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PR01962

Identifier
TNFACTORR12  [View Relations]  [View Alignment]  
Accession
PR01962
No. of Motifs
3
Creation Date
23-JUN-2009
Title
Tumour necrosis factor receptor 12 signature
Database References

MIM; 605914
Literature References
1. ARMITAGE, R.
Tumor necrosis factor receptor superfamily members and their ligands.
CURR.OPIN.IMMUNOL. 6 407-413 (1994).
 
2. BANNER D., D'ARCY, A., JAMES, W., GENTZ, R., SCHOENFELD, H., BROGER, C.,
LOETSCHER, H. AND LESSLAUER, W.
Crystal structure of the soluble human 55 kD TNF receptor-human TNF-beta
complex: implications for TNF receptor activation.
CELL 73 431-445 (1993).
 
3. WU, H.
Assembly of post-receptor signaling complexes for the tumor necrosis factor
receptor superfamily.
ADV.PROTEIN CHEM. 68 225-279 (2004).
 
4. LOCKSLEY, R., KILLEEN, N. AND LENARDO, M.
The TNF and TNF Receptor Superfamilies: Integrating Mammalian Biology.
CELL 104 487-501 (2001).
 
5. GRAVESTEIN, L. AND BORST, J.
Tumor necrosis factor receptor family members in the immune system.
SEMIN.IMMUNOL. 10 423-434 (1998).
 
6. LOENEN, W.
D27 and (TNFR) relatives in the immune system: their role in health and
disease.
SEMIN.IMMUNOL. 10 417-422 (1998).
 
7. WILEY, S., CASSIANO, L., LOFTON, T., DAVIS-SMITH, T., WINKLES, J., 
LINDNER, V., LIU, H., DANIEL, T., SMITH, C. AND FANSLOW, W.
A novel TNF receptor family member binds TWEAK and is implicated in 
angiogenesis.
IMMUNITY 15 837-846 (2001).
 
8. MEIGHAN-MANTHA, R., HSU, D., GUO, Y., BROWN, S., FENG, S., PEIFLEY, K., 
ALBERTS, G., COPELAND, N., GILBERT, D., JENKINS, N., RICHARDS, C. AND 
WINKLES, J.
The mitogen-inducible Fn14 gene encodes a type I transmembrane protein that 
modulates fibroblast adhesion and migration.
J.BIOL.CHEM. 274 33166-33176 (1999).

Documentation
The tumour necrosis factor (TNF) receptor (TNFR) superfamily comprises more
than 20 type-I transmembrane proteins. Family members are defined based on
similarity in their extracellular domain - a region that contains many
cysteine residues arranged in a specific repetitive pattern [1]. The
cysteines allow formation of an extended rod-like structure, responsible for
ligand binding [2].
 
Upon receptor activation, different intracellular signalling complexes are
assembled for different members of the TNFR superfamily, depending on their
intracellular domains and sequences [3]. Activation of TNFRs can therefore
induce a range of disparate effects, including cell proliferation,
differentiation, survival, or apoptotic cell death, depending upon the
receptor involved [4,5].
 
TNFRs are widely distributed and play important roles in many crucial
biological processes, such as lymphoid and neuronal development, innate and
adaptive immunity, and maintenance of cellular homeostasis [3]. Drugs that
manipulate their signalling have potential roles in the prevention and
treatment of many diseases, such as viral infections, coronary heart
disease, transplant rejection, and immune disease [6].
 
TNF receptor 12 (also known as TWEAK receptor, and fibroblast growth 
factor-inducible-14 (Fn14)) has been implicated in endothelial cell growth
and migration [7]. The receptor may also play a role in cell-matrix 
interactions [8].
 
TNFACTORR12 is a 3-element fingerprint that provides a signature for tumour 
necrosis factor receptor 12. The fingerprint was derived from an initial 
alignment of 3 sequences: the motifs were drawn from conserved regions
spanning virtually the full alignment length, focusing on those sections 
that characterise TNF receptor 12 but distinguish it from other TNF receptor
subtypes - motifs 1 and 2 lie within the extracellular N-terminal region,
and motif 3 resides within the intracellular C-terminal region. Two 
iterations on SPTR57_40f were required to reach convergence, at which point
a true set comprising 6 sequences was identified.
Summary Information
6 codes involving  3 elements
0 codes involving 2 elements
Composite Feature Index
3666
2000
123
True Positives
B7SLY2_PIG    B7ZQA3_XENLA  Q6SIX7_XENLA  Q80XX9_RAT    
TNR12_HUMAN TNR12_MOUSE
Sequence Titles
B7SLY2_PIG  Fibroblast growth factor-inducible 14 - Sus scrofa (Pig). 
B7ZQA3_XENLA Fn14 protein - Xenopus laevis (African clawed frog).
Q6SIX7_XENLA Fn14 - Xenopus laevis (African clawed frog).
Q80XX9_RAT Type 1 transmembrane protein FN14 (Tumor necrosis factor receptor superfamily, member 12a) - Rattus norvegicus (Rat).
TNR12_HUMAN Tumor necrosis factor receptor superfamily member 12A - Homo sapiens (Human).
TNR12_MOUSE Tumor necrosis factor receptor superfamily member 12A - Mus musculus (Mouse).
Scan History
SPTR57_40f 2  300  NSINGLE    
Initial Motifs
Motif 1  width=16
Element Seqn Id St Int Rpt
CSSGSSWSADLDKCMD TNR12_MOUSE 36 36 -
CSRGSSWSADLDKCMD TNR12_HUMAN 36 36 -
CPEGRAYSQDLGKCME Q6SIX7_XENLA 27 27 -

Motif 2 width=11
Element Seqn Id St Int Rpt
ARPHSDFCLGC TNR12_MOUSE 57 5 -
ARPHSDFCLGC TNR12_HUMAN 57 5 -
NSEKSDFCQNC Q6SIX7_XENLA 48 5 -

Motif 3 width=12
Element Seqn Id St Int Rpt
RREKFTTPIEET TNR12_MOUSE 106 38 -
RREKFTTPIEET TNR12_HUMAN 106 38 -
RKSKFTTPIEET Q6SIX7_XENLA 98 39 -
Final Motifs
Motif 1  width=16
Element Seqn Id St Int Rpt
CSRGSSWSADLDKCMD B7SLY2_PIG 36 36 -
CSSGSSWSADLDKCMD TNR12_MOUSE 36 36 -
CSRGSSWSADLDKCMD TNR12_HUMAN 36 36 -
CSSGSSWSADLDKCMD Q80XX9_RAT 36 36 -
CPEGRAYSQDLGKCME B7ZQA3_XENLA 27 27 -
CPEGRAYSQDLGKCME Q6SIX7_XENLA 27 27 -

Motif 2 width=11
Element Seqn Id St Int Rpt
ARPHSDFCLGC B7SLY2_PIG 57 5 -
ARPHSDFCLGC TNR12_MOUSE 57 5 -
ARPHSDFCLGC TNR12_HUMAN 57 5 -
ARPHSDFCLGC Q80XX9_RAT 57 5 -
NSEKSDFCQNC B7ZQA3_XENLA 48 5 -
NSEKSDFCQNC Q6SIX7_XENLA 48 5 -

Motif 3 width=12
Element Seqn Id St Int Rpt
RREKFTTPIEET B7SLY2_PIG 106 38 -
RREKFTTPIEET TNR12_MOUSE 106 38 -
RREKFTTPIEET TNR12_HUMAN 106 38 -
RREKFTTPIEET Q80XX9_RAT 106 38 -
RKSKFTTPIEET B7ZQA3_XENLA 98 39 -
RKSKFTTPIEET Q6SIX7_XENLA 98 39 -