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PR01923

Identifier
TNFACTORR8  [View Relations]  [View Alignment]  
Accession
PR01923
No. of Motifs
4
Creation Date
18-APR-2008
Title
Tumour necrosis factor receptor 8 signature
Database References

PDB; 1D01
SCOP; 1D01
CATH; 1D01
MIM; 153243
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. HORIE, R. AND WATANABE, T.
CD30: expression and function in health and disease.
SEMIN.IMMUNOL. 10 457-470 (1998).
 
8. YOUNES, A. AND CARBONE, A.
CD30/CD30 ligand and CD40/CD40 ligand in malignant lymphoid disorders.
INT.J.BIOL.MARKERS 14 135-143 (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 8 (also known as CD30 and Ki-1 antigen) was originally
described as a marker of Hodgkin's and Reed-Sternberg cells in Hodgkin's
lymphoma. Expression of the receptor is largely restricted to virus-infected
lymphocytes, neoplasms of lymphoid origin and a subset of activated T cells
that produce Th2-type cytokines [7]. The receptor has pleiotropic biological 
functions, including inducement apoptosis and enhancement of cell survival
[8].
 
TNFACTORR8 is a 4-element fingerprint that provides a signature for tumour
necrosis factor receptor 8. The fingerprint was derived from an initial
alignment of 2 sequences: the motifs were drawn from conserved regions
spanning virtually the full alignment length, focusing on those sections
that characterise TNF receptor 8 but distinguish it from other TNF receptor
subtypes - motif 1 resides within the extracellular N-terminal region; motif
2 partially spans the extracellular N-terminal region and the transmembrane
domain; and motifs 3 and 4 lie within the intracellular C-terminal region.
Two iterations on SPTR55_38f were required to reach convergence, at which
point a true set comprising 4 sequences was identified. Two partial matches
were also found, A8MSI2_HUMAN and Q6P4D9_HUMAN, which are human TNF receptor
8 sequences that fail to match motifs 1 and 2, and 3 and 4, respectively.
Summary Information
   4 codes involving  4 elements
0 codes involving 3 elements
2 codes involving 2 elements
Composite Feature Index
44444
30000
21111
1234
True Positives
A1L3C9_MOUSE  TNR8_HUMAN    TNR8_MOUSE    TNR8_RAT      
True Positive Partials
Codes involving 2 elements
A8MSI2_HUMAN Q6P4D9_HUMAN
Sequence Titles
A1L3C9_MOUSE Tumor necrosis factor receptor superfamily, member 8 - Mus musculus (Mouse). 
TNR8_HUMAN Tumor necrosis factor receptor superfamily member 8 precursor (CD30L receptor) (Lymphocyte activation antigen CD30) (KI-1 antigen) - Homo sapiens (Human).
TNR8_MOUSE Tumor necrosis factor receptor superfamily member 8 precursor (CD30L receptor) (Lymphocyte activation antigen CD30) - Mus musculus (Mouse).
TNR8_RAT Tumor necrosis factor receptor superfamily member 8 precursor (CD30L receptor) (Lymphocyte activation antigen CD30) - Rattus norvegicus (Rat).

A8MSI2_HUMAN Uncharacterized protein TNFRSF8 - Homo sapiens (Human).
Q6P4D9_HUMAN Tumor necrosis factor receptor superfamily, member 8 - Homo sapiens (Human).
Scan History
SPTR55_38f 2  300  NSINGLE    
Initial Motifs
Motif 1  width=20
Element Seqn Id St Int Rpt
KTLTSHATPQAMPTLESPAN TNR8_MOUSE 164 164 -
KEPSSGTIPQAKPTPVSPAT TNR8_HUMAN 167 167 -

Motif 2 width=15
Element Seqn Id St Int Rpt
TGTPFLDPGPVLFWV TNR8_MOUSE 279 95 -
TGKPVLDAGPVLFWV TNR8_HUMAN 377 190 -

Motif 3 width=23
Element Seqn Id St Int Rpt
ETCASVGATYLENLPLLDDSPAG TNR8_MOUSE 373 79 -
ETCHSVGAAYLESLPLQDASPAG TNR8_HUMAN 470 78 -

Motif 4 width=22
Element Seqn Id St Int Rpt
VDHAPHYPEQETEPPLGSCTEV TNR8_MOUSE 457 61 -
ADHTPHYPEQETEPPLGSCSDV TNR8_HUMAN 554 61 -
Final Motifs
Motif 1  width=20
Element Seqn Id St Int Rpt
KTLTSHATPQAMPTLESPAN A1L3C9_MOUSE 164 164 -
KTLTSHATPQAMPTLESPAN TNR8_MOUSE 164 164 -
KEPSSGTIPQAKPTPVSPAT TNR8_HUMAN 167 167 -
KTLTSHTTPQAIPTLESPAN TNR8_RAT 160 160 -

Motif 2 width=15
Element Seqn Id St Int Rpt
TGTPFLDPGPVLFWV A1L3C9_MOUSE 279 95 -
TGTPFLDPGPVLFWV TNR8_MOUSE 279 95 -
TGKPVLDAGPVLFWV TNR8_HUMAN 377 190 -
TGTPFLDPGTMLFWV TNR8_RAT 275 95 -

Motif 3 width=23
Element Seqn Id St Int Rpt
ETCASVGATYLENLPLLDDSPAG A1L3C9_MOUSE 373 79 -
ETCASVGATYLENLPLLDDSPAG TNR8_MOUSE 373 79 -
ETCHSVGAAYLESLPLQDASPAG TNR8_HUMAN 470 78 -
ETGASVGTACLETLPLLDDSITG TNR8_RAT 368 78 -

Motif 4 width=22
Element Seqn Id St Int Rpt
VDHAPHYPEQETEPPLGSCTEV A1L3C9_MOUSE 457 61 -
VDHAPHYPEQETEPPLGSCTEV TNR8_MOUSE 457 61 -
ADHTPHYPEQETEPPLGSCSDV TNR8_HUMAN 554 61 -
VDHTPHYPEQETEPPLGSCTEV TNR8_RAT 452 61 -