WORKLIST ENTRIES (1):
SSPAMPROTEIN View alignment Salmonella surface presentation of antigen gene type M signature
Type of fingerprint: COMPOUND with 8 elements
Links:
PRINTS; PR01305 SSPAKPROTEIN; PR01306 SSPANPROTEIN; PR01344 INVEPROTEIN
INTERPRO; IPR002954
Creation date 06-JAN-2000
1. GROISMAN, E.A. AND OCHMAN, H.
Cognate gene clusters govern invasion of host epithelial cells by
Salmonella typhimurium and Shigella flexneri.
EMBO J. 12 3779-3787 (1993).
2. COLLAZO, C.M., ZIERLER, M.K. AND GALAN, J.E.
Functional analysis of the Salmonella typhimurium invasion genes InvI
and InVJ and identification of a target of the protein secretion
apparatus encoded in the inv locus.
MOL.MICROBIOL. 15 25-38 (1995).
3. LINDBERG, A.A.
Vaccination against enteric pathogens: from science to vaccine trials.
CURR.OPIN.MICROBIOL. 1 116-124 (1998).
4. BOYD, E.F., LI, J., OCHMAN, H., AND SELANDER, R.K.
Comparative genetics of the inv-spa invasion gene complex of Salmonella
enterica.
J.BACTERIOL. 179 1985-1991 (1997).
5. COLLAZO, C.M. AND GALAN, J.E.
Requirement for exported proteins in secretion through the invasion -
associated type III system of Salmonella typhimurium.
INFECT.IMMUN. 64(9) 3524-3531 (1996).
The Salmonella typhimurium surface presentation of antigens M gene (SpaM)
is one of 12 that form a cluster responsible for invasion properties [1].
The gene product is required for entry by the bacterium into epithelial
cells, and is thus considered to be a virulence factor [1]. Other Spa genes
in the cluster are related to invasion (Inv) genes in similar Salmonella
and Shigella species [2], and to flagella biosynthesis genes in Helicobacter
pylori [3].
A homologue of this protein has been found recently in Salmonella enterica
[4]. The protein, named InvI, is required by the organism to gain access to
mammalian epithelial cells, and cellular mutants (InvI-) failed to
successfully infect these cells. It has also been found that the inv-spa
loci of this particular species encode for a type III protein secretion
system, essential in the bacterium's host cell invasion process [5].
SSPAMPROTEIN is an 8-element fingerprint that provides a signature for the
spa-inv family of proteins in Salmonella. The fingerprint was derived from
an initial alignment of 5 sequences: the motifs were drawn from conserved
regions spanning the full alignment length (~147 amino acid residues). Two
iterations on SPTR37_10f were required to reach convergence, at which
point a true set of 12 sequences was identified.
SUMMARY INFORMATION
12 codes involving 8 elements
0 codes involving 7 elements
0 codes involving 6 elements
0 codes involving 5 elements
0 codes involving 4 elements
0 codes involving 3 elements
0 codes involving 2 elements
COMPOSITE FINGERPRINT INDEX
8| 12 12 12 12 12 12 12 12
7| 0 0 0 0 0 0 0 0
6| 0 0 0 0 0 0 0 0
5| 0 0 0 0 0 0 0 0
4| 0 0 0 0 0 0 0 0
3| 0 0 0 0 0 0 0 0
2| 0 0 0 0 0 0 0 0
--+-----------------------------------------
| 1 2 3 4 5 6 7 8
True positives..
Q54047 Q54045 Q54058 Q54055
Q54064 Q54062 Q57080 SPAM_SALTY
Q54043 Q54049 Q54051 Q57351
PROTEIN TITLES
Q54047 SPAM - SALMONELLA TYPHIMURIUM.
Q54045 SPAM - SALMONELLA TYPHIMURIUM.
Q54058 SPAM - SALMONELLA TYPHIMURIUM.
Q54055 SPAM - SALMONELLA TYPHIMURIUM.
Q54064 SPAM - SALMONELLA TYPHIMURIUM.
Q54062 SPAM - SALMONELLA TYPHIMURIUM.
Q57080 SPAM - SALMONELLA TYPHIMURIUM.
SPAM_SALTY SURFACE PRESENTATION OF ANTIGENS PROTEIN SPAM (INVASION PROT
Q54043 SPAM - SALMONELLA TYPHIMURIUM.
Q54049 SPAM - SALMONELLA TYPHIMURIUM.
Q54051 SPAM - SALMONELLA TYPHIMURIUM.
Q57351 SPAM - SALMONELLA TYPHIMURIUM.
SCAN HISTORY
SPTR37_10f 2 30 NSINGLE
INITIAL MOTIF SETS
SSPAMPROTEIN1 Length of motif = 13 Motif number = 1
Salmonella SPAM motif I - 1
PCODE ST INT
QRRCTVFHSQCES SPAM_SALTY 11 11
QRRCTVFHSQCES Q54043 11 11
QRRCTVFHSQCES Q54047 11 11
QRRCTVFHSQCES Q54062 11 11
QRRCTVFHSQCES Q54064 11 11
SSPAMPROTEIN2 Length of motif = 13 Motif number = 2
Salmonella SPAM motif II - 1
PCODE ST INT
RYQDEDRGLQAEE SPAM_SALTY 27 3
RYQDEDRGLQAEE Q54043 27 3
RYQDEDRRLQVEE Q54047 27 3
RYQDEDRRLQAEE Q54062 27 3
RYQDEDRRLQAEE Q54064 27 3
SSPAMPROTEIN3 Length of motif = 14 Motif number = 3
Salmonella SPAM motif III - 1
PCODE ST INT
DTLRAENRQLSREE SPAM_SALTY 54 14
DTLRAENRQLSREE Q54043 54 14
DTLRAENRQLSREE Q54047 54 14
DTLRAENRQLSREE Q54062 54 14
DTLRAENRQLSREE Q54064 54 14
SSPAMPROTEIN4 Length of motif = 9 Motif number = 4
Salmonella SPAM motif IV - 1
PCODE ST INT
RKQSIVRRQ SPAM_SALTY 73 5
RKQSIVRRQ Q54043 73 5
RKQSIVRRQ Q54047 73 5
RKQSIVRRQ Q54062 73 5
RKQSIVRRQ Q54064 73 5
SSPAMPROTEIN5 Length of motif = 12 Motif number = 5
Salmonella SPAM motif V - 1
PCODE ST INT
EKRSELEKKREE SPAM_SALTY 94 10
EKRSELEKKREE Q54043 94 10
EKRSELEKKREE Q54047 94 10
EKRDELEKKRQE Q54062 94 10
EKRYELEKKRQE Q54064 94 10
SSPAMPROTEIN6 Length of motif = 7 Motif number = 6
Salmonella SPAM motif VI - 1
PCODE ST INT
QKKSKYW SPAM_SALTY 107 1
QKKSKYW Q54043 107 1
QEKSKYW Q54047 107 1
QEKSKYW Q54062 107 1
QEKSKYW Q54064 107 1
SSPAMPROTEIN7 Length of motif = 9 Motif number = 7
Salmonella SPAM motif VII - 1
PCODE ST INT
RKEGNYQRW SPAM_SALTY 115 1
RKEGNYQRW Q54043 115 1
RKEGNYQRW Q54047 115 1
RKEGNYQRW Q54062 115 1
RKEGNYQRW Q54064 115 1
SSPAMPROTEIN8 Length of motif = 10 Motif number = 8
Salmonella SPAM motif VIII - 1
PCODE ST INT
IQQEEAESEE SPAM_SALTY 136 12
IQQEEAESEE Q54043 136 12
IQQEEAESEE Q54047 136 12
IQQEEAESEE Q54062 136 12
IQQEEAESEE Q54064 136 12
FINAL MOTIF SETS
SSPAMPROTEIN1 Length of motif = 13 Motif number = 1
Salmonella SPAM motif I - 2
PCODE ST INT
QRRCTVFHSQCES Q54045 11 11
QRRCTVFHSQCES Q54047 11 11
QRRCTVFHSQCES Q54058 11 11
QRRCTVFHSQCES Q54055 11 11
QRRCTVFHSQCES Q54064 11 11
QRRCTVFHSQCES Q54062 11 11
QRRCTVFHSQCES Q57080 11 11
QRRCTVFHSQCES Q54043 11 11
QRRCTVFHSQCES SPAM_SALTY 11 11
QRRCTVFHSQCES Q54049 11 11
QRRCTVFHSQCES Q54051 11 11
QRRCTVFHSQCES Q57351 11 11
SSPAMPROTEIN2 Length of motif = 13 Motif number = 2
Salmonella SPAM motif II - 2
PCODE ST INT
RYQDEDRRLQVEE Q54045 27 3
RYQDEDRRLQVEE Q54047 27 3
RYQDEDRRLQDEE Q54058 27 3
RYQDEDRRLQAEE Q54055 27 3
RYQDEDRRLQAEE Q54064 27 3
RYQDEDRRLQAEE Q54062 27 3
RYQDEDRRLQDEE Q57080 27 3
RYQDEDRGLQAEE Q54043 27 3
RYQDEDRGLQAEE SPAM_SALTY 27 3
RYQDEDRRLQAEE Q54049 27 3
RYQDEDRRLQAEE Q54051 27 3
RYQDEDRMLHAEE Q57351 27 3
SSPAMPROTEIN3 Length of motif = 14 Motif number = 3
Salmonella SPAM motif III - 2
PCODE ST INT
DTLRAENRQLSREE Q54045 54 14
DTLRAENRQLSREE Q54047 54 14
DTLRAENRQLSREE Q54058 54 14
DTLRAENRQLSREE Q54055 54 14
DTLRAENRQLSREE Q54064 54 14
DTLRAENRQLSREE Q54062 54 14
DTLRAENRQLSREE Q57080 54 14
DTLRAENRQLSREE Q54043 54 14
DTLRAENRQLSREE SPAM_SALTY 54 14
DTLRAEKRLLSREE Q54049 54 14
DTLRAEKRLLSREE Q54051 54 14
DTLRAENRQLSREE Q57351 54 14
SSPAMPROTEIN4 Length of motif = 9 Motif number = 4
Salmonella SPAM motif IV - 2
PCODE ST INT
RKQSIVRRQ Q54045 73 5
RKQSIVRRQ Q54047 73 5
RKQSIVRRQ Q54058 73 5
RKQSIVRRQ Q54055 73 5
RKQSIVRRQ Q54064 73 5
RKQSIVRRQ Q54062 73 5
RKQSIVRRQ Q57080 73 5
RKQSIVRRQ Q54043 73 5
RKQSIVRRQ SPAM_SALTY 73 5
RKQSIIRRQ Q54049 73 5
RKQSIIRRQ Q54051 73 5
RRQSIVRRQ Q57351 73 5
SSPAMPROTEIN5 Length of motif = 12 Motif number = 5
Salmonella SPAM motif V - 2
PCODE ST INT
EKRSELEKKREE Q54045 94 10
EKRSELEKKREE Q54047 94 10
EKRYELEKKREE Q54058 94 10
EQRDELEKKREE Q54055 94 10
EKRYELEKKRQE Q54064 94 10
EKRDELEKKRQE Q54062 94 10
EKRYELEKKREE Q57080 94 10
EKRSELEKKREE Q54043 94 10
EKRSELEKKREE SPAM_SALTY 94 10
EKRNELEKKREE Q54049 94 10
EKLNELEKKREE Q54051 94 10
EKRCELEKKTQE Q57351 94 10
SSPAMPROTEIN6 Length of motif = 7 Motif number = 6
Salmonella SPAM motif VI - 2
PCODE ST INT
QEKSKYW Q54045 107 1
QEKSKYW Q54047 107 1
QEKSKYW Q54058 107 1
QEKSKYW Q54055 107 1
QEKSKYW Q54064 107 1
QEKSKYW Q54062 107 1
QEKSKYW Q57080 107 1
QKKSKYW Q54043 107 1
QKKSKYW SPAM_SALTY 107 1
QEKSKYW Q54049 107 1
QEKSKYW Q54051 107 1
QEKSKYW Q57351 107 1
SSPAMPROTEIN7 Length of motif = 9 Motif number = 7
Salmonella SPAM motif VII - 2
PCODE ST INT
RKEGNYQRW Q54045 115 1
RKEGNYQRW Q54047 115 1
RKEGNYQRW Q54058 115 1
RKEGNYQRW Q54055 115 1
RKEGNYQRW Q54064 115 1
RKEGNYQRW Q54062 115 1
RKEGNYQRW Q57080 115 1
RKEGNYQRW Q54043 115 1
RKEGNYQRW SPAM_SALTY 115 1
RKEGNYQRW Q54049 115 1
RKEGNYQRW Q54051 115 1
RKEGNYQRW Q57351 115 1
SSPAMPROTEIN8 Length of motif = 10 Motif number = 8
Salmonella SPAM motif VIII - 2
PCODE ST INT
IQQEEAESEE Q54045 136 12
IQQEEAESEE Q54047 136 12
IQQEEAESEE Q54058 136 12
IQQEEAESEE Q54055 136 12
IQQEEAESEE Q54064 136 12
IQQEEAESEE Q54062 136 12
IQQEEAESEE Q57080 136 12
IQQEEAESEE Q54043 136 12
IQQEEAESEE SPAM_SALTY 136 12
IQQEEAESEE Q54049 136 12
IQQEEAESEE Q54051 136 12
IQQEEAESEE Q57351 136 12
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