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8  structures 475  species 0  interactions 18677  sequences 374  architectures

Family: CBM_14 (PF01607)

Summary: Chitin binding Peritrophin-A domain

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This is the Wikipedia entry entitled "Carbohydrate-binding module". More...

Carbohydrate-binding module Edit Wikipedia article

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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.

Chitin binding Peritrophin-A domain Provide feedback

This domain is called the Peritrophin-A domain and is found in chitin binding proteins particularly peritrophic matrix proteins of insects and animal chitinases. Copies of the domain are also found in some baculoviruses. Relevant references that describe proteins with this domain include [1-3]. It is an extracellular domain that contains six conserved cysteines that probably form three disulphide bridges. Chitin binding has been demonstrated for a protein containing only two of these domains [1].

Literature references

  1. Shen Z, Jacobs-Lorena M; , J Biol Chem 1998;273:17665-17670.: A type I peritrophic matrix protein from the malaria vector Anopheles gambiae binds to chitin. Cloning, expression, and characterization. PUBMED:9651363 EPMC:9651363

  2. Elvin CM, Vuocolo T, Pearson RD, East IJ, Riding GA, Eisemann CH, Tellam RL; , J Biol Chem 1996;271:8925-8935.: Characterization of a major peritrophic membrane protein, peritrophin-44, from the larvae of Lucilia cuprina. cDNA and deduced amino acid sequences. PUBMED:8621536 EPMC:8621536

  3. Casu R, Eisemann C, Pearson R, Riding G, East I, Donaldson A, Cadogan L, Tellam R; , Proc Natl Acad Sci U S A 1997;94:8939-8944.: Antibody-mediated inhibition of the growth of larvae from an insect causing cutaneous myiasis in a mammalian host. PUBMED:9256413 EPMC:9256413


External database links

This tab holds annotation information from the InterPro database.

InterPro entry IPR002557

This entry represents a chitin binding domain [PUBMED:10770921]. It is found in (amongst others) the Peritrophin-A chitin binding proteins, particularly the peritrophic matrix proteins of insects and animal chitinases [PUBMED:9651363, PUBMED:8621536, PUBMED:9256413]. Copies of the domain are also found in some baculoviruses. It is an extracellular domain that contains six conserved cysteines that probably form three disulphide bridges. Chitin binding has been demonstrated for a protein containing only two of these domains [PUBMED:9651363].

Gene Ontology

The mapping between Pfam and Gene Ontology is provided by InterPro. If you use this data please cite InterPro.

Domain organisation

Below is a listing of the unique domain organisations or architectures in which this domain is found. More...

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Pfam Clan

This family is a member of clan CBM_14_19 (CL0155), which has the following description:

This clan includes two different carbohydrate binding modules.

The clan contains the following 2 members:

CBM_14 CBM_19

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 (reference proteomes) using the family HMM. We also generate alignments using four representative proteomes (RP) sets, the UniProtKB sequence database, the NCBI sequence database, and our metagenomics sequence database. More...

View options

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
(151)
Full
(18677)
Representative proteomes UniProt
(34257)
NCBI
(35061)
Meta
(6)
RP15
(5611)
RP35
(9018)
RP55
(14476)
RP75
(17589)
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PP/heatmap 1                

1Cannot generate PP/Heatmap alignments for seeds; no PP data available

Key: ✓ available, x not generated, not available.

Format an alignment

  Seed
(151)
Full
(18677)
Representative proteomes UniProt
(34257)
NCBI
(35061)
Meta
(6)
RP15
(5611)
RP35
(9018)
RP55
(14476)
RP75
(17589)
Alignment:
Format:
Order:
Sequence:
Gaps:
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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
(151)
Full
(18677)
Representative proteomes UniProt
(34257)
NCBI
(35061)
Meta
(6)
RP15
(5611)
RP35
(9018)
RP55
(14476)
RP75
(17589)
Raw Stockholm Download   Download   Download   Download   Download   Download   Download   Download   Download  
Gzipped Download   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.

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: [1]
Previous IDs: Chitin_bind_2;
Type: Domain
Sequence Ontology: SO:0000417
Author: Tellam RL , Hutter H, Bateman A
Number in seed: 151
Number in full: 18677
Average length of the domain: 53.50 aa
Average identity of full alignment: 23 %
Average coverage of the sequence by the domain: 21.30 %

HMM information View help on HMM parameters

HMM build commands:
build method: hmmbuild -o /dev/null HMM SEED
search method: hmmsearch -Z 45638612 -E 1000 --cpu 4 HMM pfamseq
Model details:
Parameter Sequence Domain
Gathering cut-off 22.1 22.1
Trusted cut-off 22.1 22.1
Noise cut-off 22.0 22.0
Model length: 53
Family (HMM) version: 24
Download: download the raw HMM for this family

Species distribution

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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 CBM_14 domain has been found. There are 8 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 sequence.

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