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PR01956

Identifier
TNFACTORR10  [View Relations]  [View Alignment]  
Accession
PR01956
No. of Motifs
3
Creation Date
30-APR-2008
Title
Tumour necrosis factor receptor 10 signature
Database References

PDB; 1D0G; 1D4V; 1DU3; 1ZA3; 2H9G
SCOP; 1D0G; 1D4V; 1DU3; 1ZA3; 2H9G
CATH; 1D0G; 1D4V; 1DU3; 1ZA3; 2H9G
MIM; 603611; 603612; 603613; 603614
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. DEGLI-ESPOSTI, M., SMOLAK, P., WALCZAK, H., WAUGH, J., HUANG, C.,
DUBOSE, R., GOODWIN, R. AND SMITH, C.
Cloning and characterization of TRAIL-R3, a novel member of the emerging 
TRAIL receptor family. 
J.EXP.MED. 186 1165-1170 (1997).
 
8. DEGLI-ESPOSTI, M., DOUGALL, W., SMOLAK, P., WAUGH, J., SMITH, C. AND
GOODWIN, R.
The novel receptor TRAIL-R4 induces NF-kappaB and protects against 
TRAIL-mediated apoptosis, yet retains an incomplete death domain.
IMMUNITY 7 813-820 (1997).

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 10 is activated by TNF-related apoptosis-inducing ligand 
(TRAIL). Four subtypes of the receptor have been identified: TNF receptors
10A and 10B (also known as death receptor 4 and 5, respectively), which 
contain a death domain within their C-terminal regions, and TNF receptors
10C and 10D, in which the death domain is not present or is truncated. It 
has been suggested that the function of the latter two receptors may be to 
inhibit TRAIL cytotoxicity by competing with the other TRAIL receptors for
binding of the ligand [7,8].
 
TNFACTORR10 is a 3-element fingerprint that provides a signature for tumour
necrosis factor receptor 10. The fingerprint was derived from an initial 
alignment of 5 sequences: the motifs were drawn from conserved regions in 
the N-terminal half of the alignment, focusing on those sections that
characterise TNF receptor 10 but distinguish it from other TNF receptor
subtypes - all motifs lie in the N-terminal extracellular region. Two 
iterations on SPTR55_38f were required to reach convergence, at which point
a true set comprising 10 sequences was identified. A single partial match
was also found, A6QNP5_BOVIN, a short translated bovine mRNA that fails to
match motif 3.
Summary Information
  10 codes involving  3 elements
1 codes involving 2 elements
Composite Feature Index
3101010
2110
123
True Positives
A8K5I4_HUMAN  Q53Y72_HUMAN  Q6FH58_HUMAN  Q6FH98_HUMAN  
Q6GSD9_MOUSE TR10A_HUMAN TR10B_HUMAN TR10B_MOUSE
TR10C_HUMAN TR10D_HUMAN
True Positive Partials
Codes involving 2 elements
A6QNP5_BOVIN
Sequence Titles
A8K5I4_HUMAN cDNA FLJ75685, highly similar to Homo sapiens tumor necrosis factor receptor superfamily, member 10a (TNFRSF10A), mRNA - Homo sapiens (Human). 
Q53Y72_HUMAN Tumor necrosis factor receptor superfamily, member 10a - Homo sapiens (Human).
Q6FH58_HUMAN TNFRSF10B protein (Tumor necrosis factor receptor superfamily, member 10b) (Tumor necrosis factor receptor superfamily, member 10b, isoform CRA_a) (cDNA FLJ76289, highly similar to Homo sapiens tumor necrosis factor receptor superfamily, member 10b (TNFRSF10B), transcript variant 1, mRNA) - Homo sapiens (Human).
Q6FH98_HUMAN TNFRSF10C protein - Homo sapiens (Human).
Q6GSD9_MOUSE Tumor necrosis factor receptor superfamily, member 10b (NOD-derived CD11c +ve dendritic cells cDNA, RIKEN full-length enriched library, clone:F630115B11 product:tumor necrosis factor receptor superfamily, member 10b, full insert sequence) (Adult male aorta and vein cDNA, RIKEN full-length enriched library, clone:A530056N19 product:TNFRSF10, full insert sequence) (9 days embryo whole body cDNA, RIKEN full- length enriched library, clone:D030016I16 product:Tumor Necrosis Receptor superfamily member 10, full insert sequence) - Mus musculus (Mouse).
TR10A_HUMAN Tumor necrosis factor receptor superfamily member 10A precursor (Death receptor 4) (TNF-related apoptosis-inducing ligand receptor 1) (TRAIL receptor 1) (TRAIL-R1) (CD261 antigen) - Homo sapiens (Human).
TR10B_HUMAN Tumor necrosis factor receptor superfamily member 10B precursor (Death receptor 5) (TNF-related apoptosis-inducing ligand receptor 2) (TRAIL receptor 2) (TRAIL-R2) (CD262 antigen) - Homo sapiens (Human).
TR10B_MOUSE Tumor necrosis factor receptor superfamily member 10B precursor (Death receptor 5) (MK) - Mus musculus (Mouse).
TR10C_HUMAN Tumor necrosis factor receptor superfamily member 10C precursor (Decoy receptor 1) (DcR1) (Decoy TRAIL receptor without death domain) (TNF- related apoptosis-inducing ligand receptor 3) (TRAIL receptor 3) (TRAIL-R3) (Trail receptor without an intracellular domain) (Lymphocyte inhibitor of TRAIL) (Antagonist decoy receptor for TRAIL/Apo-2L) (CD263 antigen) - Homo sapiens (Human).
TR10D_HUMAN Tumor necrosis factor receptor superfamily member 10D precursor (Decoy receptor 2) (DcR2) (TNF-related apoptosis-inducing ligand receptor 4) (TRAIL receptor 4) (TRAIL-R4) (TRAIL receptor with a truncated death domain) (CD264 antigen) - Homo sapiens (Human).

A6QNP5_BOVIN MGC139169 protein - Bos taurus (Bovine).
Scan History
SPTR55_38f 2  300  NSINGLE    
Initial Motifs
Motif 1  width=17
Element Seqn Id St Int Rpt
GACNRCTEGVGYTNASN TR10A_HUMAN 143 143 -
GACNPCTEGVDYTNASN TR10C_HUMAN 64 64 -
GACNPCTEGVDYTIASN TR10D_HUMAN 94 94 -
RDCISCKYGQDYSTHWN TR10B_HUMAN 92 92 -
GNCKPCREGIDYTSHSN TR10B_MOUSE 83 83 -

Motif 2 width=15
Element Seqn Id St Int Rpt
TFRNDNSAEMCRKCS TR10A_HUMAN 194 34 -
TFRNENSPEMCRKCS TR10C_HUMAN 115 34 -
SFQDKNSPEMCRTCR TR10D_HUMAN 145 34 -
TFREEDSPEMCRKCR TR10B_HUMAN 143 34 -
TFEDKDSPEICQSCS TR10B_MOUSE 135 35 -

Motif 3 width=10
Element Seqn Id St Int Rpt
RGMVKVKDCT TR10A_HUMAN 213 4 -
SGEVQVSNCT TR10C_HUMAN 133 3 -
RGMVKVSNCT TR10D_HUMAN 164 4 -
RGMVKVGDCT TR10B_HUMAN 162 4 -
DGEEELTSCT TR10B_MOUSE 153 3 -
Final Motifs
Motif 1  width=17
Element Seqn Id St Int Rpt
GACNRCTEGVGYTNASN A8K5I4_HUMAN 143 143 -
GACNRCTEGVGYTNASN TR10A_HUMAN 143 143 -
GACNRCTEGVGYTNASN Q53Y72_HUMAN 143 143 -
GACNPCTEGVDYTNASN Q6FH98_HUMAN 64 64 -
GACNPCTEGVDYTNASN TR10C_HUMAN 64 64 -
GACNPCTEGVDYTIASN TR10D_HUMAN 94 94 -
RDCISCKYGQDYSTHWN Q6FH58_HUMAN 92 92 -
RDCISCKYGQDYSTHWN TR10B_HUMAN 92 92 -
GNCKPCREGIDYTSHSN Q6GSD9_MOUSE 83 83 -
GNCKPCREGIDYTSHSN TR10B_MOUSE 83 83 -

Motif 2 width=15
Element Seqn Id St Int Rpt
TFRNDNSAEMCRKCS A8K5I4_HUMAN 194 34 -
TFRNDNSAEMCRKCS TR10A_HUMAN 194 34 -
TFRNDNSAEMCRKCS Q53Y72_HUMAN 194 34 -
TFRNENSPEMCRKCS Q6FH98_HUMAN 115 34 -
TFRNENSPEMCRKCS TR10C_HUMAN 115 34 -
SFQDKNSPEMCRTCR TR10D_HUMAN 145 34 -
TFREEDSPEMCRKCR Q6FH58_HUMAN 143 34 -
TFREEDSPEMCRKCR TR10B_HUMAN 143 34 -
TFEDKDSPEICQSCS Q6GSD9_MOUSE 135 35 -
TFEDKDSPEICQSCS TR10B_MOUSE 135 35 -

Motif 3 width=10
Element Seqn Id St Int Rpt
RGMVKVKDCT A8K5I4_HUMAN 213 4 -
RGMVKVKDCT TR10A_HUMAN 213 4 -
RGMVKVKDCT Q53Y72_HUMAN 213 4 -
SGEVQVSNCT Q6FH98_HUMAN 133 3 -
SGEVQVSNCT TR10C_HUMAN 133 3 -
RGMVKVSNCT TR10D_HUMAN 164 4 -
RGMVKVGDCT Q6FH58_HUMAN 162 4 -
RGMVKVGDCT TR10B_HUMAN 162 4 -
DGEEELTSCT Q6GSD9_MOUSE 153 3 -
DGEEELTSCT TR10B_MOUSE 153 3 -