WORKLIST ENTRIES (1): TNFACTORR11A View alignment Tumour necrosis factor receptor 11A signature Type of fingerprint: COMPOUND with 5 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; PR01962 TNFACTORR12 PRINTS; PR01963 TNFACTORR13B; PR01964 TNFACTORR13C; PR01965 TNFACTORR14 PRINTS; PR01966 TNFACTORR16; PR01967 TNFACTORR17; PR01968 TNFACTORR18 PRINTS; PR01969 TNFACTORR19; PR01970 TNFACTORR19L; PR01971 TNFACTORR21 PRINTS; PR01972 TNFACTORR25; PR01973 TNFACTORR27 PRINTS; PR01975 TNFACTORR11B MIM; 603499 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. NAKAGAWA, N., KINOSAKI, M., YAMAGUCHI, K., SHIMA, N., YASUDA, H., YANO, K., MORINAGA, T. AND HIGASHIO, K. RANK is the essential signaling receptor for osteoclast differentiation factor in osteoclastogenesis. BIOCHEM.BIOPHYS.RES.COMMUN. 253 395-400 (1998). 8. HOFBAUER, L. AND HEUFELDER, A. Role of receptor activator of nuclear factor-kappaB ligand and osteoprotegerin in bone cell biology. J.MOL.MED. 79 243-253 (2001). 9. ZHANG, S., LIU, C., HUANG, P., ZHOU, S., REN, J., KITAMURA, Y., TANG, P., BI, Z. AND GAO, B. The affinity of human RANK binding to its ligand RANKL. ARCH.BIOCHEM.BIOPHYS. 487 49-53 (2009). 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 . The cysteines allow formation of an extended rod-like structure, responsible for ligand binding . Upon receptor activation, different intracellular signalling complexes are assembled for different members of the TNFR superfamily, depending on their intracellular domains and sequences . 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 . 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 . TNF receptors 11A and 11B mediate the effects of receptor activator for NF-kappa-B ligand (RANKL), an essential osteoclast regulatory factor. The receptors have opposing effects - activation of TNF receptor 11A by RANKL promotes osteoclast differentiation , while TNF receptor 11B acts as a soluble decoy receptor for the ligand, thus inhibiting differentiation . Mutations in the TNF receptor 11A gene have been implicated in a range of bone disorders, such as expansile osteolysis, osteopetrosis, and Paget disease of bone. The receptor also has a role in immune function, vascular disease and mammary gland development . TNFACTORR11A is a 5-element fingerprint that provides a signature for tumour necrosis factor receptor 11A. 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 11A but distinguish it from other TNF receptor subtypes - motif 1 resides within the extracellular N-terminal region; motif 2 lies partially within the extracellular N-terminal region and partially within the transmembrane domain; and motifs 3 and 4 reside within the intracellular C-terminal region. A single iteration on SPTR57_40f was required to reach convergence, no further sequences being identified beyond the starting set. SUMMARY INFORMATION 2 codes involving 5 elements 0 codes involving 4 elements 0 codes involving 3 elements 0 codes involving 2 elements COMPOSITE FINGERPRINT INDEX 5| 2 2 2 2 2 4| 0 0 0 0 0 3| 0 0 0 0 0 2| 0 0 0 0 0 --+-------------------------- | 1 2 3 4 5 True positives.. TNR11_HUMAN TNR11_MOUSE PROTEIN TITLES TNR11_HUMAN Tumor necrosis factor receptor superfamily member 11A - Homo TNR11_MOUSE Tumor necrosis factor receptor superfamily member 11A - Mus
SCAN HISTORY SPTR57_40f 1 300 NSINGLE INITIAL MOTIF SETS TNFACTORR11A1 Length of motif = 24 Motif number = 1 Tumour necrosis factor receptor 11A motif I - 1 PCODE ST INT PLQVTLQVTPPCTQERHYEHLGRC TNR11_MOUSE 24 24 RLQVALQIAPPCTSEKHYEHLGRC TNR11_HUMAN 23 23 TNFACTORR11A2 Length of motif = 12 Motif number = 2 Tumour necrosis factor receptor 11A motif II - 1 PCODE ST INT PKEAQAYLPSLI TNR11_MOUSE 205 157 PNEPHVYLPGLI TNR11_HUMAN 204 157 TNFACTORR11A3 Length of motif = 26 Motif number = 3 Tumour necrosis factor receptor 11A motif III - 1 PCODE ST INT TANLWNWVNDACSSLSGNKESSGDRC TNR11_MOUSE 244 27 TANLWHWINEACGRLSGDKESSGDSC TNR11_HUMAN 243 27 TNFACTORR11A4 Length of motif = 22 Motif number = 4 Tumour necrosis factor receptor 11A motif IV - 1 PCODE ST INT EYTDRPSQPSTGSLLLIQQGSK TNR11_MOUSE 344 74 EYMDRPSQPTDQLLFLTEPGSK TNR11_HUMAN 348 79 TNFACTORR11A5 Length of motif = 16 Motif number = 5 Tumour necrosis factor receptor 11A motif V - 1 PCODE ST INT ETLAHRDSFAGTAPRF TNR11_MOUSE 564 198 ETLARRDSFAGNGPRF TNR11_HUMAN 573 203 FINAL MOTIF SETS TNFACTORR11A1 Length of motif = 24 Motif number = 1 Tumour necrosis factor receptor 11A motif I - 1 PCODE ST INT RLQVALQIAPPCTSEKHYEHLGRC TNR11_HUMAN 23 23 PLQVTLQVTPPCTQERHYEHLGRC TNR11_MOUSE 24 24 TNFACTORR11A2 Length of motif = 12 Motif number = 2 Tumour necrosis factor receptor 11A motif II - 1 PCODE ST INT PNEPHVYLPGLI TNR11_HUMAN 204 157 PKEAQAYLPSLI TNR11_MOUSE 205 157 TNFACTORR11A3 Length of motif = 26 Motif number = 3 Tumour necrosis factor receptor 11A motif III - 1 PCODE ST INT TANLWHWINEACGRLSGDKESSGDSC TNR11_HUMAN 243 27 TANLWNWVNDACSSLSGNKESSGDRC TNR11_MOUSE 244 27 TNFACTORR11A4 Length of motif = 22 Motif number = 4 Tumour necrosis factor receptor 11A motif IV - 1 PCODE ST INT EYMDRPSQPTDQLLFLTEPGSK TNR11_HUMAN 348 79 EYTDRPSQPSTGSLLLIQQGSK TNR11_MOUSE 344 74 TNFACTORR11A5 Length of motif = 16 Motif number = 5 Tumour necrosis factor receptor 11A motif V - 1 PCODE ST INT ETLARRDSFAGNGPRF TNR11_HUMAN 573 203 ETLAHRDSFAGTAPRF TNR11_MOUSE 564 198
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