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121  structures 118  species 1  interaction 613  sequences 8  architectures

Family: Glyco_transf_6 (PF03414)

Summary: Glycosyltransferase family 6

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 "Glycoprotein-fucosylgalactoside a-N-acetylgalactosaminyltransferase". More...

Glycoprotein-fucosylgalactoside a-N-acetylgalactosaminyltransferase Edit Wikipedia article

glycoprotein-fucosylgalactoside alpha-N-acetylgalactosaminyltransferase
Identifiers
EC number 2.4.1.40
CAS number 9067-69-0
Databases
IntEnz IntEnz view
BRENDA BRENDA entry
ExPASy NiceZyme view
KEGG KEGG entry
MetaCyc metabolic pathway
PRIAM profile
PDB structures RCSB PDB PDBe PDBsum
Gene Ontology AmiGO / EGO

In enzymology, a glycoprotein-fucosylgalactoside alpha-N-acetylgalactosaminyltransferase (EC 2.4.1.40) is an enzyme that catalyzes the chemical reaction

UDP-N-acetyl-D-galactosamine + glycoprotein-alpha-L-fucosyl-(1,2)-D-galactose \rightleftharpoons UDP + glycoprotein-N-acetyl-alpha-D-galactosaminyl-(1,3)-[alpha-L-fucosyl- (1,2)]-D-galactose

Thus, the two substrates of this enzyme are UDP-N-acetyl-D-galactosamine and glycoprotein-alpha-L-fucosyl-(1,2)-D-galactose, whereas its 3 products are UDP, [[glycoprotein-N-acetyl-alpha-D-galactosaminyl-(1,3)-[alpha-L-fucosyl-]], and [[(1,2)]-D-galactose]].

This enzyme belongs to the family of transferases, specifically those glycosyltransferases hexosyltransferases. The systematic name of this enzyme class is UDP-N-acetyl-D-galactosamine:glycoprotein-alpha-L-fucosyl-(1,2)-D-ga lactose 3-N-acetyl-D-galactosaminyltransferase. Other names in common use include A-transferase, histo-blood group A glycosyltransferase, (Fucalpha1→2Galalpha1→3-N-acetylgalactosaminyltransferase), UDP-GalNAc:Fucalpha1→2Galalpha1→3-N-acetylgalactosaminyltransferase, alpha-3-N-acetylgalactosaminyltransferase, blood-group substance alpha-acetyltransferase, blood-group substance A-dependent acetylgalactosaminyltransferase, fucosylgalactose acetylgalactosaminyltransferase, histo-blood group A acetylgalactosaminyltransferase, histo-blood group A transferase, UDP-N-acetyl-D-galactosamine:alpha-L-fucosyl-1,2-D-galactose, and 3-N-acetyl-D-galactosaminyltransferase. This enzyme participates in 3 metabolic pathways: the lactoseries and neolactoseries of glycosphingolipid biosynthesis, as well as the biosynthesis of glycan structures.

Structural studies[edit]

As of late 2007, 19 structures have been solved for this class of enzymes, with PDB accession codes 1LZ0, 1LZI, 1R7T, 1R7V, 1R7Y, 1R81, 1WSZ, 1WT0, 1WT1, 1WT2, 1WT3, 1XZ6, 1ZHJ, 1ZI1, 1ZI3, 1ZI4, 1ZI5, 1ZJO, and 2A8W.

References[edit]

  • Kobata A, Grollman EF, Ginsburg V (1968). "An enzymic basis for blood type A in humans". Arch. Biochem. Biophys. 124 (1): 609–12. doi:10.1016/0003-9861(68)90373-1. PMID 5661629. 
  • Takeya A, Hosomi O, Ishiura M (Tokyo). "Complete purification and characterization of alpha-3-N-acetylgalactosaminyltransferase encoded by the human blood group A gene". J. Biochem. (3): 360–8. PMID 2341371. 
  • Yates AD, Feeney J, Donald AS, Watkins WM (1984). "Characterisation of a blood-group A-active tetrasaccharide synthesised by a blood-group B gene-specified glycosyltransferase". Carbohydr. Res. 130 (1): 251–60. doi:10.1016/0008-6215(84)85283-0. PMID 6434182. 


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Glycosyltransferase family 6 Provide feedback

No Pfam abstract.

External database links

This tab holds annotation information from the InterPro database.

InterPro entry IPR005076

The biosynthesis of disaccharides, oligosaccharides and polysaccharides involves the action of hundreds of different glycosyltransferases. These enzymes catalyse the transfer of sugar moieties from activated donor molecules to specific acceptor molecules, forming glycosidic bonds. A classification of glycosyltransferases using nucleotide diphospho-sugar, nucleotide monophospho-sugar and sugar phosphates (EC) and related proteins into distinct sequence based families has been described [PUBMED:9334165]. This classification is available on the CAZy (CArbohydrate-Active EnZymes) web site. The same three-dimensional fold is expected to occur within each of the families. Because 3-D structures are better conserved than sequences, several of the families defined on the basis of sequence similarities may have similar 3-D structures and therefore form 'clans'.

Glycosyltransferase family 6 CAZY comprises enzymes with three known activities; alpha-1,3-galactosyltransferase (EC); alpha-1,3 N-acetylgalactosaminyltransferase (EC); alpha-galactosyltransferase (EC).

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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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
(6)
Full
(613)
Representative proteomes NCBI
(620)
Meta
(297)
RP15
(7)
RP35
(24)
RP55
(62)
RP75
(171)
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Key: ✓ available, x not generated, not available.

Format an alignment

  Seed
(6)
Full
(613)
Representative proteomes NCBI
(620)
Meta
(297)
RP15
(7)
RP35
(24)
RP55
(62)
RP75
(171)
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
(6)
Full
(613)
Representative proteomes NCBI
(620)
Meta
(297)
RP15
(7)
RP35
(24)
RP55
(62)
RP75
(171)
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.

Pfam alignments:

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: Pfam-B_4383 (release 6.6)
Previous IDs: none
Type: Family
Author: Bateman A
Number in seed: 6
Number in full: 613
Average length of the domain: 246.90 aa
Average identity of full alignment: 53 %
Average coverage of the sequence by the domain: 92.10 %

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 25.8 25.5
Noise cut-off 20.7 20.3
Model length: 338
Family (HMM) version: 8
Download: download the raw HMM for this family

Species distribution

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Interactions

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

Glyco_transf_6

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_transf_6 domain has been found. There are 121 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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