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666  structures 1583  species 0  interactions 48000  sequences 1308  architectures

Family: SPRY (PF00622)

Summary: SPRY domain

Pfam includes annotations and additional family information from a range of different sources. These sources can be accessed via the tabs below.

This is the Wikipedia entry entitled "Spla/ryanodine receptor domain and socs box containing 3". More...

Spla/ryanodine receptor domain and socs box containing 3 Edit Wikipedia article

SPRY domain
Identifiers
Symbol SPRY
Pfam PF00622
InterPro IPR003877
SPSB3
Identifiers
Aliases SPSB3, C16orf31, SSB3, Spla/ryanodine receptor domain and socs box containing 3
External IDs MGI: 1891471 HomoloGene: 12322 GeneCards: SPSB3
Gene location (Human)
Chromosome 16 (human)
Chr. Chromosome 16 (human)[1]
Chromosome 16 (human)
Genomic location for SPSB3
Genomic location for SPSB3
Band 16p13.3 Start 1,776,712 bp[1]
End 1,793,700 bp[1]
Orthologs
Species Human Mouse
Entrez
Ensembl
UniProt
RefSeq (mRNA)

NM_080861
NM_001324081

NM_001163750
NM_001163751
NM_027141

RefSeq (protein)

NP_001311010
NP_543137

NP_001157222
NP_001157223
NP_081417

Location (UCSC) Chr 16: 1.78 – 1.79 Mb Chr 16: 24.89 – 24.89 Mb
PubMed search [3] [4]
Wikidata
View/Edit Human View/Edit Mouse

SplA/ryanodine receptor domain and SOCS box containing 3 is a protein that in humans is encoded by the SPSB3 gene.[5]

References

External links

Further reading

This page is based on a Wikipedia article. The text is available under the Creative Commons Attribution/Share-Alike License.

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.

SPRY domain Provide feedback

SPRY Domain is named from SPla and the RYanodine Receptor and it is found in many eukaryotic proteins with a wide range of functions. It is a protein-interaction module involved in many important signalling pathways like RNA processing, regulation of histone H3 methylation, innate immunity or embryonic development [1,2,3,4]. It can be divided into 11 subfamilies based on amino acid sequence similarity or the presence of additional protein domains. The greater SPRY family is divided into the SPRY/B30.2 (which contains a PRY extension at the N-terminal) and SPRY-only sub-families which are preceded by a subdomain that is structurally similar to the PRY region [2]. SPRY/B30.2 structures revealed a bent beta-sandwich fold comprised of two beta-sheets. Distant homologues are domains in butyrophilin/ marenostrin/pyrin [1].

Literature references

  1. Ponting C, Schultz J, Bork P; , Trends Biochem Sci 1997;22:193-194.: SPRY domains in ryanodine receptors (Ca(2+)-release channels). PUBMED:9204703 EPMC:9204703

  2. Woo JS, Suh HY, Park SY, Oh BH;, Mol Cell. 2006;24:967-976.: Structural basis for protein recognition by B30.2/SPRY domains. PUBMED:17189197 EPMC:17189197

  3. D'Cruz AA, Babon JJ, Norton RS, Nicola NA, Nicholson SE;, Protein Sci. 2013;22:1-10.: Structure and function of the SPRY/B30.2 domain proteins involved in innate immunity. PUBMED:23139046 EPMC:23139046

  4. Diaz-Granados A, Petrescu AJ, Goverse A, Smant G;, Front Plant Sci. 2016;7:1575.: SPRYSEC Effectors: A Versatile Protein-Binding Platform to Disrupt Plant Innate Immunity. PUBMED:27812363 EPMC:27812363


Internal database links

External database links

This tab holds annotation information from the InterPro database.

InterPro entry IPR003877

The SPRY domain is named from SPla and the RYanodine Receptor and it is found in many eukaryotic proteins with a wide range of functions. It is a protein interaction module involved in many important signaling pathways like RNA processing, regulation of histone H3 methylation, innate immunity or embryonic development [ PUBMED:17189197 , PUBMED:23139046 , PUBMED:27812363 ]. It can be divided into 11 subfamilies based on amino acid sequence similarity or the presence of additional protein domains. The greater SPRY family is divided into the SPRY/B30.2 (which contains a PRY extension at the N-terminal) and SPRY-only sub-families which are preceded by a subdomain that is structurally similar to the PRY region [ PUBMED:23139046 ]. SPRY/B30.2 structures revealed a bent beta-sandwich fold comprised of two beta-sheets. The PRY domain consists of three beta-strands tightly packed against ten other beta-strands which form the SPRY component of the B30.2 domain. The beta-strands are linked by loops and form two anti-parallel beta-sheets [ PUBMED:23139046 ]. Distant homologues are domains in butyrophilin/marenostrin/pyrin [ PUBMED:9204703 ].

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
(47)
Full
(48000)
Representative proteomes UniProt
(73876)
RP15
(5566)
RP35
(14549)
RP55
(35249)
RP75
(48544)
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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
(47)
Full
(48000)
Representative proteomes UniProt
(73876)
RP15
(5566)
RP35
(14549)
RP55
(35249)
RP75
(48544)
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
(47)
Full
(48000)
Representative proteomes UniProt
(73876)
RP15
(5566)
RP35
(14549)
RP55
(35249)
RP75
(48544)
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: Alignment kindly provided by SMART
Previous IDs: none
Type: Family
Sequence Ontology: SO:0100021
Author: SMART
Number in seed: 47
Number in full: 48000
Average length of the domain: 119.00 aa
Average identity of full alignment: 19 %
Average coverage of the sequence by the domain: 15.40 %

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 26.3 21.9
Trusted cut-off 26.3 21.9
Noise cut-off 26.2 21.8
Model length: 120
Family (HMM) version: 31
Download: download the raw HMM for this family

Species distribution

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Archea Archea Eukaryota Eukaryota
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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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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 SPRY domain has been found. There are 666 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
A0A0A0MPM8 View 3D Structure Click here
A0A0A0MPR3 View 3D Structure Click here
A0A0A0MPV2 View 3D Structure Click here
A0A0G2JT90 View 3D Structure Click here
A0A0G2JWJ3 View 3D Structure Click here
A0A0G2JYE1 View 3D Structure Click here
A0A0G2JZ60 View 3D Structure Click here
A0A0G2K1G4 View 3D Structure Click here
A0A0G2K6C7 View 3D Structure Click here
A0A0G2KRG9 View 3D Structure Click here
A0A0G2L0E2 View 3D Structure Click here
A0A0G2L417 View 3D Structure Click here
A0A0G2L4U3 View 3D Structure Click here
A0A0G2L7V8 View 3D Structure Click here
A0A0G2LAJ1 View 3D Structure Click here
A0A0H2UKH6 View 3D Structure Click here
A0A0N4SU11 View 3D Structure Click here
A0A0P0XYP4 View 3D Structure Click here
A0A0R0HKU4 View 3D Structure Click here
A0A0R4I9L8 View 3D Structure Click here
A0A0R4I9Q7 View 3D Structure Click here
A0A0R4IA89 View 3D Structure Click here
A0A0R4IAK4 View 3D Structure Click here
A0A0R4IAM8 View 3D Structure Click here
A0A0R4IAU1 View 3D Structure Click here
A0A0R4IAU9 View 3D Structure Click here
A0A0R4IB01 View 3D Structure Click here
A0A0R4IBH9 View 3D Structure Click here
A0A0R4IBP6 View 3D Structure Click here
A0A0R4ICX6 View 3D Structure Click here
A0A0R4ID00 View 3D Structure Click here
A0A0R4IDB9 View 3D Structure Click here
A0A0R4IDC0 View 3D Structure Click here
A0A0R4IDF1 View 3D Structure Click here
A0A0R4IDG6 View 3D Structure Click here
A0A0R4IDL5 View 3D Structure Click here
A0A0R4IDW8 View 3D Structure Click here
A0A0R4IDY8 View 3D Structure Click here
A0A0R4IE13 View 3D Structure Click here
A0A0R4IE23 View 3D Structure Click here