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0  structures 13  species 0  interactions 15  sequences 1  architecture

Family: Glyco_hydro_80 (PF13647)

Summary: Glycosyl hydrolase family 80 of chitosanase A

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This is the Wikipedia entry entitled "Glycoside hydrolase family 80". More...

Glycoside hydrolase family 80 Edit Wikipedia article

Glycosyl hydrolase family 80 of chitosanase A
Identifiers
Symbol Glyco_hydro_80
Pfam PF13647
Pfam clan CL0268
CAZy GH80

In molecular biology, glycoside hydrolase family 80 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 80 CAZY GH_80 includes enzymes with chitosanase EC 3.2.1.132 activity.[6]

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. ^ Shimono K, Shigeru K, Tsuchiya A, Itou N, Ohta Y, Tanaka K et al. (2002). "Two glutamic acids in chitosanase A from Matsuebacter chitosanotabidus 3001 are the catalytically important residues.". J Biochem 131 (1): 87–96. PMID 11754739. 

This page is based on a Wikipedia article. The text is available under the Creative Commons Attribution/Share-Alike License.

This tab holds the annotation information that is stored in the Pfam database. As we move to using Wikipedia as our main source of annotation, the contents of this tab will be gradually replaced by the Wikipedia tab.

Glycosyl hydrolase family 80 of chitosanase A Provide feedback

This is a small family of bacterial chitosanases.

External database links

This tab holds annotation information from the InterPro database.

InterPro entry IPR025880

This is a small family of bacterial chitosanases [PUBMED:11754739,PUBMED:10542164].

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.

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(3)
Full
(15)
Representative proteomes NCBI
(15)
Meta
(0)
RP15
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RP35
(0)
RP55
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RP75
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Format an alignment

  Seed
(3)
Full
(15)
Representative proteomes NCBI
(15)
Meta
(0)
RP15
(0)
RP35
(0)
RP55
(0)
RP75
(0)
Alignment:
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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
(3)
Full
(15)
Representative proteomes NCBI
(15)
Meta
(0)
RP15
(0)
RP35
(0)
RP55
(0)
RP75
(0)
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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.

Pfam alignments:

HMM logo

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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.

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: CAZY:GH80
Previous IDs: none
Type: Domain
Author: Naumoff D, Coggill P
Number in seed: 3
Number in full: 15
Average length of the domain: 297.50 aa
Average identity of full alignment: 91 %
Average coverage of the sequence by the domain: 89.83 %

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 25.0 25.0
Trusted cut-off 616.5 616.4
Noise cut-off 19.3 18.0
Model length: 308
Family (HMM) version: 1
Download: download the raw HMM for this family

Species distribution

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