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PR01969

Identifier
TNFACTORR19  [View Relations]  [View Alignment]  
Accession
PR01969
No. of Motifs
4
Creation Date
25-JUN-2009
Title
Tumour necrosis factor receptor 19 signature
Database References

MIM; 606122
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. EBY, M., JASMIN, A., KUMAR, A., SHARMA, K. AND CHAUDHARY, P.
TAJ, a novel member of the tumor necrosis factor receptor family, activates
the c-Jun N-terminal kinase pathway and mediates caspase-independent cell 
death.
J.BIOL.CHEM. 275 15336-15342 (2000).
 
8. PARK, J., YIU, G., KANEKO, S., WANG, J., CHANG, J., HE, X., GARCIA, K.,
HE, Z.
A TNF receptor family member, TROY, is a coreceptor with Nogo receptor in 
mediating the inhibitory activity of myelin inhibitors.
NEURON 45 345-351 (2005).

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 19 (also known as toxicity and JNK inducer (TAJ) and TROY) is 
highly expressed during embryonic development, where it may act as a
regulator of cell activation and cell death [7]. In adult tissues, the
receptor is expressed in the central nervous system, and may mediate the
inhibitory effects of myelin upon axon regeneration [8].
 
TNFACTORR19 is a 4-element fingerprint that provides a signature for tumour
necrosis factor receptor 19. The fingerprint was derived from an initial
alignment of 2 sequences: the motifs were drawn from conserved regions in 
the N-terminal two thirds of the alignment, focusing on those sections that
characterise TNF receptor 19 but distinguish it from other TNF receptor
subtypes - motifs 1 and 2 lie within the extracellular N-terminal region,
and motifs 3 and 4 reside within the intracellular C-terminal region. Two
iterations on SPTR57_40f were required to reach convergence, at which point
a true set comprising 11 sequences was identified. Three partial matches 
were also found, B4E2I6_HUMAN, Q8BWR1_MOUSE and Q2HJB7_BOVIN, which are
translated human, murine and bovine cDNA sequences that fail to match the
full complement of motifs.
Summary Information
  11 codes involving  4 elements
3 codes involving 3 elements
0 codes involving 2 elements
Composite Feature Index
411111111
31332
20000
1234
True Positives
A1XGV6_CHICK  A2SWM6_CHICK  A8KA09_HUMAN  A8KA26_HUMAN  
B1AM40_HUMAN Q1ECV9_DANRE Q1KMU0_RAT Q80T13_MOUSE
Q8BUM7_MOUSE TNR19_HUMAN TNR19_MOUSE
True Positive Partials
Codes involving 3 elements
B4E2I6_HUMAN Q2HJB7_BOVIN Q8BWR1_MOUSE
Sequence Titles
A1XGV6_CHICK Troy-long - Gallus gallus (Chicken).          
A2SWM6_CHICK Troy-short - Gallus gallus (Chicken).
A8KA09_HUMAN cDNA FLJ76973, highly similar to Homo sapiens tumor necrosis factor receptor superfamily, member 19 (TNFRSF19), transcript variant 2, mRNA - Homo sapiens (Human).
A8KA26_HUMAN cDNA FLJ78604, highly similar to Homo sapiens tumor necrosis factor receptor superfamily, member 19 (TNFRSF19), transcript variant 2, mRNA - Homo sapiens (Human).
B1AM40_HUMAN Tumor necrosis factor receptor superfamily, member 19 - Homo sapiens (Human).
Q1ECV9_DANRE Zgc:136805 - Danio rerio (Zebrafish) (Brachydanio rerio).
Q1KMU0_RAT Tumor necrosis factor receptor superfamily member 19 - Rattus norvegicus (Rat).
Q80T13_MOUSE Putative uncharacterized protein - Mus musculus (Mouse).
Q8BUM7_MOUSE Putative uncharacterized protein - Mus musculus (Mouse).
TNR19_HUMAN Tumor necrosis factor receptor superfamily member 19 - Homo sapiens (Human).
TNR19_MOUSE Tumor necrosis factor receptor superfamily member 19 - Mus musculus (Mouse).

B4E2I6_HUMAN cDNA FLJ50364, highly similar to Tumor necrosis factor receptor superfamily member 19 - Homo sapiens (Human).
Q2HJB7_BOVIN Tumor necrosis factor receptor superfamily, member 19 - Bos taurus (Bovine).
Q8BWR1_MOUSE Putative uncharacterized protein - Mus musculus (Mouse).
Scan History
SPTR57_40f 2  300  NSINGLE    
Initial Motifs
Motif 1  width=21
Element Seqn Id St Int Rpt
LSCKVTCESGDCRQQEFRDRS TNR19_HUMAN 23 23 -
LACKVSCETGDCRQQEFKDRS TNR19_MOUSE 23 23 -

Motif 2 width=24
Element Seqn Id St Int Rpt
YEPHCASKVNLVKIASTASSPRDT TNR19_HUMAN 145 101 -
YEPHCTSKVNLVKISSTVSSPRDT TNR19_MOUSE 145 101 -

Motif 3 width=28
Element Seqn Id St Int Rpt
FMEKKPSWSLRSQDIQYNGSELSCFDRP TNR19_HUMAN 197 28 -
FMEKKPSWSLRSQDIQYNGSELSCFDQP TNR19_MOUSE 197 28 -

Motif 4 width=21
Element Seqn Id St Int Rpt
RDSVQTCGPVRLLPSMCCEEA TNR19_HUMAN 239 14 -
RDSAPMYGPVHLIPSLCCEEA TNR19_MOUSE 239 14 -
Final Motifs
Motif 1  width=21
Element Seqn Id St Int Rpt
LSCKVTCESGDCRQQEFRDRS A8KA26_HUMAN 23 23 -
LSCKVTCESGDCRQQEFRDRS TNR19_HUMAN 23 23 -
LSCKVTCESGDCRQQEFRDRS B1AM40_HUMAN 23 23 -
LSCKVTCESGDCRQQEFRDRS A8KA09_HUMAN 23 23 -
LACKVSCETGDCRQQEFKDRS Q80T13_MOUSE 23 23 -
LACKVSCETGDCRQQEFKDRS TNR19_MOUSE 23 23 -
LACKVSCETGDCRQQEFKDRS Q8BUM7_MOUSE 23 23 -
LSCKASCETGDCRQQEFKDRS Q1KMU0_RAT 23 23 -
LLSRVICETGDCREQEFRDHA A1XGV6_CHICK 22 22 -
LLSRVICETGDCREQEFRDHA A2SWM6_CHICK 22 22 -
LFAVMAEERRDCREQEYKDKF Q1ECV9_DANRE 23 23 -

Motif 2 width=24
Element Seqn Id St Int Rpt
YEPHCASKVNLVKIASTASSPRDT A8KA26_HUMAN 145 101 -
YEPHCASKVNLVKIASTASSPRDT TNR19_HUMAN 145 101 -
YEPHCASKVNLVKIASTASSPRDT B1AM40_HUMAN 145 101 -
YEPHCASKVNLVKIVSTASSPRDT A8KA09_HUMAN 145 101 -
YEPHCTSKVNLVKISSTVSSPRDT Q80T13_MOUSE 145 101 -
YEPHCTSKVNLVKISSTVSSPRDT TNR19_MOUSE 145 101 -
YEPHCTSKVNLVKISSTVSSPRDT Q8BUM7_MOUSE 145 101 -
YEPHCTSKVNLVKISSTVSSPRDT Q1KMU0_RAT 145 101 -
YEPHCTTKVNLVKIPSTASSPRDT A1XGV6_CHICK 144 101 -
YEPHCTTKVNLVKIPSTASSPRDT A2SWM6_CHICK 144 101 -
YETHCMGRVNLVPLPSTVSSPRDM Q1ECV9_DANRE 145 101 -

Motif 3 width=28
Element Seqn Id St Int Rpt
FMEKKPSWSLRSQDIQYNGSELSCFDRP A8KA26_HUMAN 197 28 -
FMEKKPSWSLRSQDIQYNGSELSCFDRP TNR19_HUMAN 197 28 -
FMEKKPSWSLRSQDIQYNGSELSCFDRP B1AM40_HUMAN 197 28 -
FMEKKPSWSLRSQDIQYNGSELSCFDRP A8KA09_HUMAN 197 28 -
FMEKKPSWSLRSQDIQYNGSELSCFDQP Q80T13_MOUSE 197 28 -
FMEKKPSWSLRSQDIQYNGSELSCFDQP TNR19_MOUSE 197 28 -
FMEKKPSWSLRSQDIQYNGSELSCFDQP Q8BUM7_MOUSE 197 28 -
FMEKKPSWSLRSQDIQYNGSELSCFDQP Q1KMU0_RAT 197 28 -
FMEKKPSWSLRSQDIHYSGSELSCFDRP A1XGV6_CHICK 196 28 -
FMEKKPSWSLRSQDIHYSGSELSCFDRP A2SWM6_CHICK 196 28 -
QLLEKKPVSMRAHEGPFLGSELSCLDRR Q1ECV9_DANRE 196 27 -

Motif 4 width=21
Element Seqn Id St Int Rpt
RDSVQTCGPVRLLPSMCCEEA A8KA26_HUMAN 239 14 -
RDSVQTCGPVRLLPSMCCEEA TNR19_HUMAN 239 14 -
RDSVQTCGPVRLLPSMCCEEA B1AM40_HUMAN 239 14 -
RDSVQTCGPVRLLPSMCCEEA A8KA09_HUMAN 239 14 -
RDSAPMYGPVHLIPSLCCEEA Q80T13_MOUSE 239 14 -
RDSAPMYGPVHLIPSLCCEEA TNR19_MOUSE 239 14 -
RDSAPMYGPVHLIPSLCCEEA Q8BUM7_MOUSE 239 14 -
RDSVQTYGPVHLIPPLCCEEA Q1KMU0_RAT 239 14 -
RSTSQTCGPVHLIPSLCCDET A1XGV6_CHICK 238 14 -
RSTSQTCGMLSLFRSHCKEQE A2SWM6_CHICK 238 14 -
HGSEQTCGGVQLVSSVCCEDV Q1ECV9_DANRE 237 13 -