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0  structures 296  species 0  interactions 1414  sequences 18  architectures

Family: Cast (PF10174)

Summary: RIM-binding protein of the cytomatrix active zone

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RIM-binding protein of the cytomatrix active zone Provide feedback

This is a family of proteins that form part of the CAZ (cytomatrix at the active zone) complex which is involved in determining the site of synaptic vesicle fusion [1]. The C-terminus is a PDZ-binding motif that binds directly to RIM (a small G protein Rab-3A effector). The family also contains four coiled-coil domains [2].

Literature references

  1. Deguchi-Tawarada M, Inoue E, Takao-Rikitsu E, Inoue M, Ohtsuka T, Takai Y; , Genes Cells. 2004;9:15-23.: CAST2: identification and characterization of a protein structurally related to the presynaptic cytomatrix protein CAST. PUBMED:14723704 EPMC:14723704

  2. Wang Y, Liu X, Biederer T, Sudhof TC; , Proc Natl Acad Sci U S A. 2002;99:14464-14469.: A family of RIM-binding proteins regulated by alternative splicing: Implications for the genesis of synaptic active zones. PUBMED:12391317 EPMC:12391317


Internal database links

This tab holds annotation information from the InterPro database.

InterPro entry IPR019323

The active zone is the presynaptic region in the nerve terminals that mediates neurotransmitter release and is composed a dense collection of proteins called the cytomatrix at the active zone (CAZ). The CAZ proteins are thought to mediate synapse formation and regulate neurotransmitter release [PUBMED:22933801, PUBMED:24348337].

This entry represents the ELKS family, which are thought to be involved in the organisation of CAZ. Vertebrate ELKS proteins are produced by two genes, ERC1 and ERC2. Caenorhabditis elegans expresses a homologue of ELKS that acts downstream of syd2/liprin-alpha during active zone assembly [PUBMED:17115037]. Drosophila melanogaster expresses a related protein termed bruchpilot (brp) that consists of a conserved N terminus and a C-terminal half with no homologous sequences in vertebrates. Brp is required for structural integrity and function of synaptic active zones [PUBMED:16543132]. Vertebrate ELKS proteins are enriched at presynaptic active zones [PUBMED:16543132] and support Ca2+ influx at nerve terminals of inhibitory hippocampal neurons [PUBMED:25209271]. They have a C-terminal PDZ-binding motif that binds directly to RIM (a small G protein Rab-3A effector). These proteins also contain four coiled-coil domains [PUBMED:12391317].

Gene Ontology

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Domain organisation

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Alignments

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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
(13)
Full
(1414)
Representative proteomes UniProt
(2359)
NCBI
(6342)
Meta
(0)
RP15
(249)
RP35
(517)
RP55
(801)
RP75
(924)
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1Cannot generate PP/Heatmap alignments for seeds; no PP data available

Key: ✓ available, x not generated, not available.

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  Seed
(13)
Full
(1414)
Representative proteomes UniProt
(2359)
NCBI
(6342)
Meta
(0)
RP15
(249)
RP35
(517)
RP55
(801)
RP75
(924)
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
(13)
Full
(1414)
Representative proteomes UniProt
(2359)
NCBI
(6342)
Meta
(0)
RP15
(249)
RP35
(517)
RP55
(801)
RP75
(924)
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.

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: KOGs (KOG4809)
Previous IDs: none
Type: Family
Sequence Ontology: SO:0100021
Author: KOGs, Finn RD , Coggill P
Number in seed: 13
Number in full: 1414
Average length of the domain: 334.90 aa
Average identity of full alignment: 29 %
Average coverage of the sequence by the domain: 58.42 %

HMM information View help on HMM parameters

HMM build commands:
build method: hmmbuild -o /dev/null HMM SEED
search method: hmmsearch -Z 45638612 -E 1000 --cpu 4 HMM pfamseq
Model details:
Parameter Sequence Domain
Gathering cut-off 27.3 27.3
Trusted cut-off 27.3 27.3
Noise cut-off 27.2 27.2
Model length: 763
Family (HMM) version: 9
Download: download the raw HMM for this family

Species distribution

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