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6  structures 1459  species 0  interactions 5561  sequences 74  architectures

Family: Serinc (PF03348)

Summary: Serine incorporator (Serinc)

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.

Serine incorporator (Serinc) Provide feedback

This is a family of eukaryotic membrane proteins which incorporate serine into membranes and facilitate the synthesis of the serine-derived lipids phosphatidylserine and sphingolipid [3]. Members of this family contain 11 transmembrane domains and form intracellular complexes with key enzymes involved in serine and sphingolipid biosynthesis [3].

Literature references

  1. Bossolasco M, Lebel M, Lemieux N, Mes-Masson AM; , Mol Carcinog 1999;26:189-200.: The human TDE gene homologue: localization to 20q13.1-13.3 and variable expression in human tumor cell lines and tissue. PUBMED:10559794 EPMC:10559794

  2. Grossman TR, Luque JM, Nelson N; , J Exp Biol 2000;203:447-457.: Identification of a ubiquitous family of membrane proteins and their expression in mouse brain. PUBMED:10637174 EPMC:10637174

  3. Inuzuka M, Hayakawa M, Ingi T; , J Biol Chem. 2005;280:35776-35783.: Serinc, an activity-regulated protein family, incorporates serine into membrane lipid synthesis. PUBMED:16120614 EPMC:16120614


This tab holds annotation information from the InterPro database.

InterPro entry IPR005016

The serine incorporator/TMS membrane protein (TDE1/TMS) family include SERINC1-5 from mammals and membrane protein Tms1 from budding yeasts. Members in this family contain eleven transmembrane helices.

SERINC1-5 function in incorporating serine into membranes and facilitating the synthesis of two serine-derived lipids, phosphatidylserine and sphingolipids [ PUBMED:16120614 ]. Serinc3 (also known as TDE1) is overexpressed in tumours [ PUBMED:16547497 ].

The function of Tms1 is not clear.

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...

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
(5561)
Representative proteomes UniProt
(9102)
RP15
(966)
RP35
(2415)
RP55
(4390)
RP75
(5778)
Jalview View  View  View  View  View  View  View 
HTML View             
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
(5561)
Representative proteomes UniProt
(9102)
RP15
(966)
RP35
(2415)
RP55
(4390)
RP75
(5778)
Alignment:
Format:
Order:
Sequence:
Gaps:
Download/view:

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
(151)
Full
(5561)
Representative proteomes UniProt
(9102)
RP15
(966)
RP35
(2415)
RP55
(4390)
RP75
(5778)
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_3473 (release 6.5)
Previous IDs: TMS_TDE;
Type: Family
Sequence Ontology: SO:0100021
Author: Mifsud W , Mistry J
Number in seed: 151
Number in full: 5561
Average length of the domain: 330.5 aa
Average identity of full alignment: 29 %
Average coverage of the sequence by the domain: 90.76 %

HMM information View help on HMM parameters

HMM build commands:
build method: hmmbuild -o /dev/null HMM SEED
search method: hmmsearch -Z 61295632 -E 1000 --cpu 4 HMM pfamseq
Model details:
Parameter Sequence Domain
Gathering cut-off 24.0 24.0
Trusted cut-off 24.1 24.1
Noise cut-off 23.9 23.9
Model length: 435
Family (HMM) version: 18
Download: download the raw HMM for this family

Species distribution

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Colour assignments

Archea Archea Eukaryota Eukaryota
Bacteria Bacteria Other sequences Other sequences
Viruses Viruses Unclassified Unclassified
Viroids Viroids Unclassified sequence Unclassified sequence

Selections

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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...

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The tree shows the occurrence of this domain across different species. More...

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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 Serinc domain has been found. There are 6 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
A0A077ZBL9 View 3D Structure Click here
A0A0D2HFB6 View 3D Structure Click here
A0A0H5SAM8 View 3D Structure Click here
A0A0K0EHS9 View 3D Structure Click here
A0A0N4UCU0 View 3D Structure Click here
A0A150ASB6 View 3D Structure Click here
A0A158N8M2 View 3D Structure Click here
A0A1C1CCE8 View 3D Structure Click here
A0A1D6FFD5 View 3D Structure Click here
A0A1D6FFD8 View 3D Structure Click here
A0A1D6LS53 View 3D Structure Click here
A0A1D6LS56 View 3D Structure Click here
A0A1D6LS57 View 3D Structure Click here
A0A1D6LS64 View 3D Structure Click here
A0A1D6LS65 View 3D Structure Click here
A0A1D6MJB7 View 3D Structure Click here
A0A1D6QNJ5 View 3D Structure Click here
A0A1D8PFF6 View 3D Structure Click here
A0A1P8B1A7 View 3D Structure Click here
A0A1P8B544 View 3D Structure Click here
A0A3P7DQ05 View 3D Structure Click here
A0A5K4F313 View 3D Structure Click here
A4FUZ5 View 3D Structure Click here
A4I3H6 View 3D Structure Click here
A6NH21 View 3D Structure Click here
A7S4N4 View 3D Structure Click here
A8WCG0 View 3D Structure Click here
A9UY97 View 3D Structure Click here
B4F9D1 View 3D Structure Click here
B4FAN1 View 3D Structure Click here
B4FZL8 View 3D Structure Click here
C0NSM0 View 3D Structure Click here
C1GQ11 View 3D Structure Click here
C6T7Z4 View 3D Structure Click here
E7F5D2 View 3D Structure Click here
E7F758 View 3D Structure Click here
E9QIY8 View 3D Structure Click here
G4M0S3 View 3D Structure Click here
I1KIT1 View 3D Structure Click here
I1KZ87 View 3D Structure Click here