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PDBsum entry 2ayh
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Hydrolase (glucanase)
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PDB id
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2ayh
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Contents |
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* Residue conservation analysis
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PDB id:
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Hydrolase (glucanase)
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Title:
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Crystal and molecular structure at 1.6 angstroms resolution of the hybrid bacillus endo-1,3-1,4-beta-d-glucan 4-glucanohydrolase h(a16- m)
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Structure:
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1,3-1,4-beta-d-glucan 4-glucanohydrolase. Chain: a. Engineered: yes
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Source:
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Hybrid. Organism_taxid: 37965. Expressed in: escherichia coli. Expression_system_taxid: 562.
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Resolution:
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Authors:
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M.Hahn,T.Keitel,U.Heinemann
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Key ref:
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M.Hahn
et al.
(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.
PubMed id:
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Date:
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02-Feb-95
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Release date:
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31-Mar-95
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Supersedes:
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PROCHECK
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Headers
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References
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P23904
(GUB_PAEMA) -
Beta-glucanase from Paenibacillus macerans
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Seq:
Struc:
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237 a.a.
214 a.a.*
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Key: |
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PfamA domain |
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Secondary structure |
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CATH domain |
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*
PDB and UniProt seqs differ
at 11 residue positions (black
crosses)
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Enzyme class:
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E.C.3.2.1.73
- licheninase.
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Reaction:
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Hydrolysis of 1,4-beta-D-glycosidic linkages in beta-D-glucans containing 1,3- and 1,4-bonds.
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Eur J Biochem
232:849-858
(1995)
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PubMed id:
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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).
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M.Hahn,
T.Keitel,
U.Heinemann.
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ABSTRACT
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H(A16-M) is a hybrid endo-1,3-1,4-beta-D-glucan 4-glucanohydrolase from
Bacillus. Its crystal structure was refined using synchrotron X-ray diffraction
data up to a maximal resolution of 0.16 nm. The R value of the resulting model
is 14.3% against 21,032 reflections > 2 sigma. 93% of the amino acid residues
are in the most favorable regions of the Ramachandran diagram, and geometrical
parameters are in accordance with other proteins solved at high resolution. As
shown earlier [Keitel, T., Simon, O., Borriss, R. & Heinemann, U. (1993)
Proc. Natl Acad. Sci. USA 90, 5287-5291], the protein folds into a compact
jellyroll-type beta-sheet structure. A systematic analysis of the secondary
structure reveals the presence of two major antiparallel beta-sheets and a
three-stranded minor mixed sheet. Amino acid residues involved in catalysis and
substrate binding are located inside a deep channel spanning the surface of the
protein. To investigate the stereochemical cause of the observed specificity of
endo-1,3-1,4-beta-D-glucan 4-glucanohydrolases towards beta-1,4 glycosyl bonds
adjacent to beta-1,3 bonds, the high-resolution crystal structure has been used
to model an enzyme-substrate complex. It is proposed that productive substrate
binding to the subsites p1, p2 and p3 of H(A16-M) requires a beta-1,3 linkage
between glucose units bound to p1 and p2.
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Literature references that cite this PDB file's key reference
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PubMed id
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Reference
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C.E.McGrath,
T.V.Vuong,
and
D.B.Wilson
(2009).
Site-directed mutagenesis to probe catalysis by a Thermobifida fusca beta-1,3-glucanase (Lam81A).
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Protein Eng Des Sel,
22,
375-382.
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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.
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J Comput Aided Mol Des,
22,
915-923.
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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.
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Proteins,
69,
683-690.
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PDB code:
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M.Hrmova,
V.Farkas,
J.Lahnstein,
and
G.B.Fincher
(2007).
A Barley xyloglucan xyloglucosyl transferase covalently links xyloglucan, cellulosic substrates, and (1,3;1,4)-beta-D-glucans.
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J Biol Chem,
282,
12951-12962.
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M.Strohmeier,
M.Hrmova,
M.Fischer,
A.J.Harvey,
G.B.Fincher,
and
J.Pleiss
(2004).
Molecular modeling of family GH16 glycoside hydrolases: potential roles for xyloglucan transglucosylases/hydrolases in cell wall modification in the poaceae.
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Protein Sci,
13,
3200-3213.
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G.Michel,
L.Chantalat,
E.Duee,
T.Barbeyron,
B.Henrissat,
B.Kloareg,
and
O.Dideberg
(2001).
The kappa-carrageenase of P. carrageenovora features a tunnel-shaped active site: a novel insight in the evolution of Clan-B glycoside hydrolases.
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Structure,
9,
513-525.
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PDB code:
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M.Faijes,
J.K.Fairweather,
H.Driguez,
and
A.Planas
(2001).
Oligosaccharide synthesis by coupled endo-glycosynthases of different specificity: a straightforward preparation of two mixed-linkage hexasaccharide substrates of 1,3/1,4-beta-glucanases.
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Chemistry,
7,
4651-4655.
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A.Planas
(2000).
Bacterial 1,3-1,4-beta-glucanases: structure, function and protein engineering.
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Biochim Biophys Acta,
1543,
361-382.
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B.O.Petersen,
M.Krah,
J.O.Duus,
and
K.K.Thomsen
(2000).
A transglycosylating 1,3(4)-beta-glucanase from rhodothermus marinus NMR analysis of enzyme reactions.
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Eur J Biochem,
267,
361-369.
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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.
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Protein Sci,
8,
122-136.
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K.Piotukh,
V.Serra,
R.Borriss,
and
A.Planas
(1999).
Protein-carbohydrate interactions defining substrate specificity in Bacillus 1,3-1,4-beta-D-glucan 4-glucanohydrolases as dissected by mutational analysis.
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Biochemistry,
38,
16092-16104.
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J.Aÿ,
M.Hahn,
K.Decanniere,
K.Piotukh,
R.Borriss,
and
U.Heinemann
(1998).
Crystal structures and properties of de novo circularly permuted 1,3-1,4-beta-glucanases.
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Proteins,
30,
155-167.
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PDB codes:
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J.J.Müller,
K.K.Thomsen,
and
U.Heinemann
(1998).
Crystal structure of barley 1,3-1,4-beta-glucanase at 2.0-A resolution and comparison with Bacillus 1,3-1,4-beta-glucanase.
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J Biol Chem,
273,
3438-3446.
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PDB code:
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J.L.Viladot,
E.de Ramon,
O.Durany,
and
A.Planas
(1998).
Probing the mechanism of Bacillus 1,3-1,4-beta-D-glucan 4-glucanohydrolases by chemical rescue of inactive mutants at catalytically essential residues.
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Biochemistry,
37,
11332-11342.
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P.E.Johnson,
A.L.Creagh,
E.Brun,
K.Joe,
P.Tomme,
C.A.Haynes,
and
L.P.McIntosh
(1998).
Calcium binding by the N-terminal cellulose-binding domain from Cellulomonas fimi beta-1,4-glucanase CenC.
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Biochemistry,
37,
12772-12781.
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J.Pons,
E.Querol,
and
A.Planas
(1997).
Mutational analysis of the major loop of Bacillus 1,3-1,4-beta-D-glucan 4-glucanohydrolases. Effects on protein stability and substrate binding.
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J Biol Chem,
272,
13006-13012.
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L.F.Mackenzie,
G.J.Davies,
M.Schülein,
and
S.G.Withers
(1997).
Identification of the catalytic nucleophile of endoglucanase I from Fusarium oxysporum by mass spectrometry.
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Biochemistry,
36,
5893-5901.
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Y.Gueguen,
W.G.Voorhorst,
J.van der Oost,
and
W.M.de Vos
(1997).
Molecular and biochemical characterization of an endo-beta-1,3- glucanase of the hyperthermophilic archaeon Pyrococcus furiosus.
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J Biol Chem,
272,
31258-31264.
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K.Welfle,
R.Misselwitz,
O.Politz,
R.Borriss,
and
H.Welfle
(1996).
Individual amino acids in the N-terminal loop region determine the thermostability and unfolding characteristics of bacterial glucanases.
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Protein Sci,
5,
2255-2265.
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P.E.Johnson,
M.D.Joshi,
P.Tomme,
D.G.Kilburn,
and
L.P.McIntosh
(1996).
Structure of the N-terminal cellulose-binding domain of Cellulomonas fimi CenC determined by nuclear magnetic resonance spectroscopy.
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Biochemistry,
35,
14381-14394.
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PDB codes:
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R.A.Warren
(1996).
Microbial hydrolysis of polysaccharides.
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Annu Rev Microbiol,
50,
183-212.
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V.Moreau,
J.L.Viladot,
E.Samain,
A.Planas,
and
H.Driguez
(1996).
Design and chemoenzymatic synthesis of thiooligosaccharide inhibitors of 1,3:1,4-beta-D-glucanases.
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Bioorg Med Chem,
4,
1849-1855.
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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
code is
shown on the right.
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Links
