Summary: Scavenger receptor cysteine-rich domain
This is the Wikipedia entry entitled "Scavenger receptor cysteine-rich protein domain". More...
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Scavenger receptor cysteine-rich protein domain Edit Wikipedia article
structure of m2bp scavenger receptor cysteine-rich domain
In molecular biology, the protein domain SRCR is short for Scavenger receptor cysteine-rich domain. They are found solely in eukaryotes. These domains are present on the cell membrane and have a role in binding to specific ligands and are often found to be involved with the immune system.
The speract receptor found in egg, is a transmembrane glycoprotein. Other members of this family include the macrophage scavenger receptor type I (a membrane glycoprotein implicated in the pathologic deposition of cholesterol in arterial walls during artherogenesis), an enteropeptidase and T-cell surface glycoprotein CD5 (may act as a receptor in regulating T-cell proliferation).
- Hohenester E, Sasaki T, Timpl R (1999). "Crystal structure of a scavenger receptor cysteine-rich domain sheds light on an ancient superfamily.". Nat Struct Biol 6 (3): 228–32. doi:10.1038/6669. PMID 10074941.
- Liu L, Yang J, Qiu L, Wang L, Zhang H, Wang M et al. (2011). "A novel scavenger receptor-cysteine-rich (SRCR) domain containing scavenger receptor identified from mollusk mediated PAMP recognition and binding.". Dev Comp Immunol 35 (2): 227–39. doi:10.1016/j.dci.2010.09.010. PMID 20888856.
- Resnick D, Pearson A, Krieger M (January 1994). "The SRCR superfamily: a family reminiscent of the Ig superfamily". Trends Biochem. Sci. 19 (1): 5–8. doi:10.1016/0968-0004(94)90165-1. PMID 8140623.
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These domains are disulphide rich extracellular domains. These domains are found in several extracellular receptors and may be involved in protein-protein interactions.
Internal database links
|Similarity to PfamA using HHSearch:||SRCR_2|
External database links
This tab holds annotation information from the InterPro database.
InterPro entry IPR001190
The egg peptide speract receptor is a transmembrane glycoprotein [PUBMED:8140623]. Other members of this family include the macrophage scavenger receptor type I (a membrane glycoprotein implicated in the pathologic deposition of cholesterol in arterial walls during artherogenesis), an enteropeptidase and T-cell surface glycoprotein CD5 (may act as a receptor in regulating T-cell proliferation).
The mapping between Pfam and Gene Ontology is provided by InterPro. If you use this data please cite InterPro.
|Cellular component||membrane (GO:0016020)|
|Molecular function||scavenger receptor activity (GO:0005044)|
- the number of sequences which exhibit this architecture
a textual description of the architecture, e.g. Gla, EGF x 2, Trypsin.
This example describes an architecture with one
Gladomain, followed by two consecutive
EGFdomains, and finally a single
- the UniProt description of the protein sequence
- the number of residues in the sequence
- the Pfam graphic itself.
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We make a range of alignments for each Pfam-A family:
- the curated alignment from which the HMM for the family is built
- the alignment generated by searching the sequence database using the HMM
- Representative Proteomes (RPs) at 15%, 35%, 55% and 75% co-membership thresholds
- alignment generated by searching the NCBI sequence database using the family HMM
- alignment generated by searching the metagenomics sequence database using the family HMM
You can see the alignments as HTML or in three different sequence viewers:
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1Cannot generate PP/Heatmap alignments for seeds; no PP data available
Key: available, not generated, — not available.
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Note: You can also download the data file for the tree.
Curation and family details
|Seed source:||Reference |
|Number in seed:||136|
|Number in full:||8985|
|Average length of the domain:||96.30 aa|
|Average identity of full alignment:||35 %|
|Average coverage of the sequence by the domain:||47.20 %|
|HMM build commands:||
build method: hmmbuild -o /dev/null HMM SEED
search method: hmmsearch -Z 23193494 -E 1000 --cpu 4 HMM pfamseq
|Family (HMM) version:||13|
|Download:||download the raw HMM for this family|
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How the sunburst is generated
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The tree shows the occurrence of this domain across different species. More...
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There is 1 interaction for this family. More...
We determine these interactions using iPfam, which considers the interactions between residues in three-dimensional protein structures and maps those interactions back to Pfam families. You can find more information about the iPfam algorithm in the journal article that accompanies the website.
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 SRCR domain has been found. There are 13 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 seqence.
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