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0  structures 303  species 0  interactions 979  sequences 20  architectures

Family: COPIIcoated_ERV (PF07970)

Summary: Endoplasmic reticulum vesicle transporter

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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.

Endoplasmic reticulum vesicle transporter Provide feedback

This family is conserved from plants and fungi to humans. Erv46 works in close conjunction with Erv41 and together they form a complex which cycles between the endoplasmic reticulum and Golgi complex. Erv46-41 interacts strongly with the endoplasmic reticulum glucosidase II. Mammalian glucosidase II comprises a catalytic alpha-subunit and a 58 kDa beta subunit, which is required for ER localisation. All proteins identified biochemically as Erv41p-Erv46p interactors are localised to the early secretory pathway and are involved in protein maturation and processing in the ER and/or sorting into COPII vesicles for transport to the Golgi [3].

Literature references

  1. Breuza L, Halbeisen R, Jeno P, Otte S, Barlowe C, Hong W, Hauri HP; , J Biol Chem 2004; [Epub ahead of print]: Proteomics of ERGIC membranes from brefeldin A-treated HepG2 cells identifies ERGIC-32, a new cycling protein that interacts with human Erv46. PUBMED:15308636 EPMC:15308636

  2. Otte S, Belden WJ, Heidtman M, Liu J, Jensen ON, Barlowe C; , J Cell Biol. 2001;152:503-518.: Erv41p and Erv46p: new components of COPII vesicles involved in transport between the ER and Golgi complex. PUBMED:11157978 EPMC:11157978

  3. Welsh LM, Tong AH, Boone C, Jensen ON, Otte S; , J Cell Sci. 2006;119:4730-4740.: Genetic and molecular interactions of the Erv41p-Erv46p complex involved in transport between the endoplasmic reticulum and Golgi complex. PUBMED:17077122 EPMC:17077122


External database links

This tab holds annotation information from the InterPro database.

InterPro entry IPR012936

This domain occurs in many hypothetical proteins, and also two partially characterised proteins. One of these proteins, PTX1 SWISSPROT, is a homeodomain-containing transcription factor involved in regulating all pituitary hormone genes [PUBMED:10067870]. This protein is down regulated in prostate carcinoma [PUBMED:11445006]. The other protein, ERGIC-32 SWISSPROT, is involved in protein transport from the ER to the Golgi [PUBMED:15308636].

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
(51)
Full
(979)
Representative proteomes NCBI
(899)
Meta
(28)
RP15
(250)
RP35
(385)
RP55
(541)
RP75
(653)
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Key: ✓ available, x not generated, not available.

Format an alignment

  Seed
(51)
Full
(979)
Representative proteomes NCBI
(899)
Meta
(28)
RP15
(250)
RP35
(385)
RP55
(541)
RP75
(653)
Alignment:
Format:
Order:
Sequence:
Gaps:
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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
(51)
Full
(979)
Representative proteomes NCBI
(899)
Meta
(28)
RP15
(250)
RP35
(385)
RP55
(541)
RP75
(653)
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.

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_2028 (release 16.0)
Previous IDs: DUF1692; Erv41; Erv46;
Type: Family
Author: Mistry J, Wood V
Number in seed: 51
Number in full: 979
Average length of the domain: 187.70 aa
Average identity of full alignment: 29 %
Average coverage of the sequence by the domain: 53.30 %

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 21.9 21.9
Trusted cut-off 22.0 22.2
Noise cut-off 21.8 21.8
Model length: 222
Family (HMM) version: 7
Download: download the raw HMM for this family

Species distribution

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