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PR01731

Identifier
LYMPHOTACTIN  [View Relations]  [View Alignment]  
Accession
PR01731
No. of Motifs
5
Creation Date
21-JUN-2002
Title
Lymphotactin precursor signature
Database References

PDB; 1J8I; 1J9O
SCOP; 1J8I; 1J9O
CATH; 1J8I; 1J9O
Literature References
1. WATSON, S. AND ARKINSTALL, S.
Chemokines.
IN THE G PROTEIN-LINKED RECEPTOR FACTSBOOK, ACADEMIC PRESS, 1994, PP.83-88.
 
2. KELNER, G.S., KENNEDY, J., BACON, K.B., KLEYENSTEUBER, S., 
LARGAESPADA, D.A., JENKINS, N.A., COPELAND, N.G., BAZAN, J.F., MOORE, K.W.,
SCHALL, T.J. AND ZLOTNIK, A.
Lymphotactin: a cytokine that represents a new class of chemokine.
SCIENCE 266 1395-1399 (1994).
 
3. YOSHIDA, T., IMAI, T., KAKIZAKI, M., NISHIMURA, M., TAKAGI, S. AND
YOSHIE, O.
Identification of single C motif-1/lymphotactin receptor XCR1.
J.BIOL.CHEM. 273(26) 16551-16554 (1998).

Documentation
Chemokines are proteins that have important physiological and patho-
physiological roles in a wide range of acute and chronic inflammatory
processes [1]. Their sequences are similar and are characterised by a
4-cysteine motif: the family can be divided according to whether the first 2
Cys residues are adjacent (the C-C family), or separated by an intervening
residue (the C-x-C family).
 
Two additional chemokine families have also been identified, each containing
only one member. C chemokines have only one of the first two Cys residues,
while C-x3-C chemokines contain both cysteines, separated by three
intervening residues [3]. Lymphotactin is the only known member of the C
chemokine family. It has closest similarity to the C-C chemokines, but
contains only the second and fourth of the conserved cysteine residues. The
chemokine is produced by certain subsets of T cells and natural killer cells,
and is also chemotactic for these cell types [2,3].
 
LYMPHOTACTIN is a 5-element fingerprint that provides a signature for the
lymphotactin precursors. The fingerprint was derived from an initial 
alignment of 6 sequences: the motifs were drawn from conserved sections 
spanning virtually the full alignment length, focusing on those areas that 
best characterise the lymphotactin precursors - motif 1 encodes the signal 
peptide; motifs 2 and 3 lie in the extended N-terminal portion of the 
chemokine domain; motif 4 spans beta-strands 1 and 2, and connecting beta-
hairpin; and motif 5 encodes the second beta-hairpin and strand 3. A single
iteration on SPTR40_20f was required to reach convergence, no further 
sequences being identified beyond the starting set.
Summary Information
6 codes involving  5 elements
0 codes involving 4 elements
0 codes involving 3 elements
0 codes involving 2 elements
Composite Feature Index
566666
400000
300000
200000
12345
True Positives
O57411        Q9BDJ2        SYC1_HUMAN    SYC1_MOUSE    
SYC1_RAT SYC2_HUMAN
Sequence Titles
O57411      LYMPHOTACTIN PRECURSOR - Gallus gallus (Chicken). 
Q9BDJ2 LYMPHOTACTIN - Bos taurus (Bovine).
SYC1_HUMAN Lymphotactin precursor (Cytokine SCM-1) (ATAC) (Lymphotaxin) (SCM-1- alpha) (Small inducible cytokine C1) (XC chemokine ligand 1) (XCL1) - Homo sapiens (Human).
SYC1_MOUSE Lymphotactin precursor (Cytokine SCM-1) (Lymphotaxin) (Small inducible cytokine C1) - Mus musculus (Mouse).