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164  structures 632  species 4  interactions 2356  sequences 132  architectures

Family: Glyco_hydro_10 (PF00331)

Summary: Glycosyl hydrolase family 10

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This is the Wikipedia entry entitled "Glycoside hydrolase family 10". More...

Glycoside hydrolase family 10 Edit Wikipedia article

Glycoside hydrolase, family 10
PDB 1nq6 EBI.jpg
crystal structure of the catalytic domain of xylanase a from streptomyces halstedii jm8
Identifiers
Symbol Glyco_hydro_10
Pfam PF00331
Pfam clan CL0058
InterPro IPR001000
PROSITE PDOC00510
SCOP 2exo
SUPERFAMILY 2exo
CAZy GH10

In molecular biology, Glycoside hydrolase family 10 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 10 CAZY GH_10 comprises enzymes with a number of known activities; xylanase (EC 3.2.1.8); endo-1,3-beta-xylanase (EC 3.2.1.32); cellobiohydrolase (EC 3.2.1.91). These enzymes were formerly known as cellulase family F.

The microbial degradation of cellulose and xylans requires several types of enzymes such as endoglucanases (EC 3.2.1.4), cellobiohydrolases (EC 3.2.1.91) (exoglucanases), or xylanases (EC 3.2.1.8).[6][7] 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 F[8] or as the glycosyl hydrolases family 10.[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. ^ Beguin P (1990). "Molecular biology of cellulose degradation". Annu. Rev. Microbiol. 44: 219–48. doi:10.1146/annurev.mi.44.100190.001251. PMID 2252383. 
  7. ^ Gilkes NR, Henrissat B, Kilburn DG, Miller RC, Warren RA (June 1991). "Domains in microbial beta-1, 4-glycanases: sequence conservation, function, and enzyme families". Microbiol. Rev. 55 (2): 303–15. PMC 372816. PMID 1886523. 
  8. ^ Henrissat B, Claeyssens M, Tomme P, Lemesle L, Mornon JP (September 1989). "Cellulase families revealed by hydrophobic cluster analysis". Gene 81 (1): 83–95. doi:10.1016/0378-1119(89)90339-9. PMID 2806912. 
  9. ^ Henrissat B (December 1991). "A classification of glycosyl hydrolases based on amino acid sequence similarities". Biochem. J. 280 (2): 309–16. PMC 1130547. PMID 1747104. 

This article incorporates text from the public domain Pfam and InterPro IPR001000

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This tab holds annotation information from the InterPro database.

InterPro entry IPR001000

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 10 CAZY comprises enzymes with a number of known activities; xylanase (EC); endo-1,3-beta-xylanase (EC); cellobiohydrolase (EC). These enzymes were formerly known as cellulase family F.

The microbial degradation of cellulose and xylans requires several types of enzymes such as endoglucanases (EC), cellobiohydrolases (EC) (exoglucanases), or xylanases (EC) [PUBMED:2252383, PUBMED:1886523]. 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 F [PUBMED:2806912] or as the glycosyl hydrolases family 10 [PUBMED:1747104].

Gene Ontology

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Domain organisation

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Alignments

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  Seed
(54)
Full
(2356)
Representative proteomes NCBI
(2484)
Meta
(350)
RP15
(311)
RP35
(563)
RP55
(699)
RP75
(770)
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Format an alignment

  Seed
(54)
Full
(2356)
Representative proteomes NCBI
(2484)
Meta
(350)
RP15
(311)
RP35
(563)
RP55
(699)
RP75
(770)
Alignment:
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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
(54)
Full
(2356)
Representative proteomes NCBI
(2484)
Meta
(350)
RP15
(311)
RP35
(563)
RP55
(699)
RP75
(770)
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.

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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.

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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.

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Seed source: Prosite
Previous IDs: glycosyl_hydro3;
Type: Family
Author: Finn RD, Griffiths-Jones SR
Number in seed: 54
Number in full: 2356
Average length of the domain: 243.90 aa
Average identity of full alignment: 30 %
Average coverage of the sequence by the domain: 61.72 %

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 19.9 19.9
Trusted cut-off 19.9 19.9
Noise cut-off 19.8 19.8
Model length: 320
Family (HMM) version: 15
Download: download the raw HMM for this family

Species distribution

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Interactions

There are 4 interactions for this family. More...

CBM_15 Ricin_B_lectin Glyco_hydro_10 Glyco_hydro_18

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 Glyco_hydro_10 domain has been found. There are 164 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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