Please note: this site relies heavily on the use of javascript. Without a javascript-enabled browser, this site will not function correctly. Please enable javascript and reload the page, or switch to a different browser.
0  structures 34  species 0  interactions 2709  sequences 118  architectures

Family: 7TM_GPCR_Str (PF10326)

Summary: Serpentine type 7TM GPCR chemoreceptor Str

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.

Serpentine type 7TM GPCR chemoreceptor Str Provide feedback

Chemoreception is mediated in Caenorhabditis elegans by members of the seven-transmembrane G-protein-coupled receptor class (7TM GPCRs) of proteins which are of the serpentine type [1]. Str is a member of the Str superfamily of chemoreceptors. Almost a quarter (22.5%) of str and srj family genes and pseudogenes in C. elegans appear to have been newly formed by gene duplications since the species split [2]. Chemoperception is one of the central senses of soil nematodes like C. elegans which are otherwise 'blind' and 'deaf' [3].

Literature references

  1. Troemel ER, Chou JH, Dwyer ND, Colbert HA, Bargmann CI; , Cell 1995;83:207-218.: Divergent seven transmembrane receptors are candidate chemosensory receptors in C. elegans. PUBMED:7585938 EPMC:7585938

  2. Robertson HM; , Chem Senses. 2001;26:151-159.: Updating the str and srj (stl) families of chemoreceptors in Caenorhabditis nematodes reveals frequent gene movement within and between chromosomes. PUBMED:11238245 EPMC:11238245

  3. Robertson HM, Thomas JH; , WormBook. 2006; [Epub ahead of print]: The putative chemoreceptor families of C. elegans. PUBMED:18050473 EPMC:18050473


Internal database links

This tab holds annotation information from the InterPro database.

InterPro entry IPR019428

The nematode Caenorhabditis elegans has only 14 types of chemosensory neuron, yet is able to sense and respond to several hundred different chemicals because each neuron detects several stimuli [ PUBMED:10580986 ]. Chemoperception is one of the central senses of soil nematodes like C. elegans which are otherwise 'blind' and 'deaf' [ PUBMED:18050473 ]. Chemoreception in C. elegans is mediated by members of the seven-transmembrane G-protein-coupled receptor class (7TM GPCRs). More than 1300 potential chemoreceptor genes have been identified in C. elegans, which are generally prefixed sr for serpentine receptor. The receptor superfamilies include Sra (Sra, Srb, Srab, Sre), Str (Srh, Str, Sri, Srd, Srj, Srm, Srn) and Srg (Srx, Srt, Srg, Sru, Srv, Srxa), as well as the families Srw, Srz, Srbc, Srsx and Srr [ PUBMED:7585938 , PUBMED:18050473 , PUBMED:15618405 ]. Many of these proteins have homologues in Caenorhabditis briggsae.

G protein-coupled receptors (GPCRs) constitute a vast protein family that encompasses a wide range of functions, including various autocrine, paracrine and endocrine processes. They show considerable diversity at the sequence level, on the basis of which they can be separated into distinct groups [ PUBMED:12679517 ]. The term clan can be used to describe the GPCRs, as they embrace a group of families for which there are indications of evolutionary relationship, but between which there is no statistically significant similarity in sequence [ PUBMED:8170923 ]. The currently known clan members include rhodopsin-like GPCRs (Class A, GPCRA), secretin-like GPCRs (Class B, GPCRB), metabotropic glutamate receptor family (Class C, GPCRC), fungal mating pheromone receptors (Class D, GPCRD), cAMP receptors (Class E, GPCRE) and frizzled/smoothened (Class F, GPCRF) [ PUBMED:8170923 , PUBMED:8081729 , PUBMED:15914470 , PUBMED:18948278 , PUBMED:16753280 ]. GPCRs are major drug targets, and are consequently the subject of considerable research interest. It has been reported that the repertoire of GPCRs for endogenous ligands consists of approximately 400 receptors in humans and mice [ PUBMED:12679517 ]. Most GPCRs are identified on the basis of their DNA sequences, rather than the ligand they bind, those that are unmatched to known natural ligands are designated by as orphan GPCRs, or unclassified GPCRs [ PUBMED:23020293 ].

This entry represents serpentine receptor class r (Str) from the Str superfamily [ PUBMED:18050473 , PUBMED:9582190 ]. Almost a quarter (22.5%) of str and srj family genes and pseudogenes in C. elegans appear to have been newly formed by gene duplications since the species split [ PUBMED:11238245 ].

Domain organisation

Below is a listing of the unique domain organisations or architectures in which this domain is found. More...

Loading domain graphics...

Pfam Clan

This family is a member of clan GPCR_A (CL0192), which has the following description:

This clan contains various seven-transmembrane receptors and related proteins. A major member is Pfam:PF00001, members of which have been considered to be typical members of the rhodopsin superfamily. Many members of this clan are Caenorhabditis proteins, suggesting great expansion of the relevant families in these nematode worms.

The clan contains the following 45 members:

7TM-7TMR_HD 7tm_1 7tm_2 7tm_3 7tm_4 7TM_GPCR_Sra 7TM_GPCR_Srab 7TM_GPCR_Srb 7TM_GPCR_Srbc 7TM_GPCR_Srd 7TM_GPCR_Srh 7TM_GPCR_Sri 7TM_GPCR_Srj 7TM_GPCR_Srsx 7TM_GPCR_Srt 7TM_GPCR_Sru 7TM_GPCR_Srv 7TM_GPCR_Srw 7TM_GPCR_Srx 7TM_GPCR_Srz 7TM_GPCR_Str 7TMR-DISM_7TM Bac_rhodopsin Ceramidase Dicty_CAR DUF1182 DUF3522 DUF621 Frizzled Git3 GpcrRhopsn4 GPR_Gpa2_C Heliorhodopsin HisKA_7TM HlyIII Lung_7-TM_R Ocular_alb Per1 Pombe_5TM Serpentine_r_xa SID-1_RNA_chan Sre Srg TAS2R V1R

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
(160)
Full
(2709)
Representative proteomes UniProt
(4985)
RP15
(1038)
RP35
(1228)
RP55
(2683)
RP75
(2709)
Jalview View  View  View  View  View  View  View 
HTML View  View           
PP/heatmap 1 View           

1Cannot generate PP/Heatmap alignments for seeds; no PP data available

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

Format an alignment

  Seed
(160)
Full
(2709)
Representative proteomes UniProt
(4985)
RP15
(1038)
RP35
(1228)
RP55
(2683)
RP75
(2709)
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
(160)
Full
(2709)
Representative proteomes UniProt
(4985)
RP15
(1038)
RP35
(1228)
RP55
(2683)
RP75
(2709)
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: Thomas JH, Robertson H
Previous IDs: Str;
Type: Family
Sequence Ontology: SO:0100021
Author: Thomas JH , Robertson H, Bateman A
Number in seed: 160
Number in full: 2709
Average length of the domain: 211.60 aa
Average identity of full alignment: 18 %
Average coverage of the sequence by the domain: 74.53 %

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 22.0 22.0
Trusted cut-off 22.0 22.0
Noise cut-off 21.9 21.9
Model length: 307
Family (HMM) version: 11
Download: download the raw HMM for this family

Species distribution

Sunburst controls

Hide

Weight segments by...


Change the size of the sunburst

Small
Large

Colour assignments

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

Selections

Align selected sequences to HMM

Generate a FASTA-format file

Clear selection

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...

Loading sunburst data...

Tree controls

Hide

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

Loading...

Please note: for large trees this can take some time. While the tree is loading, you can safely switch away from this tab but if you browse away from the family page entirely, the tree will not be loaded.

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
A0A0K3AS76 View 3D Structure Click here
A0A0K3ASB3 View 3D Structure Click here
A0A0K3AVG3 View 3D Structure Click here
A0A0K3AYD9 View 3D Structure Click here
A0A131MBU5 View 3D Structure Click here
A0A131MCW1 View 3D Structure Click here
A0A164D3H4 View 3D Structure Click here
A0A3Q0PQY8 View 3D Structure Click here
E4MVC7 View 3D Structure Click here
G4SBH9 View 3D Structure Click here
G5EBN8 View 3D Structure Click here
G5EC51 View 3D Structure Click here
G5ECI0 View 3D Structure Click here
G5ECX6 View 3D Structure Click here
G5EE51 View 3D Structure Click here
G5EEU9 View 3D Structure Click here
G5EF54 View 3D Structure Click here
G5EGE5 View 3D Structure Click here
H2L036 View 3D Structure Click here
O01535 View 3D Structure Click here
O01536 View 3D Structure Click here
O01611 View 3D Structure Click here
O02132 View 3D Structure Click here
O16323 View 3D Structure Click here
O16324 View 3D Structure Click here
O16325 View 3D Structure Click here
O16326 View 3D Structure Click here
O16328 View 3D Structure Click here
O16329 View 3D Structure Click here
O16330 View 3D Structure Click here
O16332 View 3D Structure Click here
O16336 View 3D Structure Click here
O16396 View 3D Structure Click here
O16434 View 3D Structure Click here
O16439 View 3D Structure Click here
O16473 View 3D Structure Click here
O16655 View 3D Structure Click here
O16674 View 3D Structure Click here
O16755 View 3D Structure Click here
O16899 View 3D Structure Click here
O16913 View 3D Structure Click here
O16921 View 3D Structure Click here
O16931 View 3D Structure Click here
O16932 View 3D Structure Click here
O16935 View 3D Structure Click here
O17230 View 3D Structure Click here
O17358 View 3D Structure Click here
O17361 View 3D Structure Click here
O17571 View 3D Structure Click here
O17664 View 3D Structure Click here
O17691 View 3D Structure Click here
O17711 View 3D Structure Click here
O17716 View 3D Structure Click here
O17717 View 3D Structure Click here
O17831 View 3D Structure Click here
O17841 View 3D Structure Click here
O17872 View 3D Structure Click here
O17896 View 3D Structure Click here
O17925 View 3D Structure Click here
O17973 View 3D Structure Click here
O17996 View 3D Structure Click here
O18011 View 3D Structure Click here
O18027 View 3D Structure Click here
O18040 View 3D Structure Click here
O18041 View 3D Structure Click here
O18042 View 3D Structure Click here
O18046 View 3D Structure Click here
O18069 View 3D Structure Click here
O18070 View 3D Structure Click here
O18078 View 3D Structure Click here
O18080 View 3D Structure Click here
O18083 View 3D Structure Click here
O18114 View 3D Structure Click here
O18115 View 3D Structure Click here
O18121 View 3D Structure Click here
O44455 View 3D Structure Click here
O44528 View 3D Structure Click here
O44532 View 3D Structure Click here
O44533 View 3D Structure Click here
O44544 View 3D Structure Click here
O44654 View 3D Structure Click here
O44660 View 3D Structure Click here
O44661 View 3D Structure Click here
O44691 View 3D Structure Click here
O44699 View 3D Structure Click here
O45161 View 3D Structure Click here
O45284 View 3D Structure Click here
O45337 View 3D Structure Click here
O45338 View 3D Structure Click here
O45339 View 3D Structure Click here
O45340 View 3D Structure Click here
O45343 View 3D Structure Click here
O45344 View 3D Structure Click here
O45710 View 3D Structure Click here
O45735 View 3D Structure Click here
O45737 View 3D Structure Click here
O45801 View 3D Structure Click here
O45802 View 3D Structure Click here
O45803 View 3D Structure Click here
O45805 View 3D Structure Click here
O45806 View 3D Structure Click here
O45807 View 3D Structure Click here
O45808 View 3D Structure Click here
O45809 View 3D Structure Click here
O45893 View 3D Structure Click here
O45971 View 3D Structure Click here
O45972 View 3D Structure Click here
O45981 View 3D Structure Click here
O45982 View 3D Structure Click here
O61888 View 3D Structure Click here
O61905 View 3D Structure Click here
O61937 View 3D Structure Click here
O61981 View 3D Structure Click here
O61982 View 3D Structure Click here
O61983 View 3D Structure Click here
O62017 View 3D Structure Click here
O62028 View 3D Structure Click here
O62029 View 3D Structure Click here
O62030 View 3D Structure Click here
O62060 View 3D Structure Click here
O62148 View 3D Structure Click here
O62184 View 3D Structure Click here
O62240 View 3D Structure Click here
O62279 View 3D Structure Click here
O62280 View 3D Structure Click here
O62506 View 3D Structure Click here
O76436 View 3D Structure Click here
O76437 View 3D Structure Click here
O76658 View 3D Structure Click here
P91070 View 3D Structure Click here
P91217 View 3D Structure Click here
P91524 View 3D Structure Click here
P91860 View 3D Structure Click here
P91984 View 3D Structure Click here
Q17700 View 3D Structure Click here
Q17709 View 3D Structure Click here
Q17943 View 3D Structure Click here
Q18441 View 3D Structure Click here
Q18568 View 3D Structure Click here
Q18570 View 3D Structure Click here
Q18571 View 3D Structure Click here
Q18732 View 3D Structure Click here
Q18807 View 3D Structure Click here
Q19145 View 3D Structure Click here
Q20235 View 3D Structure Click here
Q20522 View 3D Structure Click here
Q20547 View 3D Structure Click here
Q20914 View 3D Structure Click here
Q21008 View 3D Structure Click here
Q21838 View 3D Structure Click here
Q21936 View 3D Structure Click here
Q21937 View 3D Structure Click here
Q22521 View 3D Structure Click here
Q22547 View 3D Structure Click here
Q23059 View 3D Structure Click here
Q23060 View 3D Structure Click here
Q58A99 View 3D Structure Click here
Q7YTJ5 View 3D Structure Click here
Q86D26 View 3D Structure Click here
Q86DA3 View 3D Structure Click here
Q93797 View 3D Structure Click here
Q965G3 View 3D Structure Click here
Q965K9 View 3D Structure Click here
Q966B3 View 3D Structure Click here
Q966B4 View 3D Structure Click here
Q966E9 View 3D Structure Click here
Q966G3 View 3D Structure Click here
Q9GS08 View 3D Structure Click here
Q9GS09 View 3D Structure Click here
Q9GS10 View 3D Structure Click here
Q9GS11 View 3D Structure Click here
Q9GS14 View 3D Structure Click here
Q9GS14 View 3D Structure Click here
Q9GUD0 View 3D Structure Click here
Q9GUD1 View 3D Structure Click here
Q9GUE1 View 3D Structure Click here
Q9GUE2 View 3D Structure Click here
Q9GUE3 View 3D Structure Click here
Q9GUE4 View 3D Structure Click here
Q9GUE5 View 3D Structure Click here
Q9GUE6 View 3D Structure Click here
Q9N2S6 View 3D Structure Click here
Q9N2S7 View 3D Structure Click here
Q9N2S8 View 3D Structure Click here
Q9N2S9 View 3D Structure Click here
Q9N2T0 View 3D Structure Click here
Q9N2T2 View 3D Structure Click here
Q9N2T4 View 3D Structure Click here
Q9N2T5 View 3D Structure Click here
Q9N2T6 View 3D Structure Click here
Q9N480 View 3D Structure Click here
Q9N481 View 3D Structure Click here
Q9N482 View 3D Structure Click here
Q9N483 View 3D Structure Click here
Q9N4Y5 View 3D Structure Click here
Q9TXM5 View 3D Structure Click here
Q9TXS6 View 3D Structure Click here
Q9TXW2 View 3D Structure Click here
Q9TXW3 View 3D Structure Click here
Q9U2N0 View 3D Structure Click here
Q9U2T7 View 3D Structure Click here
Q9UAU2 View 3D Structure Click here
Q9UAU7 View 3D Structure Click here
Q9UAU8 View 3D Structure Click here
Q9UAX4 View 3D Structure Click here
Q9XU38 View 3D Structure Click here
Q9XUJ3 View 3D Structure Click here
Q9XUJ6 View 3D Structure Click here
Q9XUN2 View 3D Structure Click here
Q9XUR8 View 3D Structure Click here
Q9XUR8 View 3D Structure Click here
Q9XV82 View 3D Structure Click here
Q9XVU0 View 3D Structure Click here
Q9XWA2 View 3D Structure Click here
Q9XX33 View 3D Structure Click here
Q9XX85 View 3D Structure Click here
Q9XXP8 View 3D Structure Click here
V5Z1T3 View 3D Structure Click here
V5Z1T3 View 3D Structure Click here

trRosetta Structure

The structural model below was generated by the Baker group with the trRosetta software using the Pfam UniProt multiple sequence alignment.

The InterPro website shows the contact map for the Pfam SEED alignment. Hovering or clicking on a contact position will highlight its connection to other residues in the alignment, as well as on the 3D structure.

Improved protein structure prediction using predicted inter-residue orientations. Jianyi Yang, Ivan Anishchenko, Hahnbeom Park, Zhenling Peng, Sergey Ovchinnikov, David Baker Proceedings of the National Academy of Sciences Jan 2020, 117 (3) 1496-1503; DOI: 10.1073/pnas.1914677117;