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12  structures 24  species 1  interaction 32  sequences 2  architectures

Family: BCMA-Tall_bind (PF09257)

Summary: BCMA, TALL-1 binding

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This is the Wikipedia entry entitled "TNFRSF17". More...

TNFRSF17 Edit Wikipedia article

Tumor necrosis factor receptor superfamily, member 17
Protein TNFRSF17 PDB 1oqd.png
PDB rendering based on 1oqd.
Available structures
PDB Ortholog search: PDBe, RCSB
Identifiers
Symbols TNFRSF17 ; BCM; BCMA; CD269; TNFRSF13A
External IDs OMIM109545 MGI1343050 HomoloGene920 GeneCards: TNFRSF17 Gene
RNA expression pattern
PBB GE TNFRSF17 206641 at tn.png
More reference expression data
Orthologs
Species Human Mouse
Entrez 608 21935
Ensembl ENSG00000048462 ENSMUSG00000022496
UniProt Q02223 O88472
RefSeq (mRNA) NM_001192 NM_011608
RefSeq (protein) NP_001183 NP_035738
Location (UCSC) Chr 16:
12.06 – 12.06 Mb
Chr 16:
11.31 – 11.32 Mb
PubMed search [1] [2]
BCMA TALL-1 binding domain
PDB 1oqd EBI.jpg
crystal structure of stall-1 and bcma
Identifiers
Symbol BCMA-Tall_bind
Pfam PF09257
InterPro IPR015337
SCOP 1oqd
SUPERFAMILY 1oqd

Tumor necrosis factor receptor superfamily member 17 is a protein that in humans is encoded by the TNFRSF17 gene.[1][2][3]

The protein encoded by this gene is a member of the TNF-receptor superfamily. This receptor is preferentially expressed in mature B lymphocytes, and may be important for B cell development and autoimmune response. This receptor has been shown to specifically bind to the tumor necrosis factor (ligand) superfamily, member 13b (TNFSF13B/TALL-1/BAFF), and to lead to NF-kappaB and MAPK8/JNK activation. This receptor also binds to various TRAF family members, and thus may transduce signals for cell survival and proliferation.[3]

Interactions

TNFRSF17 has been shown to interact with the B-cell activating factor TNFSF13B.[4][5] A conserved domain at the N-terminus, BCMA TALL-1 binding domain, is required for binding to the TNFSF13B.[4]

References

  1. ^ Laabi Y, Gras MP, Carbonnel F, Brouet JC, Berger R, Larsen CJ, Tsapis A (November 1992). "A new gene, BCM, on chromosome 16 is fused to the interleukin 2 gene by a t(4;16)(q26;p13) translocation in a malignant T cell lymphoma". EMBO J 11 (11): 3897–904. PMC 556899. PMID 1396583. 
  2. ^ Laabi Y, Gras MP, Brouet JC, Berger R, Larsen CJ, Tsapis A (May 1994). "The BCMA gene, preferentially expressed during B lymphoid maturation, is bidirectionally transcribed". Nucleic Acids Res 22 (7): 1147–54. doi:10.1093/nar/22.7.1147. PMC 523635. PMID 8165126. 
  3. ^ a b "Entrez Gene: TNFRSF17 tumor necrosis factor receptor superfamily, member 17". 
  4. ^ a b Liu, Yingfang; Hong Xia, Kappler John, Jiang Ling, Zhang Rongguang, Xu Liangguo, Pan Cheol-Ho, Martin Wesley E, Murphy Robert C, Shu Hong-Bing, Dai Shaodong, Zhang Gongyi (May 2003). "Ligand-receptor binding revealed by the TNF family member TALL-1". Nature (England) 423 (6935): 49–56. doi:10.1038/nature01543. ISSN 0028-0836. PMID 12721620. 
  5. ^ Shu, H B; Johnson H (August 2000). "B cell maturation protein is a receptor for the tumor necrosis factor family member TALL-1". Proc. Natl. Acad. Sci. U.S.A. (UNITED STATES) 97 (16): 9156–61. doi:10.1073/pnas.160213497. ISSN 0027-8424. PMC 16838. PMID 10908663. 

Further reading

This article incorporates text from the United States National Library of Medicine, which is in the public domain.

This article incorporates text from the public domain Pfam and InterPro IPR015337


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.

BCMA, TALL-1 binding Provide feedback

Members of this family, which are predominantly found in the tumour necrosis factor receptor superfamily member 17, BCMA, are required for binding to tumour necrosis factor ligand TALL-1 [1].

Literature references

  1. Liu Y, Hong X, Kappler J, Jiang L, Zhang R, Xu L, Pan CH, Martin WE, Murphy RC, Shu HB, Dai S, Zhang G; , Nature. 2003;423:49-56.: Ligand-receptor binding revealed by the TNF family member TALL-1. PUBMED:12721620 EPMC:12721620


External database links

This tab holds annotation information from the InterPro database.

InterPro entry IPR015337

Cytokines can be grouped into a family on the basis of sequence, functional and structural similarities [PUBMED:8095800, PUBMED:1377364, PUBMED:15335677]. Tumor necrosis factor (TNF) (also known as TNF-alpha or cachectin) is a monocyte-derived cytotoxin that has been implicated in tumour regression, septic shock and cachexia [PUBMED:2989794, PUBMED:3349526]. The protein is synthesised as a prohormone with an unusually long and atypical signal sequence, which is absent from the mature secreted cytokine [PUBMED:2268312]. A short hydrophobic stretch of amino acids serves to anchor the prohormone in lipid bilayers [PUBMED:2777790]. Both the mature protein and a partially-processed form of the hormone are secreted after cleavage of the propeptide [PUBMED:2777790].

There are a number of different families of TNF, but all these cytokines seem to form homotrimeric (or heterotrimeric in the case of LT-alpha/beta) complexes that are recognised by their specific receptors.

Members of this entry, which are predominantly found in the tumour necrosis factor receptor superfamily member 17, BCMA, are required for binding to tumour necrosis factor ligand TALL-1 [PUBMED:12721620].

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

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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.

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(32)
Representative proteomes NCBI
(30)
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(1)
RP35
(1)
RP55
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RP75
(15)
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  Seed
(2)
Full
(32)
Representative proteomes NCBI
(30)
Meta
(0)
RP15
(1)
RP35
(1)
RP55
(2)
RP75
(15)
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
(2)
Full
(32)
Representative proteomes NCBI
(30)
Meta
(0)
RP15
(1)
RP35
(1)
RP55
(2)
RP75
(15)
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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: pdb_1oqd
Previous IDs: none
Type: Domain
Author: Sammut SJ
Number in seed: 2
Number in full: 32
Average length of the domain: 37.40 aa
Average identity of full alignment: 77 %
Average coverage of the sequence by the domain: 22.05 %

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 22.4 22.4
Trusted cut-off 23.4 51.2
Noise cut-off 22.2 22.3
Model length: 39
Family (HMM) version: 5
Download: download the raw HMM for this family

Species distribution

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Interactions

There is 1 interaction for this family. More...

TNF

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 BCMA-Tall_bind domain has been found. There are 12 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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