DB code: S00210

RLCP classification 1.30.35885.972 : Hydrolysis
CATH domain 3.20.20.80 : TIM Barrel Catalytic domain
E.C. 3.2.1.78
CSA
M-CSA
MACiE

CATH domain Related DB codes (homologues)
3.20.20.80 : TIM Barrel S00202 S00748 S00906 S00907 S00911 S00912 S00915 M00134 M00160 D00479 S00204 S00205 S00206 S00207 S00203 S00208 S00209 S00211 S00213 S00214 M00113 T00307 D00165 D00166 D00169 D00176 D00501 D00502 D00503 D00844 D00861 D00864 M00026 M00112 M00193 M00346 T00057 T00062 T00063 T00066 T00067

Uniprot Enzyme Name
UniprotKB Protein name Synonyms RefSeq CAZy Pfam
Q8L5J1 Mannan endo-1,4-beta-mannosidase 4
EC 3.2.1.78
Beta-mannanase 4
Endo-beta-1,4-mannanase 4
LeMAN4a
LeMAN4i
NP_001234114.1 (Protein)
NM_001247185.1 (DNA/RNA sequence)
NP_001234131.1 (Protein)
NM_001247202.1 (DNA/RNA sequence)
NP_001234874.1 (Protein)
NM_001247945.1 (DNA/RNA sequence)
GH5 (Glycoside Hydrolase Family 5)
PF00150 (Cellulase)
[Graphical View]
Q99036
Beta-mannase
CBM1 (Carbohydrate-Binding Module Family 1)
GH5 (Glycoside Hydrolase Family 5)
PF00734 (CBM_1)
PF00150 (Cellulase)
[Graphical View]

KEGG enzyme name
Mannan endo-1,4-beta-mannosidase
Endo-1,4-beta-mannanase
Endo-beta-1,4-mannase
Beta-mannanase B
Beta-1, 4-mannan 4-mannanohydrolase
Endo-beta-mannanase
Beta-D-mannanase
1,4-beta-D-mannan mannanohydrolase

UniprotKB: Accession Number Entry name Activity Subunit Subcellular location Cofactor
Q8L5J1 MAN4_SOLLC Random hydrolysis of (1->4)-beta-D-mannosidic linkages in mannans, galactomannans and glucomannans. Secreted (Potential).
Q99036 Q99036_TRIRE

KEGG Pathways
Map code Pathways E.C.
MAP00051 Fructose and mannose metabolism

Compound table
Substrates Products Intermediates
KEGG-id C02492 C00883 C01810 C00001 C02492 C00883 C01810 I00118
E.C.
Compound 1,4-beta-D-Mannan Galactomannan Glucomannan H2O 1,4-beta-D-Mannan Galactomannan Glucomannan Peptidyl-Glu-D-mannan
Type polysaccharide polysaccharide polysaccharide H2O polysaccharide polysaccharide polysaccharide
ChEBI 27680
 27680
 		15377
 15377
 		27680
 27680
PubChem 439336
 439336
 		24892726
 24892726
 		22247451
 962
 22247451
 962
 		439336
 439336
 		24892726
 24892726
1rh9A00 Unbound Unbound Unbound Unbound Unbound Unbound Unbound
1qnoA00 Unbound Unbound Unbound Unbound Unbound Unbound Unbound
1qnpA00 Unbound Unbound Unbound Unbound Unbound Unbound Unbound
1qnqA00 Unbound Unbound Unbound Unbound Unbound Unbound Unbound
1qnrA00 Unbound Unbound Unbound Bound:MAB Unbound Unbound Unbound
1qnsA00 Unbound Unbound Unbound Unbound Unbound Unbound Unbound

Reference for Active-site residues
resource references E.C.
literature [4], [8] & Swiss-prot;Q8L5J1

Active-site residues
PDB Catalytic residues Cofactor-binding residues Modified residues Main-chain involved in catalysis Comment
1rh9A00 ARG 86;ASN 203;GLU 204;HIS 277;TYR 279;GLU 318
1qnoA00 ARG 54;ASN 168;GLU 169;HIS 241;TYR 243;GLU 276
1qnpA00 ARG 54;ASN 168;GLU 169;HIS 241;TYR 243;GLU 276
1qnqA00 ARG 54;ASN 168;GLU 169;HIS 241;TYR 243;GLU 276
1qnrA00 ARG 54;ASN 168;GLU 169;HIS 241;TYR 243;GLU 276
1qnsA00 ARG 54;ASN 168;GLU 169;HIS 241;TYR 243;GLU 276

References for Catalytic Mechanism
References Sections No. of steps in catalysis
[2]
p.1439-1440
[4]
p.9-10
[8]
Figure 1, p.1234, p.1238-1239
[11]
p.1502-1504

References
[1]
Resource
Comments
Medline ID
PubMed ID 7624375
Journal Proc Natl Acad Sci U S A
Year 1995
Volume 92
Pages 7090-4
Authors Henrissat B, Callebaut I, Fabrega S, Lehn P, Mornon JP, Davies G
Title Conserved catalytic machinery and the prediction of a common fold for several families of glycosyl hydrolases.
Related PDB
Related UniProtKB
[2]
Resource
Comments X-RAY CRYSTALLOGRAPHY (1.5 ANGSTROMS).
Medline ID
PubMed ID 9817845
Journal Structure
Year 1998
Volume 6
Pages 1433-44
Authors Hilge M, Gloor SM, Rypniewski W, Sauer O, Heightman TD, Zimmermann W, Winterhalter K, Piontek K
Title High-resolution native and complex structures of thermostable beta-mannanase from Thermomonospora fusca - substrate specificity in glycosyl hydrolase family 5.
Related PDB 1bqc 2man 3man
Related UniProtKB Q9ZF13
[3]
Resource
Comments
Medline ID
PubMed ID 9989594
Journal FEBS Lett
Year 1999
Volume 443
Pages 149-53
Authors Harjunpaa V, Helin J, Koivula A, Siika-aho M, Drakenberg T
Title A comparative study of two retaining enzymes of Trichoderma reesei: transglycosylation of oligosaccharides catalysed by the cellobiohydrolase I, Cel7A, and the beta-mannanase, Man5A.
Related PDB
Related UniProtKB
[4]
Resource
Comments X-RAY CRYSTALLOGRAPHY (1.4 ANGSTROMS) OF 28-371.
Medline ID
PubMed ID 10666621
Journal Acta Crystallogr D Biol Crystallogr
Year 2000
Volume 56
Pages 3-13
Authors Sabini E, Schubert H, Murshudov G, Wilson KS, Siika-Aho M, Penttila M
Title The three-dimensional structure of a Trichoderma reesei beta-mannanase from glycoside hydrolase family 5.
Related PDB 1qno 1qnp 1qnq 1qnr 1qns
Related UniProtKB Q99036
[5]
Resource
Comments NUCLEOTIDE SEQUENCE [MRNA], TISSUE SPECIFICITY.
Medline ID
PubMed ID
Journal Plant Sci
Year 2002
Volume 163
Pages 599-606
Authors Carrington CMS, Vendrell M, Domi'nguez-Puigjaner E
Title Characterisation of an endo-(1,4)-beta-mannanase (LeMAN4) expressed in ripening tomato fruit
Related PDB
Related UniProtKB
[6]
Resource
Comments X-RAY CRYSTALLOGRAPHY (1.65 ANGSTROMS).
Medline ID
PubMed ID 15272186
Journal Acta Crystallogr D Biol Crystallogr
Year 2004
Volume 60
Pages 1490-2
Authors Akita M, Takeda N, Hirasawa K, Sakai H, Kawamoto M, Yamamoto M, Grant WD, Hatada Y, Ito S, Horikoshi K
Title Crystallization and preliminary X-ray study of alkaline mannanase from an alkaliphilic Bacillus isolate.
Related PDB 1wky
Related UniProtKB Q4W8M3
[7]
Resource
Comments
Medline ID
PubMed ID 15642336
Journal FEBS Lett
Year 2005
Volume 579
Pages 302-12
Authors Nerinckx W, Desmet T, Piens K, Claeyssens M
Title An elaboration on the syn-anti proton donor concept of glycoside hydrolases: electrostatic stabilisation of the transition state as a general strategy.
Related PDB
Related UniProtKB
[8]
Resource
Comments X-RAY CRYSTALLOGRAPHY (1.5 ANGSTROMS) OF 27-399.
Medline ID
PubMed ID 15840830
Journal Protein Sci
Year 2005
Volume 14
Pages 1233-41
Authors Bourgault R, Oakley AJ, Bewley JD, Wilce MC
Title Three-dimensional structure of (1,4)-beta-D-mannan mannanohydrolase from tomato fruit.
Related PDB 1rh9
Related UniProtKB Q8L5J1
[9]
Resource
Comments
Medline ID
PubMed ID 16823793
Journal Angew Chem Int Ed Engl
Year 2006
Volume 45
Pages 5136-40
Authors Money VA, Smith NL, Scaffidi A, Stick RV, Gilbert HJ, Davies GJ
Title Substrate distortion by a lichenase highlights the different conformational itineraries harnessed by related glycoside hydrolases.
Related PDB
Related UniProtKB
[10]
Resource
Comments
Medline ID
PubMed ID 17069777
Journal Carbohydr Res
Year 2006
Volume 341
Pages 2912-20
Authors Ionescu AR, Whitfield DM, Zgierski MZ, Nukada T
Title Investigations into the role of oxacarbenium ions in glycosylation reactions by ab initio molecular dynamics.
Related PDB
Related UniProtKB
[11]
Resource
Comments X-RAY CRYSTALLOGRAPHY (1.6 ANGSTROMS).
Medline ID
PubMed ID 16487541
Journal J Mol Biol
Year 2006
Volume 357
Pages 1500-10
Authors Larsson AM, Anderson L, Xu B, Munoz IG, Uson I, Janson JC, Stalbrand H, Stahlberg J
Title Three-dimensional crystal structure and enzymic characterization of beta-mannanase Man5A from blue mussel Mytilus edulis.
Related PDB 2c0h
Related UniProtKB Q8WPJ2
[12]
Resource
Comments
Medline ID
PubMed ID 18085462
Journal Crit Rev Biotechnol
Year 2007
Volume 27
Pages 197-216
Authors Dhawan S, Kaur J
Title Microbial mannanases: an overview of production and applications.
Related PDB
Related UniProtKB
[13]
Resource
Comments
Medline ID
PubMed ID 18558099
Journal Curr Opin Chem Biol
Year 2008
Volume 12
Pages 539-55
Authors Vocadlo DJ, Davies GJ
Title Mechanistic insights into glycosidase chemistry.
Related PDB
Related UniProtKB
[14]
Resource
Comments X-RAY CRYSTALLOGRAPHY (1.4 ANGSTROMS).
Medline ID
PubMed ID 19441796
Journal Biochemistry
Year 2009
Volume 48
Pages 7009-18
Authors Tailford LE, Ducros VM, Flint JE, Roberts SM, Morland C, Zechel DL, Smith N, Bjornvad ME, Borchert TV, Wilson KS, Davies GJ, Gilbert HJ
Title Understanding how diverse beta-mannanases recognize heterogeneous substrates.
Related PDB 2whj 2whl
Related UniProtKB Q5YEX6

Comments
This enzyme belongs to the glycosidase family-5.
According to the literature [11], beta-mannanase belonging to the glycosidase family-5 can be divided into three subfamilies. This enzyme, which is from eukaryote, belongs to subfamily-7. On the other hand, another enzyme group from eukaryote (S00907 in EzCatDB) belongs to subfamily-10, whereas an enzyme group from bacteria (S00906 and D00861 in EzCatDB) belongs to subfamily-8. However, the catalytic site seems to be conserved among these three subfamilies.
Thus, according to the literature [8] and [11], the reaction proceeds as follows:
(0) His277 (of 1rh9) may modulate the activity of acid/base, Glu04, whereas Tyr279 may modulate the activity of nucleophile, Glu318. Moreover, Arg86 may modulate the nucleophile, Glu318, as well.
(1) Glu204 acts as a general acid to protonate the leaving oxygen in mannan, whereas Glu318 approaches the C1 atom of substrate mannan as a nucleophile. This process leads to an oxocarbenium-like transition-state (half-chair conformation; 4H3). The transition-state is stabilized by Asn203 (and probably Tyr279).
(2) Glu318 makes a nucleophilic attack on the C1 atom of mannosyl group, to form a covalent intermediate, whereas the leaving group is cleaved from mannosyl group at subsite -1.
(3) Glu204 acts as a general base to deprotonate a water molecule, to activate it.
(4) The activated water makes a nucleophilic attack on the C1 atom of the covalent intermediate. Finally, the reaction completes.

Created Updated
2010-05-20 2012-02-14