy
    • Akashi H. 1994. Synonymous codon usage in Drosophila melanogaster: natural selection and translational accuracy. Genetics. 136:927-935.
    • (1994) Genetics , vol.136 , pp. 927-935
    • Akashi, H.1
  • 7
    • 4744368323 scopus 로고    scopus 로고
    • Carbohydrate-binding modules: Fine-tuning polysaccharide recognition
    • Boraston AB, Bolam DN, Gilbert HJ, Davies GJ. 2004. Carbohydrate-binding modules: fine-tuning polysaccharide recognition. Biochem J. 382:769-781.
    • (2004) Biochem J , vol.382 , pp. 769-781
    • Boraston, A.B.1    Bolam, D.N.2    Gilbert, H.J.3    Davies, G.J.4
  • 8
    • 0036192464 scopus 로고    scopus 로고
    • Co-operative binding of triplicate carbohydrate-binding modules from a thermophilic xylanase
    • Boraston AB, McLean BW, Chen G, Li A, Warren RA, Kilburn DG. 2002. Co-operative binding of triplicate carbohydrate-binding modules from a thermophilic xylanase. Mol Microbiol. 43:187-194.
    • (2002) Mol Microbiol , vol.43 , pp. 187-194
    • Boraston, A.B.1    McLean, B.W.2    Chen, G.3    Li, A.4    Warren, R.A.5    Kilburn, D.G.6
  • 9
    • 0037195075 scopus 로고    scopus 로고
    • Promiscuity in ligand-binding: The three-dimensional structure of a Piromyces carbohydrate-binding module, CBM29-2, in complex with cello- and mannohexaose
    • Charnock SJ, Bolam DN, Nurizzo D, Szabo L, McKie VA, Gilbert HJ, Davies GJ. 2002. Promiscuity in ligand-binding: the three-dimensional structure of a Piromyces carbohydrate-binding module, CBM29-2, in complex with cello- and mannohexaose. Proc Natl Acad Sci USA. 99:14077-14082.
    • (2002) Proc Natl Acad Sci USA , vol.99 , pp. 14077-14082
    • Charnock, S.J.1    Bolam, D.N.2    Nurizzo, D.3    Szabo, L.4    McKie, V.A.5    Gilbert, H.J.6    Davies, G.J.7
  • 10
    • 0001973467 scopus 로고    scopus 로고
    • Carbohydrate-active enzymes: An integrated database approach
    • Gilbert GDHJ, Henrissat B, Svensson B, editors, Cambridge: The Royal Society of Chemistry. p
    • Coutinho PM, Henrissat B. 1999. Carbohydrate-active enzymes: an integrated database approach. In: Gilbert GDHJ, Henrissat B, Svensson B, editors. Recent advances in carbohydrate bioengineering. Cambridge: The Royal Society of Chemistry. p. 3-12.
    • (1999) Recent advances in carbohydrate bioengineering , pp. 3-12
    • Coutinho, P.M.1    Henrissat, B.2
  • 12
    • 0030581603 scopus 로고    scopus 로고
    • Bootstrap confidence levels for phylogenetic trees
    • Efron B, Halloran E, Holmes S. 1996. Bootstrap confidence levels for phylogenetic trees. Proc Natl Acad Sci USA. 93:13429-13434.
    • (1996) Proc Natl Acad Sci USA , vol.93 , pp. 13429-13434
    • Efron, B.1    Halloran, E.2    Holmes, S.3
  • 13
    • 0000461280 scopus 로고
    • Confidence limits on phylogenies: An approach using the bootstrap
    • Felsestein J. 1985. Confidence limits on phylogenies: an approach using the bootstrap. Evolution Int J Org Evolution. 39:783-791.
    • (1985) Evolution Int J Org Evolution , vol.39 , pp. 783-791
    • Felsestein, J.1
  • 14
    • 33845968854 scopus 로고    scopus 로고
    • The interaction of carbohydrate-binding module from a clostridium perfringens N-acetyl-beta-hexosaminidase with its carbohydrate receptor
    • Ficko-Blean E, Boraston AB. 2006. The interaction of carbohydrate-binding module from a clostridium perfringens N-acetyl-beta-hexosaminidase with its carbohydrate receptor. J Biol Chem. 281:37748-37757.
    • (2006) J Biol Chem , vol.281 , pp. 37748-37757
    • Ficko-Blean, E.1    Boraston, A.B.2
  • 16
    • 1442323775 scopus 로고    scopus 로고
    • Ligand-mediated dimerization of a carbohydrate-binding molecule reveals a novel mechanism for protein-carbohydrate recognition
    • Flint J, Nurizzo D, Harding SE, Longman E, Davies GJ, Gilbert HJ, Bolam DN. 2004. Ligand-mediated dimerization of a carbohydrate-binding molecule reveals a novel mechanism for protein-carbohydrate recognition. J Mol Biol. 337:417-426.
    • (2004) J Mol Biol , vol.337 , pp. 417-426
    • Flint, J.1    Nurizzo, D.2    Harding, S.E.3    Longman, E.4    Davies, G.J.5    Gilbert, H.J.6    Bolam, D.N.7
  • 17
    • 0024297010 scopus 로고
    • Precise excision of the cellulose binding domains from two Cellulomonas fimi cellulases by a homologous protease and the effect on catalysis
    • Gilkes NR, Warren RA, Miller RC Jr, Kilburn DG. 1988. Precise excision of the cellulose binding domains from two Cellulomonas fimi cellulases by a homologous protease and the effect on catalysis. J Biol Chem. 263:10401-10407.
    • (1988) J Biol Chem , vol.263 , pp. 10401-10407
    • Gilkes, N.R.1    Warren, R.A.2    Miller Jr, R.C.3    Kilburn, D.G.4
  • 18
    • 0043123208 scopus 로고    scopus 로고
    • ESPript/ENDscript: Extracting and rendering sequence and 3D information from atomic structures of proteins
    • Gouet P, Robert X, Courcelle E. 2003. ESPript/ENDscript: extracting and rendering sequence and 3D information from atomic structures of proteins. Nucleic Acids Res. 31:3320-3323.
    • (2003) Nucleic Acids Res , vol.31 , pp. 3320-3323
    • Gouet, P.1    Robert, X.2    Courcelle, E.3
  • 20
    • 38349184103 scopus 로고    scopus 로고
    • Hall TA. 1999. BioEdit: a user-friendly biological sequence alignment editor and analysis program for Windows 95/98/NT. Nucleic Acids Symp Ser. 41:95-98.
    • Hall TA. 1999. BioEdit: a user-friendly biological sequence alignment editor and analysis program for Windows 95/98/NT. Nucleic Acids Symp Ser. 41:95-98.
  • 21
    • 0035788642 scopus 로고    scopus 로고
    • Identification of TogMNAB, an ABC transporter which mediates the uptake of pectic oligomers in Erwinia chrysanthemi 3937
    • Hugouvieux-Cotte-Pattat N, Blot N, Reverchon S. 2001. Identification of TogMNAB, an ABC transporter which mediates the uptake of pectic oligomers in Erwinia chrysanthemi 3937. Mol Microbiol. 41:1113-1123.
    • (2001) Mol Microbiol , vol.41 , pp. 1113-1123
    • Hugouvieux-Cotte-Pattat, N.1    Blot, N.2    Reverchon, S.3
  • 22
    • 0035788440 scopus 로고    scopus 로고
    • Two transporters, TogT and TogMNAB, are responsible for oligogalacturonide uptake in Erwinia chrysanthemi 3937
    • Hugouvieux-Cotte-Pattat N, Reverchon S. 2001. Two transporters, TogT and TogMNAB, are responsible for oligogalacturonide uptake in Erwinia chrysanthemi 3937. Mol Microbiol. 41:1125-1132.
    • (2001) Mol Microbiol , vol.41 , pp. 1125-1132
    • Hugouvieux-Cotte-Pattat, N.1    Reverchon, S.2
  • 23
    • 3242810318 scopus 로고    scopus 로고
    • MEGA3: Integrated software for molecular evolutionary genetics analysis and sequence alignment
    • Kumar S, Tamura K, Nei M. 2004. MEGA3: integrated software for molecular evolutionary genetics analysis and sequence alignment. Brief Bioinform. 5:150-163.
    • (2004) Brief Bioinform , vol.5 , pp. 150-163
    • Kumar, S.1    Tamura, K.2    Nei, M.3
  • 24
    • 33845498615 scopus 로고    scopus 로고
    • Starch-binding domains in the post-genome era
    • Machovic M, Janecek S. 2006a. Starch-binding domains in the post-genome era. Cell Mol Life Sci. 63:2710-2724.
    • (2006) Cell Mol Life Sci , vol.63 , pp. 2710-2724
    • Machovic, M.1    Janecek, S.2
  • 25
    • 33750979827 scopus 로고    scopus 로고
    • The evolution of putative starch-binding domains
    • Machovic M, Janecek S. 2006b. The evolution of putative starch-binding domains. FEBS Lett. 580:6349-6356.
    • (2006) FEBS Lett , vol.580 , pp. 6349-6356
    • Machovic, M.1    Janecek, S.2
  • 26
    • 27644529698 scopus 로고    scopus 로고
    • A new clan of CBM families based on bioinformatics of starch-binding domains from families CBM20 and CBM21
    • Machovic M, Svensson B, MacGregor EA, Janecek S. 2005. A new clan of CBM families based on bioinformatics of starch-binding domains from families CBM20 and CBM21. FEBS J. 272:5497-5513.
    • (2005) FEBS J , vol.272 , pp. 5497-5513
    • Machovic, M.1    Svensson, B.2    MacGregor, E.A.3    Janecek, S.4
  • 27
    • 0036794713 scopus 로고    scopus 로고
    • Pectate lyases, cell wall degradation and fruit softening
    • Marin-Rodriguez MC, Orchard J, Seymour GB. 2002. Pectate lyases, cell wall degradation and fruit softening. J Exp Bot. 53:2115-2119.
    • (2002) J Exp Bot , vol.53 , pp. 2115-2119
    • Marin-Rodriguez, M.C.1    Orchard, J.2    Seymour, G.B.3
  • 30
    • 30344446662 scopus 로고    scopus 로고
    • LogoBar: Bar graph visualization of protein logos with gaps
    • Perez-Bercoff A, Koch J, Burglin TR. 2006. LogoBar: bar graph visualization of protein logos with gaps. Bioinformatics. 22:112-114.
    • (2006) Bioinformatics , vol.22 , pp. 112-114
    • Perez-Bercoff, A.1    Koch, J.2    Burglin, T.R.3
  • 31
    • 9144270620 scopus 로고    scopus 로고
    • Comparative genomics of the KdgR regulon in Erwinia chrysanthemi 3937 and other gamma-proteobacteria
    • Rodionov DA, Gelfand MS, Hugouvieux-Cotte-Pattat N. 2004. Comparative genomics of the KdgR regulon in Erwinia chrysanthemi 3937 and other gamma-proteobacteria. Microbiology. 150:3571-3590.
    • (2004) Microbiology , vol.150 , pp. 3571-3590
    • Rodionov, D.A.1    Gelfand, M.S.2    Hugouvieux-Cotte-Pattat, N.3
  • 32
    • 0347513220 scopus 로고    scopus 로고
    • DnaSP, DNA polymorphism analyses by the coalescent and other methods
    • Rozas J, Sanchez-DelBarrio JC, Messeguer X, Rozas R. 2003. DnaSP, DNA polymorphism analyses by the coalescent and other methods. Bioinformatics. 19:2496-2497.
    • (2003) Bioinformatics , vol.19 , pp. 2496-2497
    • Rozas, J.1    Sanchez-DelBarrio, J.C.2    Messeguer, X.3    Rozas, R.4
  • 33
    • 0026660413 scopus 로고
    • A simple method for estimating and testing minimum-evolution trees
    • Rzhetsky A, Nei M. 1992a. A simple method for estimating and testing minimum-evolution trees. Mol Biol Evol. 9:945-967.
    • (1992) Mol Biol Evol , vol.9 , pp. 945-967
    • Rzhetsky, A.1    Nei, M.2
  • 34
    • 0026466041 scopus 로고
    • Statistical properties of the ordinary least-squares, generalized least-squares, and minimum-evolution methods of phylogenetic inference
    • Rzhetsky A, Nei M. 1992b. Statistical properties of the ordinary least-squares, generalized least-squares, and minimum-evolution methods of phylogenetic inference. J Mol Evol. 35:367-375.
    • (1992) J Mol Evol , vol.35 , pp. 367-375
    • Rzhetsky, A.1    Nei, M.2
  • 35
    • 0023375195 scopus 로고
    • The neighbor-joining method: A new method for reconstructing phylogenetic trees
    • Saitou N, Nei M. 1987. The neighbor-joining method: a new method for reconstructing phylogenetic trees. Mol Biol Evol. 4:406-425.
    • (1987) Mol Biol Evol , vol.4 , pp. 406-425
    • Saitou, N.1    Nei, M.2
  • 36
    • 0029965168 scopus 로고    scopus 로고
    • Bootstrap method of interior-branch test for phylogenetic trees
    • Sitnikova T. 1996. Bootstrap method of interior-branch test for phylogenetic trees. Mol Biol Evol. 13:605-611.
    • (1996) Mol Biol Evol , vol.13 , pp. 605-611
    • Sitnikova, T.1
  • 37
    • 0028985519 scopus 로고
    • Interior-branch and bootstrap tests of phylogenetic trees
    • Sitnikova T, Rzhetsky A, Nei M. 1995. Interior-branch and bootstrap tests of phylogenetic trees. Mol Biol Evol. 12:319-333.
    • (1995) Mol Biol Evol , vol.12 , pp. 319-333
    • Sitnikova, T.1    Rzhetsky, A.2    Nei, M.3
  • 39
    • 0027968068 scopus 로고
    • CLUSTAL W: Improving the sensitivity of progressive multiple sequence alignment through sequenceweighting, position-specific gap penalties and weight matrix choice
    • Thompson JD, Higgins DG, Gibson TJ. 1994. CLUSTAL W: improving the sensitivity of progressive multiple sequence alignment through sequenceweighting, position-specific gap penalties and weight matrix choice. Nucleic Acids Res. 22:4673-4680.
    • (1994) Nucleic Acids Res , vol.22 , pp. 4673-4680
    • Thompson, J.D.1    Higgins, D.G.2    Gibson, T.J.3
  • 40
    • 0024277381 scopus 로고
    • Studies of the cellulolytic system of Trichoderma reesei QM 9414. Analysis of domain function in two cellobiohydrolases by limited proteolysis
    • Tomme P, Van Tilbeurgh H, Pettersson G, Van Damme J, Vandekerckhove J, Knowles J, Teeri T, Claeyssens M. 1988. Studies of the cellulolytic system of Trichoderma reesei QM 9414. Analysis of domain function in two cellobiohydrolases by limited proteolysis. Eur J Biochem. 170:575-581.
    • (1988) Eur J Biochem , vol.170 , pp. 575-581
    • Tomme, P.1    Van Tilbeurgh, H.2    Pettersson, G.3    Van Damme, J.4    Vandekerckhove, J.5    Knowles, J.6    Teeri, T.7    Claeyssens, M.8
  • 41
    • 23344446196 scopus 로고    scopus 로고
    • The non-catalytic chitin-binding protein CBP21 from Serratia marcescens is essential for chitin degradation
    • Vaaje-Kolstad G, Horn SJ, van Aalten DM, Synstad B, Eijsink VG. 2005. The non-catalytic chitin-binding protein CBP21 from Serratia marcescens is essential for chitin degradation. J Biol Chem. 280:28492-28497.
    • (2005) J Biol Chem , vol.280 , pp. 28492-28497
    • Vaaje-Kolstad, G.1    Horn, S.J.2    van Aalten, D.M.3    Synstad, B.4    Eijsink, V.G.5
  • 42
    • 0024418696 scopus 로고
    • Studies of the cellulolytic system of Trichoderma reesei QM 9414. Binding of small ligands to the 1,4-beta-glucan cellobiohydrolase II and influence of glucose on their affinity
    • Van Tilbeurgh H, Loontiens FG, Engelborgs Y, Claeyssens M. 1989. Studies of the cellulolytic system of Trichoderma reesei QM 9414. Binding of small ligands to the 1,4-beta-glucan cellobiohydrolase II and influence of glucose on their affinity. Eur J Biochem. 184:553-559.
    • (1989) Eur J Biochem , vol.184 , pp. 553-559
    • Van Tilbeurgh, H.1    Loontiens, F.G.2    Engelborgs, Y.3    Claeyssens, M.4
  • 43
    • 0029994363 scopus 로고    scopus 로고
    • Cloning and expression of the gene involved in Sanfilippo B syndrome (mucopolysaccharidosis III B)
    • Weber B, Blanch L, Clements PR, Scott HS, Hopwood JJ. 1996. Cloning and expression of the gene involved in Sanfilippo B syndrome (mucopolysaccharidosis III B). Hum Mol Genet. 5:771-777.
    • (1996) Hum Mol Genet , vol.5 , pp. 771-777
    • Weber, B.1    Blanch, L.2    Clements, P.R.3    Scott, H.S.4    Hopwood, J.J.5
  • 45
    • 0028844657 scopus 로고
    • Isozyme and morphological characteristics of the anaerobic fungus Piromyces mae isolated from the duodenum, rumen and faeces of sheep
    • Wong MV, Ho YW, Tan SG, Abdullah N, Jalaludin S. 1995. Isozyme and morphological characteristics of the anaerobic fungus Piromyces mae isolated from the duodenum, rumen and faeces of sheep. FEMS Microbiol Lett. 134:9-14.
    • (1995) FEMS Microbiol Lett , vol.134 , pp. 9-14
    • Wong, M.V.1    Ho, Y.W.2    Tan, S.G.3    Abdullah, N.4    Jalaludin, S.5
  • 46
    • 0025318864 scopus 로고
    • The 'effective number of codons' used in a gene
    • Wright F. 1990. The 'effective number of codons' used in a gene. Gene. 87:23-29.
    • (1990) Gene , vol.87 , pp. 23-29
    • Wright, F.1
  • 47
    • 0034800374 scopus 로고    scopus 로고
    • InterProScan-an integration platform for the signature-recognition methods in InterPro
    • Zdobnov EM, Apweiler R. 2001. InterProScan-an integration platform for the signature-recognition methods in InterPro. Bioinformatics. 17:847-848.
    • (2001) Bioinformatics , vol.17 , pp. 847-848
    • Zdobnov, E.M.1    Apweiler, R.2
  • 48
    • 0032584099 scopus 로고    scopus 로고
    • Positive Darwinian selection after gene duplication in primate ribonuclease genes
    • Zhang J, Rosenberg HF, Nei M. 1998. Positive Darwinian selection after gene duplication in primate ribonuclease genes. Proc Natl Acad Sci USA. 95:3708-3713.
    • (1998) Proc Natl Acad Sci USA , vol.95 , pp. 3708-3713
    • Zhang, J.1    Rosenberg, H.F.2    Nei, M.3


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