WORKLIST ENTRIES (1):

TNFACTORR12 View alignment      Tumour necrosis factor receptor 12 signature
 Type of fingerprint: COMPOUND with 3  elements
Links:
   PRINTS; PR01918 TNFACTORR1A; PR01919 TNFACTORR1B; PR01920 TNFACTORR3
   PRINTS; PR01921 TNFACTORR4; PR01922 TNFACTORR5; PR01680 TNFACTORR6
   PRINTS; PR01960 TNFACTORR7; PR01923 TNFACTORR8; PR01924 TNFACTORR9
   PRINTS; PR01956 TNFACTORR10; PR01961 TNFACTORR11; PR01963 TNFACTORR13B
   PRINTS; PR01964 TNFACTORR13C; PR01965 TNFACTORR14; PR01966 TNFACTORR16
   PRINTS; PR01967 TNFACTORR17; PR01968 TNFACTORR18; PR01969 TNFACTORR19
   PRINTS; PR01970 TNFACTORR19l; PR01971 TNFACTORR21; PR01972 TNFACTORR25
   PRINTS; PR01973 TNFACTORR27
   PRINTS; PR01974 TNFACTORR11A; PR01975 TNFACTORR11B
   MIM; 605914

 Creation date 23-JUN-2009

   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).

   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 FINGERPRINT INDEX
  
    3|   6    6    6  
    2|   0    0    0  
   --+----------------
     |   1    2    3  

True positives..
 B7SLY2_PIG     TNR12_MOUSE    TNR12_HUMAN    Q80XX9_RAT     
 B7ZQA3_XENLA   Q6SIX7_XENLA   


  PROTEIN TITLES
   B7SLY2_PIG       Fibroblast growth factor-inducible 14 - Sus scrofa (Pig).
   TNR12_MOUSE      Tumor necrosis factor receptor superfamily member 12A - Mus 
   TNR12_HUMAN      Tumor necrosis factor receptor superfamily member 12A - Homo
   Q80XX9_RAT       Type 1 transmembrane protein FN14 (Tumor necrosis factor rec
   B7ZQA3_XENLA     Fn14 protein - Xenopus laevis (African clawed frog).
   Q6SIX7_XENLA     Fn14 - Xenopus laevis (African clawed frog).

SCAN HISTORY SPTR57_40f 2 300 NSINGLE INITIAL MOTIF SETS TNFACTORR121 Length of motif = 16 Motif number = 1 Tumour necrosis factor receptor 12 motif I - 1 PCODE ST INT CSSGSSWSADLDKCMD TNR12_MOUSE 36 36 CSRGSSWSADLDKCMD TNR12_HUMAN 36 36 CPEGRAYSQDLGKCME Q6SIX7_XENLA 27 27 TNFACTORR122 Length of motif = 11 Motif number = 2 Tumour necrosis factor receptor 12 motif II - 1 PCODE ST INT ARPHSDFCLGC TNR12_MOUSE 57 5 ARPHSDFCLGC TNR12_HUMAN 57 5 NSEKSDFCQNC Q6SIX7_XENLA 48 5 TNFACTORR123 Length of motif = 12 Motif number = 3 Tumour necrosis factor receptor 12 motif III - 1 PCODE ST INT RREKFTTPIEET TNR12_MOUSE 106 38 RREKFTTPIEET TNR12_HUMAN 106 38 RKSKFTTPIEET Q6SIX7_XENLA 98 39 FINAL MOTIF SETS TNFACTORR121 Length of motif = 16 Motif number = 1 Tumour necrosis factor receptor 12 motif I - 2 PCODE ST INT 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 TNFACTORR122 Length of motif = 11 Motif number = 2 Tumour necrosis factor receptor 12 motif II - 2 PCODE ST INT 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 TNFACTORR123 Length of motif = 12 Motif number = 3 Tumour necrosis factor receptor 12 motif III - 2 PCODE ST INT 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

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