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19  structures 1345  species 0  interactions 10511  sequences 131  architectures

Family: Branch (PF02485)

Summary: Core-2/I-Branching enzyme

Pfam includes annotations and additional family information from a range of different sources. These sources can be accessed via the tabs below.

The Pfam group coordinates the annotation of Pfam families in Wikipedia, but we have not yet assigned a Wikipedia article to this family. If you think that a particular Wikipedia article provides good annotation, please let us know.

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.

Core-2/I-Branching enzyme Provide feedback

This is a family of two different beta-1,6-N-acetylglucosaminyltransferase enzymes, I-branching enzyme (eg Q06430) and core-2 branching enzyme (eg Q02742). I-branching enzyme is responsible for the production of the blood group I-antigen during embryonic development [1]. Core-2 branching enzyme forms crucial side-chain branches in O-glycans [2]. This is a fmmily of glycosyl-transferases that are Type II membrane proteins that are found in the endoplasmic reticulum (ER) and Golgi apparatus [2].

Literature references

  1. Bierhuizen MF, Mattei MG, Fukuda M; , Genes Dev 1993;7:468-478.: Expression of the developmental I antigen by a cloned human cDNA encoding a member of a beta-1,6-N-acetylglucosaminyltransferase gene family. PUBMED:8449405 EPMC:8449405

  2. Yeh JC, Ong E, Fukuda M; , J Biol Chem 1999;274:3215-3221.: Molecular cloning and expression of a novel beta-1, 6-N-acetylglucosaminyltransferase that forms core 2, core 4, and I branches. PUBMED:9915862 EPMC:9915862

  3. Hansen SF, Harholt J, Oikawa A, Scheller HV;, Front Plant Sci. 2012;3:59.: Plant Glycosyltransferases Beyond CAZy: A Perspective on DUF Families. PUBMED:22629278 EPMC:22629278


This tab holds annotation information from the InterPro database.

InterPro entry IPR003406

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 ([intenz:2.4.1.-]) 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'.

This is the glycosyltransferase family 14 CAZY , a family of two different beta-1,6-N-acetylglucosaminyltransferase enzymes, I-branching enzyme ( EC ) and core-2 branching enzyme ( EC ). I-branching enzyme, an integral membrane protein, converts linear into branched poly-N-acetyllactosaminoglycans in the glycosylation pathway, and is responsible for the production of the blood group I-antigen during embryonic development [ PUBMED:8449405 ]. Core-2 branching enzyme, also an integral membrane protein, forms crucial side-chain branches in O-glycans in the glycosylation pathway [ PUBMED:9915862 ].

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 (reference proteomes) using the family HMM. We also generate alignments using four representative proteomes (RP) sets and the UniProtKB 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
(41)
Full
(10511)
Representative proteomes UniProt
(18980)
RP15
(1584)
RP35
(5326)
RP55
(9239)
RP75
(12233)
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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
(41)
Full
(10511)
Representative proteomes UniProt
(18980)
RP15
(1584)
RP35
(5326)
RP55
(9239)
RP75
(12233)
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
(41)
Full
(10511)
Representative proteomes UniProt
(18980)
RP15
(1584)
RP35
(5326)
RP55
(9239)
RP75
(12233)
Raw Stockholm Download   Download   Download   Download   Download   Download   Download  
Gzipped 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: Pfam-B_842 (release 5.4)
Previous IDs: none
Type: Family
Sequence Ontology: SO:0100021
Author: Mian N , Bateman A
Number in seed: 41
Number in full: 10511
Average length of the domain: 222.90 aa
Average identity of full alignment: 21 %
Average coverage of the sequence by the domain: 54.18 %

HMM information View help on HMM parameters

HMM build commands:
build method: hmmbuild -o /dev/null HMM SEED
search method: hmmsearch -Z 57096847 -E 1000 --cpu 4 HMM pfamseq
Model details:
Parameter Sequence Domain
Gathering cut-off 23.4 23.4
Trusted cut-off 23.4 23.4
Noise cut-off 23.3 23.3
Model length: 247
Family (HMM) version: 23
Download: download the raw HMM for this family

Species distribution

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Selections

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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 Branch domain has been found. There are 19 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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AlphaFold Structure Predictions

The list of proteins below match this family and have AlphaFold predicted structures. Click on the protein accession to view the predicted structure.

Protein Predicted structure External Information
A0A078BPF3 View 3D Structure Click here
A0A0G2JZ89 View 3D Structure Click here
A0A0N7KCA1 View 3D Structure Click here
A0A0P0UXM6 View 3D Structure Click here
A0A0P0W2L2 View 3D Structure Click here
A0A0P0W8A9 View 3D Structure Click here
A0A0P0WEU1 View 3D Structure Click here
A0A0P0WI84 View 3D Structure Click here
A0A0P0WYG5 View 3D Structure Click here
A0A0P0XDA1 View 3D Structure Click here
A0A0P0XRC7 View 3D Structure Click here
A0A0P0Y549 View 3D Structure Click here
A0A0R0EG92 View 3D Structure Click here
A0A0R0F5T2 View 3D Structure Click here
A0A0R0H4B4 View 3D Structure Click here
A0A0R0I1Y5 View 3D Structure Click here
A0A0R0I6P3 View 3D Structure Click here
A0A0R0IRW2 View 3D Structure Click here
A0A0R0IYK1 View 3D Structure Click here
A0A0R0J2Q0 View 3D Structure Click here
A0A0R0J3D7 View 3D Structure Click here
A0A0R4J4K9 View 3D Structure Click here
A0A0R4J4K9 View 3D Structure Click here
A0A1D6E041 View 3D Structure Click here
A0A1D6F6M5 View 3D Structure Click here
A0A1D6FKF1 View 3D Structure Click here
A0A1D6FM57 View 3D Structure Click here
A0A1D6FM57 View 3D Structure Click here
A0A1D6FUE1 View 3D Structure Click here
A0A1D6GLE8 View 3D Structure Click here
A0A1D6H5H2 View 3D Structure Click here
A0A1D6HSK7 View 3D Structure Click here
A0A1D6I1L8 View 3D Structure Click here
A0A1D6I4A8 View 3D Structure Click here
A0A1D6JNI2 View 3D Structure Click here
A0A1D6JPT8 View 3D Structure Click here
A0A1D6JY84 View 3D Structure Click here
A0A1D6KGF4 View 3D Structure Click here
A0A1D6KH00 View 3D Structure Click here
A0A1D6KUQ8 View 3D Structure Click here
A0A1D6KWZ2 View 3D Structure Click here
A0A1D6L056 View 3D Structure Click here
A0A1D6L344 View 3D Structure Click here
A0A1D6L344 View 3D Structure Click here
A0A1D6LQ88 View 3D Structure Click here
A0A1D6MLY7 View 3D Structure Click here
A0A1D6MLY8 View 3D Structure Click here
A0A1D6MME8 View 3D Structure Click here
A0A1D6MV49 View 3D Structure Click here
A0A1D6MVF7 View 3D Structure Click here
A0A1D6P5I8 View 3D Structure Click here
A0A1D6PDJ6 View 3D Structure Click here
A0A2R8Q751 View 3D Structure Click here
B4F927 View 3D Structure Click here
B4FBZ8 View 3D Structure Click here
B4FSP8 View 3D Structure Click here
B4FUU4 View 3D Structure Click here
B4FYK5 View 3D Structure Click here
B4G1B2 View 3D Structure Click here
B6IDH4 View 3D Structure Click here
B6ST68 View 3D Structure Click here
B6SYK4 View 3D Structure Click here
B6TXU5 View 3D Structure Click here
B7FAK0 View 3D Structure Click here
C0P7B6 View 3D Structure Click here
C0P7H1 View 3D Structure Click here
C0P7Q7 View 3D Structure Click here
C0PEJ5 View 3D Structure Click here
C0PGR7 View 3D Structure Click here
C0PMX3 View 3D Structure Click here
C4J660 View 3D Structure Click here
D3ZBX5 View 3D Structure Click here
E7F216 View 3D Structure Click here
E7FGA6 View 3D Structure Click here
E9Q649 View 3D Structure Click here
F1R0Z0 View 3D Structure Click here
F1RAK7 View 3D Structure Click here
F4JIW2 View 3D Structure Click here
G5EBK7 View 3D Structure Click here
G5EBQ5 View 3D Structure Click here
G5ECK8 View 3D Structure Click here
G5EDP7 View 3D Structure Click here
G5EEZ8 View 3D Structure Click here
I1JW61 View 3D Structure Click here
I1K1L1 View 3D Structure Click here
I1KDF9 View 3D Structure Click here
I1KDV2 View 3D Structure Click here
I1KF55 View 3D Structure Click here
I1KGG0 View 3D Structure Click here
I1KGP7 View 3D Structure Click here
I1KIZ1 View 3D Structure Click here
I1KKS3 View 3D Structure Click here
I1KQ97 View 3D Structure Click here
I1L2P3 View 3D Structure Click here
I1L2U1 View 3D Structure Click here
I1L4B0 View 3D Structure Click here
I1LAG4 View 3D Structure Click here
I1LAK7 View 3D Structure Click here
I1LEU5 View 3D Structure Click here
I1LRY0 View 3D Structure Click here
I1LT56 View 3D Structure Click here
I1LT93 View 3D Structure Click here
I1LV11 View 3D Structure Click here
I1LVM9 View 3D Structure Click here
I1LWH6 View 3D Structure Click here
I1LZZ1 View 3D Structure Click here
I1M377 View 3D Structure Click here
I1M482 View 3D Structure Click here
I1M8Z3 View 3D Structure Click here
I1M9I9 View 3D Structure Click here
I1MJS9 View 3D Structure Click here
I1MKV8 View 3D Structure Click here
I1MSM6 View 3D Structure Click here
I1MU95 View 3D Structure Click here
I1MWJ1 View 3D Structure Click here
I1MXD9 View 3D Structure Click here
I1N1T5 View 3D Structure Click here
I1N499 View 3D Structure Click here
I1N8E6 View 3D Structure Click here
I1NDQ1 View 3D Structure Click here
I1NFU7 View 3D Structure Click here
K7KDS4 View 3D Structure Click here
K7KRJ6 View 3D Structure Click here
K7L271 View 3D Structure Click here
K7L7Q3 View 3D Structure Click here
K7LFT1 View 3D Structure Click here
K7LLL0 View 3D Structure Click here
K7M6J4 View 3D Structure Click here
K7MAT0 View 3D Structure Click here
K7MDC0 View 3D Structure Click here
K7MMJ4 View 3D Structure Click here
K7MN36 View 3D Structure Click here
K7MW09 View 3D Structure Click here
K7N219 View 3D Structure Click here
K7N2Y3 View 3D Structure Click here
K7TL64 View 3D Structure Click here
K7TTY2 View 3D Structure Click here
K7U6C5 View 3D Structure Click here
K7VPN2 View 3D Structure Click here
K7VPV9 View 3D Structure Click here
O02309 View 3D Structure Click here
O02312 View 3D Structure Click here
O02315 View 3D Structure Click here
O16776 View 3D Structure Click here
O45866 View 3D Structure Click here
O49362 View 3D Structure Click here
O76634 View 3D Structure Click here
O95395 View 3D Structure Click here
P97402 View 3D Structure Click here
Q02742 View 3D Structure Click here
Q058K9 View 3D Structure Click here
Q09324 View 3D Structure Click here
Q0DAD0 View 3D Structure Click here
Q0JH98 View 3D Structure Click here
Q0WR07 View 3D Structure Click here
Q10NA4 View 3D Structure Click here
Q10RU9 View 3D Structure Click here
Q19730 View 3D Structure Click here
Q1G300 View 3D Structure Click here
Q1PDT4 View 3D Structure Click here
Q20081 View 3D Structure Click here
Q21796 View 3D Structure Click here
Q22481 View 3D Structure Click here
Q2QLJ7 View 3D Structure Click here
Q2QLN3 View 3D Structure Click here
Q2QM36 View 3D Structure Click here
Q337V3 View 3D Structure Click here
Q3V3K7 View 3D Structure Click here
Q494P1 View 3D Structure Click here
Q4V3A2 View 3D Structure Click here
Q55CU3 View 3D Structure Click here
Q55DR5 View 3D Structure Click here
Q55F91 View 3D Structure Click here
Q5JCT0 View 3D Structure Click here
Q5N9P7 View 3D Structure Click here
Q5Z845 View 3D Structure Click here
Q60DJ5 View 3D Structure Click here
Q64165 View 3D Structure Click here
Q65XS5 View 3D Structure Click here
Q6AV49 View 3D Structure Click here
Q6DBE8 View 3D Structure Click here
Q6DST3 View 3D Structure Click here
Q6EUQ8 View 3D Structure Click here
Q6T5D9 View 3D Structure Click here
Q6YWE7 View 3D Structure Click here
Q6YYY9 View 3D Structure Click here
Q6Z134 View 3D Structure Click here
Q6ZC58 View 3D Structure Click here
Q6ZNI0 View 3D Structure Click here
Q71SG7 View 3D Structure Click here
Q7KVA1 View 3D Structure Click here
Q7XGI7 View 3D Structure Click here
Q7XSY3 View 3D Structure Click here
Q811B1 View 3D Structure Click here
Q86Y38 View 3D Structure Click here
Q8CH87 View 3D Structure Click here
Q8GS18 View 3D Structure Click here
Q8GYH0 View 3D Structure Click here
Q8N0V5 View 3D Structure Click here
Q8S1J1 View 3D Structure Click here
Q8S8P3 View 3D Structure Click here
Q8W460 View 3D Structure Click here
Q8W4D1 View 3D Structure Click here
Q8W4E9 View 3D Structure Click here
Q93643 View 3D Structure Click here
Q965Q8 View 3D Structure Click here
Q9ARU3 View 3D Structure Click here
Q9C581 View 3D Structure Click here
Q9C581 View 3D Structure Click here
Q9C9A1 View 3D Structure Click here
Q9C9T1 View 3D Structure Click here
Q9EPI0 View 3D Structure Click here
Q9EPI1 View 3D Structure Click here
Q9EPL0 View 3D Structure Click here
Q9FLD7 View 3D Structure Click here
Q9H1B5 View 3D Structure Click here
Q9LE60 View 3D Structure Click here
Q9LFQ0 View 3D Structure Click here
Q9LIQ3 View 3D Structure Click here
Q9LYF7 View 3D Structure Click here
Q9M9C3 View 3D Structure Click here
Q9M9C4 View 3D Structure Click here
Q9P109 View 3D Structure Click here
Q9SS69 View 3D Structure Click here
Q9SUZ8 View 3D Structure Click here
Q9SVZ8 View 3D Structure Click here
Q9SY70 View 3D Structure Click here
Q9U3H9 View 3D Structure Click here
Q9XXL2 View 3D Structure Click here
Q9ZQZ7 View 3D Structure Click here
X1WEW3 View 3D Structure Click here