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PDBsum entry 1ghs

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protein Protein-protein interface(s) links
Hydrolase PDB id
1ghs
Jmol
Contents
Protein chains
306 a.a. *
Waters ×59
* Residue conservation analysis
PDB id:
1ghs
Name: Hydrolase
Title: The three-dimensional structures of two plant beta-glucan endohydrolases with distinct substrate specificities
Structure: 1,3-beta-glucanase. Chain: a, b. Engineered: yes
Source: Hordeum vulgare. Organism_taxid: 4513
Resolution:
2.30Å     R-factor:   0.179    
Authors: T.P.J.Garrett,J.N.Varghese
Key ref: J.N.Varghese et al. (1994). Three-dimensional structures of two plant beta-glucan endohydrolases with distinct substrate specificities. Proc Natl Acad Sci U S A, 91, 2785-2789. PubMed id: 8146192 DOI: 10.1073/pnas.91.7.2785
Date:
12-Oct-93     Release date:   01-Nov-94    
PROCHECK
Go to PROCHECK summary
 Headers
 References

Protein chains
Pfam   ArchSchema ?
P15737  (E13B_HORVU) -  Glucan endo-1,3-beta-glucosidase GII
Seq:
Struc:
334 a.a.
306 a.a.
Key:    PfamA domain  Secondary structure  CATH domain

 Enzyme reactions 
   Enzyme class: E.C.3.2.1.39  - Glucan endo-1,3-beta-D-glucosidase.
[IntEnz]   [ExPASy]   [KEGG]   [BRENDA]
      Reaction: Hydrolysis of 1,3-beta-D-glucosidic linkages in 1,3-beta-D-glucans.
 Gene Ontology (GO) functional annotation 
  GO annot!
  Biological process     metabolic process   3 terms 
  Biochemical function     hydrolase activity     4 terms  

 

 
DOI no: 10.1073/pnas.91.7.2785 Proc Natl Acad Sci U S A 91:2785-2789 (1994)
PubMed id: 8146192  
 
 
Three-dimensional structures of two plant beta-glucan endohydrolases with distinct substrate specificities.
J.N.Varghese, T.P.Garrett, P.M.Colman, L.Chen, P.B.Høj, G.B.Fincher.
 
  ABSTRACT  
 
The three-dimensional structures of (1-->3)-beta-glucanase (EC 3.2.1.39) isoenzyme GII and (1-->3,1-->4)-beta-glucanase (EC 3.2.1.73) isoenzyme EII from barley have been determined by x-ray crystallography at 2.2- to 2.3-A resolution. The two classes of polysaccharide endohydrolase differ in their substrate specificity and function. Thus, the (1-->3)-beta-glucanases, which are classified amongst the plant "pathogenesis-related proteins," can hydrolyze (1-->3)- and (1-->3,1-->6)-beta-glucans of fungal cell walls and may therefore contribute to plant defense strategies, while the (1-->3,1-->4)-beta-glucanases function in plant cell wall hydrolysis during mobilization of the endosperm in germinating grain or during the growth of vegetative tissues. Both enzymes are alpha/beta-barrel structures. The catalytic amino acid residues are located within deep grooves which extend across the enzymes and which probably bind the substrates. Because the polypeptide backbones of the two enzymes are structurally very similar, the differences in their substrate specificities, and hence their widely divergent functions, have been acquired primarily by amino acid substitutions within the groove.
 

Literature references that cite this PDB file's key reference

  PubMed id Reference
19948732 A.Gastebois, I.Mouyna, C.Simenel, C.Clavaud, B.Coddeville, M.Delepierre, J.P.Latgé, and T.Fontaine (2010).
Characterization of a new beta(1-3)-glucan branching activity of Aspergillus fumigatus.
  J Biol Chem, 285, 2386-2396.  
20467747 S.Roy Choudhury, S.Roy, S.K.Singh, and D.N.Sengupta (2010).
Molecular characterization and differential expression of beta-1,3-glucanase during ripening in banana fruit in response to ethylene, auxin, ABA, wounding, cold and light-dark cycles.
  Plant Cell Rep, 29, 813-828.  
19168383 G.B.Fincher (2009).
Exploring the evolution of (1,3;1,4)-beta-D-glucans in plant cell walls: comparative genomics can help!
  Curr Opin Plant Biol, 12, 140-147.  
19640850 H.M.Wu, S.W.Liu, M.T.Hsu, C.L.Hung, C.C.Lai, W.C.Cheng, H.J.Wang, Y.K.Li, and W.C.Wang (2009).
Structure, mechanistic action, and essential residues of a GH-64 enzyme, laminaripentaose-producing beta-1,3-glucanase.
  J Biol Chem, 284, 26708-26715.
PDB codes: 3gd0 3gd9
19018102 L.C.Tsai, H.C.Huang, C.H.Hsiao, Y.N.Chiang, L.F.Shyur, Y.S.Lin, and S.H.Lee (2008).
Mutational and structural studies of the active-site residues in truncated Fibrobacter succinogenes1,3-1,4-beta-D-glucanase.
  Acta Crystallogr D Biol Crystallogr, 64, 1259-1266.  
18663584 L.C.Tsai, Y.N.Chen, and L.F.Shyur (2008).
Structural modeling of glucanase-substrate complexes suggests a conserved tyrosine is involved in carbohydrate recognition in plant 1,3-1,4-beta-D-glucanases.
  J Comput Aided Mol Des, 22, 915-923.  
  18678950 S.Yang, Y.Wang, Z.Jiang, and C.Hua (2008).
Crystallization and preliminary X-ray analysis of a 1,3-1,4-beta-glucanase from Paecilomyces thermophila.
  Acta Crystallogr Sect F Struct Biol Cryst Commun, 64, 754-756.  
18703845 T.Y.Hong, Y.Y.Hsiao, M.Meng, and T.T.Li (2008).
The 1.5 A structure of endo-1,3-beta-glucanase from Streptomyces sioyaensis: evolution of the active-site structure for 1,3-beta-glucan-binding specificity and hydrolysis.
  Acta Crystallogr D Biol Crystallogr, 64, 964-970.
PDB code: 3dgt
  17768356 D.Fuentes-Silva, G.Mendoza-Hernández, V.Stojanoff, L.A.Palomares, E.Zenteno, A.Torres-Larios, and A.Rodríguez-Romero (2007).
Crystallization and identification of the glycosylated moieties of two isoforms of the main allergen Hev b 2 and preliminary X-ray analysis of two polymorphs of isoform II.
  Acta Crystallogr Sect F Struct Biol Cryst Commun, 63, 787-791.  
17879342 G.Fibriansah, S.Masuda, N.Koizumi, S.Nakamura, and T.Kumasaka (2007).
The 1.3 A crystal structure of a novel endo-beta-1,3-glucanase of glycoside hydrolase family 16 from alkaliphilic Nocardiopsis sp. strain F96.
  Proteins, 69, 683-690.
PDB code: 2hyk
  19517006 V.Grimault, S.Helleboid, J.Vasseur, and J.L.Hilbert (2007).
Co-Localization of beta-1,3-Glucanases and Callose During Somatic Embryogenesis in Cichorium.
  Plant Signal Behav, 2, 455-461.  
16421930 V.Receveur-Bréchot, M.Czjzek, A.Barre, A.Roussel, W.J.Peumans, E.J.Van Damme, and P.Rougé (2006).
Crystal structure at 1.45-A resolution of the major allergen endo-beta-1,3-glucanase of banana as a molecular basis for the latex-fruit syndrome.
  Proteins, 63, 235-242.
PDB code: 2cyg
16949959 Y.Shi, Y.Zhang, and D.S.Shih (2006).
Cloning and expression analysis of two beta-1,3-glucanase genes from strawberry.
  J Plant Physiol, 163, 956-967.  
15545660 J.G.Bishop, D.R.Ripoll, S.Bashir, C.M.Damasceno, J.D.Seeds, and J.K.Rose (2005).
Selection on Glycine beta-1,3-endoglucanase genes differentially inhibited by a Phytophthora glucanase inhibitor protein.
  Genetics, 169, 1009-1019.  
15784114 O.Palomares, M.Villalba, J.Quiralte, F.Polo, and R.Rodríguez (2005).
1,3-beta-glucanases as candidates in latex-pollen-vegetable food cross-reactivity.
  Clin Exp Allergy, 35, 345-351.  
  16508094 Z.Pang, Y.N.Kang, M.Ban, M.Oda, R.Kobayashi, M.Ohnishi, and B.Mikami (2005).
Crystallization and preliminary crystallographic analysis of endo-1,3-beta-glucanase from Arthrobacter sp.
  Acta Crystallogr Sect F Struct Biol Cryst Commun, 61, 68-70.  
15355340 C.Carotti, E.Ragni, O.Palomares, T.Fontaine, G.Tedeschi, R.Rodríguez, J.P.Latgé, M.Vai, and L.Popolo (2004).
Characterization of recombinant forms of the yeast Gas1 protein and identification of residues essential for glucanosyltransferase activity and folding.
  Eur J Biochem, 271, 3635-3645.  
11526326 L.C.Tsai, L.F.Shyur, S.S.Lin, and H.S.Yuan (2001).
Crystallization and preliminary X-ray diffraction analysis of the 1,3-1,4-beta-D-glucanase from Fibrobacter succinogenes.
  Acta Crystallogr D Biol Crystallogr, 57, 1303-1306.  
11488912 R.I.Osmond, M.Hrmova, F.Fontaine, A.Imberty, and G.B.Fincher (2001).
Binding interactions between barley thaumatin-like proteins and (1,3)-beta-D-glucans. Kinetics, specificity, structural analysis and biological implications.
  Eur J Biochem, 268, 4190-4199.  
11342030 S.R.Marana, M.Jacobs-Lorena, W.R.Terra, and C.Ferreira (2001).
Amino acid residues involved in substrate binding and catalysis in an insect digestive beta-glycosidase.
  Biochim Biophys Acta, 1545, 41-52.  
10966578 A.J.Harvey, M.Hrmova, R.De Gori, J.N.Varghese, and G.B.Fincher (2000).
Comparative modeling of the three-dimensional structures of family 3 glycoside hydrolases.
  Proteins, 41, 257-269.  
10672030 W.J.Peumans, A.Barre, V.Derycke, P.Rougé, W.Zhang, G.D.May, J.A.Delcour, F.Van Leuven, and E.J.Van Damme (2000).
Purification, characterization and structural analysis of an abundant beta-1,3-glucanase from banana fruit.
  Eur J Biochem, 267, 1188-1195.  
  10210191 D.H.Juers, R.E.Huber, and B.W.Matthews (1999).
Structural comparisons of TIM barrel proteins suggest functional and evolutionary relationships between beta-galactosidase and other glycohydrolases.
  Protein Sci, 8, 122-136.  
10368285 J.N.Varghese, M.Hrmova, and G.B.Fincher (1999).
Three-dimensional structure of a barley beta-D-glucan exohydrolase, a family 3 glycosyl hydrolase.
  Structure, 7, 179-190.
PDB code: 1ex1
  9864341 M.W.Bauer, L.E.Driskill, W.Callen, M.A.Snead, E.J.Mathur, and R.M.Kelly (1999).
An endoglucanase, EglA, from the hyperthermophilic archaeon Pyrococcus furiosus hydrolyzes beta-1,4 bonds in mixed-linkage (1-->3),(1-->4)-beta-D-glucans and cellulose.
  J Bacteriol, 181, 284-290.  
  10548053 N.Nagano, E.G.Hutchinson, and J.M.Thornton (1999).
Barrel structures in proteins: automatic identification and classification including a sequence analysis of TIM barrels.
  Protein Sci, 8, 2072-2084.  
  10471725 W.Jin, H.T.Horner, R.G.Palmer, and R.C.Shoemaker (1999).
Analysis and mapping of gene families encoding beta-1,3-glucanases of soybean.
  Genetics, 153, 445-452.  
9485319 G.J.Davies, M.Dauter, A.M.Brzozowski, M.E.Bjørnvad, K.V.Andersen, and M.Schülein (1998).
Structure of the Bacillus agaradherans family 5 endoglucanase at 1.6 A and its cellobiose complex at 2.0 A resolution.
  Biochemistry, 37, 1926-1932.
PDB codes: 1a3h 2a3h
9817845 M.Hilge, S.M.Gloor, W.Rypniewski, O.Sauer, T.D.Heightman, W.Zimmermann, K.Winterhalter, and K.Piontek (1998).
High-resolution native and complex structures of thermostable beta-mannanase from Thermomonospora fusca - substrate specificity in glycosyl hydrolase family 5.
  Structure, 6, 1433-1444.
PDB codes: 1bqc 2man 3man
9345621 B.Henrissat, and G.Davies (1997).
Structural and sequence-based classification of glycoside hydrolases.
  Curr Opin Struct Biol, 7, 637-644.  
9032078 C.S.Bond, P.R.Clements, S.J.Ashby, C.A.Collyer, S.J.Harrop, J.J.Hopwood, and J.M.Guss (1997).
Structure of a human lysosomal sulfatase.
  Structure, 5, 277-289.
PDB code: 1fsu
8718854 J.Sakon, W.S.Adney, M.E.Himmel, S.R.Thomas, and P.A.Karplus (1996).
Crystal structure of thermostable family 5 endocellulase E1 from Acidothermus cellulolyticus in complex with cellotetraose.
  Biochemistry, 35, 10648-10660.
PDB code: 1ece
15012297 N.C.Carpita (1996).
STRUCTURE AND BIOGENESIS OF THE CELL WALLS OF GRASSES.
  Annu Rev Plant Physiol Plant Mol Biol, 47, 445-476.  
  8762144 S.Janecek (1996).
Invariant glycines and prolines flanking in loops the strand beta 2 of various (alpha/beta)8-barrel enzymes: a hidden homology?
  Protein Sci, 5, 1136-1143.  
7624375 B.Henrissat, I.Callebaut, S.Fabrega, P.Lehn, J.P.Mornon, and G.Davies (1995).
Conserved catalytic machinery and the prediction of a common fold for several families of glycosyl hydrolases.
  Proc Natl Acad Sci U S A, 92, 7090-7094.  
8535789 C.Wiesmann, G.Beste, W.Hengstenberg, and G.E.Schulz (1995).
The three-dimensional structure of 6-phospho-beta-galactosidase from Lactococcus lactis.
  Structure, 3, 961-968.
PDB code: 1pbg
8535779 G.Davies, and B.Henrissat (1995).
Structures and mechanisms of glycosyl hydrolases.
  Structure, 3, 853-859.  
7588726 M.Hahn, T.Keitel, and U.Heinemann (1995).
Crystal and molecular structure at 0.16-nm resolution of the hybrid Bacillus endo-1,3-1,4-beta-D-glucan 4-glucanohydrolase H(A16-M).
  Eur J Biochem, 232, 849-858.
PDB code: 2ayh
  8770367 M.W.Parker (1995).
Protein crystallography in Australia.
  Aust N Z J Med, 25, 876-882.  
8535788 T.Barrett, C.G.Suresh, S.P.Tolley, E.J.Dodson, and M.A.Hughes (1995).
The crystal structure of a cyanogenic beta-glucosidase from white clover, a family 1 glycosyl hydrolase.
  Structure, 3, 951-960.
PDB code: 1cbg
8535787 V.Ducros, M.Czjzek, A.Belaich, C.Gaudin, H.P.Fierobe, J.P.Belaich, G.J.Davies, and R.Haser (1995).
Crystal structure of the catalytic domain of a bacterial cellulase belonging to family 5.
  Structure, 3, 939-949.
PDB code: 1edg
7704528 A.C.Terwisscha van Scheltinga, K.H.Kalk, J.J.Beintema, and B.W.Dijkstra (1994).
Crystal structures of hevamine, a plant defence protein with chitinase and lysozyme activity, and its complex with an inhibitor.
  Structure, 2, 1181-1189.
PDB codes: 1hvm 1hvq
7881905 G.E.Norris, T.J.Stillman, B.F.Anderson, and E.N.Baker (1994).
The three-dimensional structure of PNGase F, a glycosylasparaginase from Flavobacterium meningosepticum.
  Structure, 2, 1049-1059.
PDB code: 1pgs
7881909 G.W.Harris, J.A.Jenkins, I.Connerton, N.Cummings, L.Lo Leggio, M.Scott, G.P.Hazlewood, J.I.Laurie, H.J.Gilbert, and R.W.Pickersgill (1994).
Structure of the catalytic core of the family F xylanase from Pseudomonas fluorescens and identification of the xylopentaose-binding sites.
  Structure, 2, 1107-1116.
PDB codes: 1e5o 1xys
The most recent references are shown first. Citation data come partly from CiteXplore and partly from an automated harvesting procedure. Note that this is likely to be only a partial list as not all journals are covered by either method. However, we are continually building up the citation data so more and more references will be included with time. Where a reference describes a PDB structure, the PDB codes are shown on the right.