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165  structures 1466  species 1  interaction 5309  sequences 205  architectures

Family: Cellulase (PF00150)

Summary: Cellulase (glycosyl hydrolase family 5)

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This is the Wikipedia entry entitled "Glycoside hydrolase family 5". More...

Glycoside hydrolase family 5 Edit Wikipedia article

Cellulase (glycosyl hydrolase family 5)
Identifiers
Symbol Cellulase
Pfam PF00150
Pfam clan CL0058
InterPro IPR001547
PROSITE PDOC00565
SCOP 2exo
SUPERFAMILY 2exo
OPM superfamily 125
OPM protein 2osx
CAZy GH5

In molecular biology, glycoside hydrolase family 5 is a family of glycoside hydrolases.

Glycoside hydrolases EC 3.2.1. are a widespread group of enzymes that hydrolyse the glycosidic bond between two or more carbohydrates, or between a carbohydrate and a non-carbohydrate moiety. A classification system for glycoside hydrolases, based on sequence similarity, has led to the definition of >100 different families.[1][2][3] This classification is available on the CAZy(http://www.cazy.org/GH1.html) web site,[4] and also discussed at CAZypedia, an online encyclopedia of carbohydrate active enzymes.[5]

Glycoside hydrolase family 5 CAZY GH_5 comprises enzymes with several known activities including endoglucanase (EC 3.2.1.4); beta-mannanase (EC 3.2.1.78); exo-1,3-glucanase (EC 3.2.1.58); endo-1,6-glucanase (EC 3.2.1.75); xylanase (EC 3.2.1.8); endoglycoceramidase (EC 3.2.1.123).

The microbial degradation of cellulose and xylans requires several types of enzymes. Fungi and bacteria produces a spectrum of cellulolytic enzymes (cellulases) and xylanases which, on the basis of sequence similarities, can be classified into families. One of these families is known as the cellulase family A[6] or as the glycosyl hydrolases family 5.[7] One of the conserved regions in this family contains a conserved glutamic acid residue which is potentially involved[8] in the catalytic mechanism.

In a recent study using Molecular Dynamics simulations, a considerable correlation between thermal stability and structural rigidity of members of family 5 with solved structures has been proved.[9]

References[edit]

  1. ^ Henrissat B, Callebaut I, Mornon JP, Fabrega S, Lehn P, Davies G (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 (15): 7090–7094. doi:10.1073/pnas.92.15.7090. PMC 41477. PMID 7624375. 
  2. ^ Henrissat B, Davies G (1995). "Structures and mechanisms of glycosyl hydrolases". Structure 3 (9): 853–859. doi:10.1016/S0969-2126(01)00220-9. PMID 8535779. 
  3. ^ Bairoch, A. "Classification of glycosyl hydrolase families and index of glycosyl hydrolase entries in SWISS-PROT". 1999.
  4. ^ Henrissat, B. and Coutinho P.M. "Carbohydrate-Active Enzymes server". 1999.
  5. ^ CAZypedia, an online encyclopedia of carbohydrate-active enzymes.
  6. ^ Henrissat B, Tomme P, Claeyssens M, Mornon JP, Lemesle L (1989). "Cellulase families revealed by hydrophobic cluster analysis". Gene 81 (1): 83–95. doi:10.1016/0378-1119(89)90339-9. PMID 2806912. 
  7. ^ Henrissat B (1991). "A classification of glycosyl hydrolases based on amino acid sequence similarities". Biochem. J. 280: 309–316. PMC 1130547. PMID 1747104. 
  8. ^ Haiech J, Chippaux M, Barras F, Py B, Bortoli-German I (1991). "Cellulase EGZ of Erwinia chrysanthemi: structural organization and importance of His98 and Glu133 residues for catalysis". Protein Eng. 4 (3): 325–333. doi:10.1093/protein/4.3.325. PMID 1677466. 
  9. ^ Badieyan, S; Bevan DR, Zhang C (January 2012). "Study and design of stability in GH5 cellulases.". Biotechnology and Bioengineering 109 (1): 31–44. doi:10.1002/bit.23280. PMID 21809329. 

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Cellulase (glycosyl hydrolase family 5) Provide feedback

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Internal database links

External database links

This tab holds annotation information from the InterPro database.

InterPro entry IPR001547

O-Glycosyl hydrolases (EC) are a widespread group of enzymes that hydrolyse the glycosidic bond between two or more carbohydrates, or between a carbohydrate and a non-carbohydrate moiety. A classification system for glycosyl hydrolases, based on sequence similarity, has led to the definition of 85 different families [PUBMED:7624375, PUBMED:8535779]. This classification is available on the CAZy (CArbohydrate-Active EnZymes) web site.

Glycoside hydrolase family 5 CAZY comprises enzymes with several known activities; endoglucanase (EC); beta-mannanase (EC); exo-1,3-glucanase (EC); endo-1,6-glucanase (EC); xylanase (EC); endoglycoceramidase (EC).

The microbial degradation of cellulose and xylans requires several types of enzymes. Fungi and bacteria produces a spectrum of cellulolytic enzymes (cellulases) and xylanases which, on the basis of sequence similarities, can be classified into families. One of these families is known as the cellulase family A [PUBMED:2806912] or as the glycosyl hydrolases family 5 [PUBMED:1747104]. One of the conserved regions in this family contains a conserved glutamic acid residue which is potentially involved [PUBMED:1677466] in the catalytic mechanism.

Gene Ontology

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Domain organisation

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Alignments

We store a range of different sequence alignments for families. As well as the seed alignment from which the family is built, we provide the full alignment, generated by searching the sequence database using the family HMM. We also generate alignments using four representative proteomes (RP) sets, the NCBI sequence database, and our metagenomics sequence database. More...

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We make a range of alignments for each Pfam-A family. You can see a description of each above. You can view these alignments in various ways but please note that some types of alignment are never generated while others may not be available for all families, most commonly because the alignments are too large to handle.

  Seed
(65)
Full
(5309)
Representative proteomes NCBI
(7158)
Meta
(527)
RP15
(829)
RP35
(1465)
RP55
(1881)
RP75
(2106)
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Format an alignment

  Seed
(65)
Full
(5309)
Representative proteomes NCBI
(7158)
Meta
(527)
RP15
(829)
RP35
(1465)
RP55
(1881)
RP75
(2106)
Alignment:
Format:
Order:
Sequence:
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We make all of our alignments available in Stockholm format. You can download them here as raw, plain text files or as gzip-compressed files.

  Seed
(65)
Full
(5309)
Representative proteomes NCBI
(7158)
Meta
(527)
RP15
(829)
RP35
(1465)
RP55
(1881)
RP75
(2106)
Raw Stockholm Download   Download   Download   Download   Download   Download   Download   Download  
Gzipped Download   Download   Download   Download   Download   Download   Download   Download  

You can also download a FASTA format file containing the full-length sequences for all sequences in the full alignment.

External links

MyHits provides a collection of tools to handle multiple sequence alignments. For example, one can refine a seed alignment (sequence addition or removal, re-alignment or manual edition) and then search databases for remote homologs using HMMER3.

HMM logo

HMM logos is one way of visualising profile HMMs. Logos provide a quick overview of the properties of an HMM in a graphical form. You can see a more detailed description of HMM logos and find out how you can interpret them here. More...

Trees

This page displays the phylogenetic tree for this family's seed alignment. We use FastTree to calculate neighbour join trees with a local bootstrap based on 100 resamples (shown next to the tree nodes). FastTree calculates approximately-maximum-likelihood phylogenetic trees from our seed alignment.

Note: You can also download the data file for the tree.

Curation and family details

This section shows the detailed information about the Pfam family. You can see the definitions of many of the terms in this section in the glossary and a fuller explanation of the scoring system that we use in the scores section of the help pages.

Curation View help on the curation process

Seed source: Prosite
Previous IDs: cellulase;
Type: Domain
Author: Sonnhammer ELL
Number in seed: 65
Number in full: 5309
Average length of the domain: 265.90 aa
Average identity of full alignment: 14 %
Average coverage of the sequence by the domain: 56.85 %

HMM information View help on HMM parameters

HMM build commands:
build method: hmmbuild -o /dev/null HMM SEED
search method: hmmsearch -Z 23193494 -E 1000 --cpu 4 HMM pfamseq
Model details:
Parameter Sequence Domain
Gathering cut-off 20.8 20.8
Trusted cut-off 20.8 20.8
Noise cut-off 20.7 20.7
Model length: 281
Family (HMM) version: 13
Download: download the raw HMM for this family

Species distribution

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Interactions

There is 1 interaction for this family. More...

Cellulase

Structures

For those sequences which have a structure in the Protein DataBank, we use the mapping between UniProt, PDB and Pfam coordinate systems from the PDBe group, to allow us to map Pfam domains onto UniProt sequences and three-dimensional protein structures. The table below shows the structures on which the Cellulase domain has been found. There are 165 instances of this domain found in the PDB. Note that there may be multiple copies of the domain in a single PDB structure, since many structures contain multiple copies of the same protein seqence.

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