Summary: Xyloglucan endo-transglycosylase (XET) C-terminus
Pfam includes annotations and additional family information from a range of different sources. These sources can be accessed via the tabs below.
This is the Wikipedia entry entitled "Xyloglucan endo-transglycosylase". More...
Xyloglucan endo-transglycosylase Edit Wikipedia article
Xyloglucan endo-transglycosylase C terminal domain | |||||||||
---|---|---|---|---|---|---|---|---|---|
![]() xyloglucan endotransglycosylase native structure.
|
|||||||||
Identifiers | |||||||||
Symbol | XET_C | ||||||||
Pfam | PF06955 | ||||||||
InterPro | IPR010713 | ||||||||
SCOP | 1un1 | ||||||||
SUPERFAMILY | 1un1 | ||||||||
|
In molecular biology, the xyloglucan endo-transglycosylase (XET) is an enzyme that is involved in the metabolism of xyloglucan, which is a component of plant cell walls. This enzyme is part of glycoside hydrolase family 16.
Function
Xyloglucan endo-transglycosylase (XET) is thought to be highly important during seed germination, fruit ripening, and rapid wall expansion.[1]
Xyloglucan is the predominant hemicellulose in the primary cell walls of most dicotyledons. With cellulose, it forms a network that strengthens the cell wall. XET catalyses the splitting of xyloglucan chains and the linking of the newly generated reducing end to the non-reducing end of another xyloglucan chain, thereby loosening the cell wall.[2]
References
- ^ Baumann MJ, Eklöf JM, Michel G, Kallas AM, Teeri TT, Czjzek M, et al. (2007). "Structural evidence for the evolution of xyloglucanase activity from xyloglucan endo-transglycosylases: biological implications for cell wall metabolism.". Plant Cell. 19 (6): 1947–63. doi:10.1105/tpc.107.051391. PMC 1955714
. PMID 17557806.
- ^ Schröder R, Atkinson RG, Langenkämper G, Redgwell RJ (February 1998). "Biochemical and molecular characterisation of xyloglucan endotransglycosylase from ripe kiwifruit". Planta. 204 (2): 242–51. doi:10.1007/s004250050253. PMID 9487728.
This article incorporates text from the public domain Pfam and InterPro IPR010713
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.
Xyloglucan endo-transglycosylase (XET) C-terminus Provide feedback
This family represents the C-terminus (approximately 60 residues) of plant xyloglucan endo-transglycosylase (XET). Xyloglucan is the predominant hemicellulose in the cell walls of most dicotyledons. With cellulose, it forms a network that strengthens the cell wall. XET catalyses the splitting of xyloglucan chains and the linking of the newly generated reducing end to the non-reducing end of another xyloglucan chain, thereby loosening the cell wall [1]. Note that all family members contain the PF00722 domain.
Literature references
-
Schroder R, Atkinson RG, Langenkamper G, Redgwell RJ; , Planta 1998;204:242-251.: Biochemical and molecular characterisation of xyloglucan endotransglycosylase from ripe kiwifruit. PUBMED:9487728 EPMC:9487728
External database links
SCOP: | 1un1 |
This tab holds annotation information from the InterPro database.
InterPro entry IPR010713
This entry represents the C terminus (approximately 60 residues) of plant xyloglucan endo-transglycosylase (XET). Xyloglucan is the predominant hemicellulose in the cell walls of most dicotyledons. With cellulose, it forms a network that strengthens the cell wall. XET catalyses the splitting of xyloglucan chains and the linking of the newly generated reducing end to the non-reducing end of another xyloglucan chain, thereby loosening the cell wall [PUBMED:9487728].
Gene Ontology
The mapping between Pfam and Gene Ontology is provided by InterPro. If you use this data please cite InterPro.
Cellular component | apoplast (GO:0048046) |
cell wall (GO:0005618) | |
Molecular function | xyloglucan:xyloglucosyl transferase activity (GO:0016762) |
Biological process | cellular glucan metabolic process (GO:0006073) |
Domain organisation
Below is a listing of the unique domain organisations or architectures in which this domain is found. More...
Loading domain graphics...
Pfam Clan
This family is a member of clan Concanavalin (CL0004), which has the following description:
This superfamily includes a diverse range of carbohydrate binding domains and glycosyl hydrolase enzymes that share a common structure.
The clan contains the following 49 members:
Alginate_lyase2 ArabFuran-catal Arabino_trans_N Bac_rhamnosid Bact_lectin Calreticulin Cleaved_Adhesin DUF1080 DUF1349 DUF1583 DUF1961 DUF2401 DUF3472 DUF4975 Exotox-A_bind Gal-bind_lectin GalBD_like GH131_N GH43_C2 Glyco_hydro_11 Glyco_hydro_12 Glyco_hydro_16 Glyco_hydro_32C Glyco_hydro_7 HA1 Laminin_G_1 Laminin_G_2 Laminin_G_3 Lectin_leg-like Lectin_legB MAM Methyltransf_FA Neuralized Pentaxin Peptidase_A4 Polysacc_lyase PRY Reoviridae_Vp9 Sial-lect-inser Sialidase SKN1 Spike_NTD SPRY TgMIC1 Toxin_R_bind_N TSP_C VP4_haemagglut XET_C YrpDAlignments
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 (196) |
Full (2907) |
Representative proteomes | UniProt (4115) |
NCBI (5338) |
Meta (0) |
||||
---|---|---|---|---|---|---|---|---|---|
RP15 (512) |
RP35 (1891) |
RP55 (2593) |
RP75 (2927) |
||||||
Jalview | |||||||||
HTML | |||||||||
PP/heatmap | 1 |
1Cannot generate PP/Heatmap alignments for seeds; no PP data available
Key:
available,
not generated,
— not available.
Format an alignment
Download options
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 (196) |
Full (2907) |
Representative proteomes | UniProt (4115) |
NCBI (5338) |
Meta (0) |
||||
---|---|---|---|---|---|---|---|---|---|
RP15 (512) |
RP35 (1891) |
RP55 (2593) |
RP75 (2927) |
||||||
Raw Stockholm | |||||||||
Gzipped |
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
Seed source: | Pfam-B_20045 (release 10.0) |
Previous IDs: | none |
Type: | Family |
Sequence Ontology: | SO:0100021 |
Author: |
Vella Briffa B |
Number in seed: | 196 |
Number in full: | 2907 |
Average length of the domain: | 47.50 aa |
Average identity of full alignment: | 35 % |
Average coverage of the sequence by the domain: | 16.28 % |
HMM information
HMM build commands: |
build method: hmmbuild -o /dev/null HMM SEED
search method: hmmsearch -Z 45638612 -E 1000 --cpu 4 HMM pfamseq
|
||||||||||||
Model details: |
|
||||||||||||
Model length: | 47 | ||||||||||||
Family (HMM) version: | 12 | ||||||||||||
Download: | download the raw HMM for this family |
Species distribution
Sunburst controls
HideWeight segments by...
Change the size of the sunburst
Colour assignments
![]() |
![]() |
![]() |
![]() |
![]() |
![]() |
![]() |
![]() |
Selections
Align selected sequences to HMM
Generate a FASTA-format file
Clear selection
This visualisation provides a simple graphical representation of the distribution of this family across species. You can find the original interactive tree in the adjacent tab. More...
Tree controls
HideThe tree shows the occurrence of this domain across different species. More...
Loading...
Please note: for large trees this can take some time. While the tree is loading, you can safely switch away from this tab but if you browse away from the family page entirely, the tree will not be loaded.
Interactions
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 XET_C domain has been found. There are 13 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.
Loading structure mapping...