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PR01468

Identifier
BICOMPNTOXIN  [View Relations]  [View Alignment]  
Accession
PR01468
No. of Motifs
3
Creation Date
16-MAR-2001
Title
Staphylococcal bi-component toxin signature
Database References

PDB; 1LKF
SCOP; 1LKF
CATH; 1LKF
Literature References
1. KONIG, B., PREVOST, G. AND KONIG, W.
Composition of staphylococcal bi-component toxins determines 
pathophysiological reactions.
J.MED.MICROBIOL. 46 479-485 (1997).
 
2. FERRERAS, M., HOPER, F., DALLA SERRA, M., COLIN, C.A., PREVOST, G.
AND MENESTRINA, G.
The interaction of Staphylococcus aureus bi-component gamma-hemolysins and 
leucocidins with cells and lipid membranes.
BIOCHIM.BIOPHYS.ACTA 1414 108-126 (1998).
 
3. OLSON, R., NARIYA, H., YOKOTA, K., KAMIO, Y. AND GOUAUX, E.
Crystal structure of Staphylococcal Lukf delineates conformational changes 
accompanying formation of a transmembrane channel.
NAT.STRUCT.BIOL. 6 134-140 (1999).
 
4. PEDELACQ, J.D., MAVEYRAUD, L., PREVOST, G., BABA-MOUSSA, L., GONZALEZ, 
A., COURCELLE, E., SHEPARD, W., MONTEIL, H., SAMAMA, J.P. AND MOUREY, L.
The structure of a Staphylococcus aureus leucocidin component (LukF-PV)
reveals the fold of the water-soluble species of a family of transmembrane 
pore-forming toxins.
STRUCTURE 7 277-287 (1999).

Documentation
Staphylococcus aureus is a Gram-positive coccus that grows in clusters or
pairs, and is the major cause of nosocomial infections due to its multiple 
antibiotic resistant nature [1]. Patients who are immunocompromised (e.g., 
those suffering from third degree burns or chronic illness) are at risk 
from deep staphylococcal infections, such as osteomyelitis and pneumonia.
Most skin infections are also caused by this bacterium [1].
 
Many virulence mechanisms are employed by Staphylococci to induce 
pathogenesis: these can include polysaccharide capsules and exotoxins [1].
Examples of the latter are bi-component toxins, which involve the
synergistic combination of an "S" and an "F" component [2]. These undergo 
conformational changes in their protein structure and form oligomeric pores
in the target cell membrane upon recognition of certain host receptors. The
main cells targeted are polymorphonuclear cells, monocytes, erythrocytes 
and macrophages. Examples of this protein family include: leucocidin, gamma-
hemolysin and alpha-hemolysin.
 
Recently, the crystal structure of the Staphylococcus aureus leucocidin "F" 
component (LukF) has been determined to 1.9A resolution [3]. This structure,
which comprises a central 3-strand beta-sheet, with an N-terminal "latch",
clarified the mechanism of virulence in the bi-component toxin. Further work
using a different form of the leucocidin (LukF-PV) has suggested that it may
be a representative fold for water-soluble transmembrane toxins [4].
 
BICOMPNTOXIN is a 3-element fingerprint that provides a signature for the
Staphylococcal bi-component toxin family. The fingerprint was derived from
an initial alignment of 3 sequences: the motifs were drawn from conserved
regions spanning the full alignment length (~250 amino acids) - motif 1
spans the C-terminus of beta-strand 4 and the N-terminus of strand 5 of the
LukF structure; motif 2 encodes the C-terminus of strand 7 and the whole of
strand 8; and motif 3 spans strands 13 and 14. Two iterations on SPTR37_10f
were required to reach convergence, at which point a true set comprising 24
sequences was identified. 
Summary Information
24 codes involving  3 elements
0 codes involving 2 elements
Composite Feature Index
3242424
2000
123
True Positives
HLA_STAAU     LUKF_STAAU    LUKS_STAAU    O50603        
O50604 O54081 O54082 O80066
O80067 Q07225 Q07226 Q07227
Q53689 Q53690 Q53691 Q53701
Q53703 Q53704 Q53731 Q53746
Q53747 Q54326 Q54327 Q57227
Sequence Titles
HLA_STAAU   ALPHA-HEMOLYSIN PRECURSOR (ALPHA-TOXIN) (ALPHA-HL) - Staphylococcus aureus. 
LUKF_STAAU LEUKOCIDIN F SUBUNIT PRECURSOR (GAMMA-HEMOLYSIN, H-GAMMA-I SUBUNIT) - Staphylococcus aureus.
LUKS_STAAU LEUKOCIDIN S SUBUNIT PRECURSOR - Staphylococcus aureus.
O50603 LUKS-PV - Staphylococcus aureus.
O50604 LUKF-PV - Staphylococcus aureus.
O54081 LEUKOTOXIN LUKE PRECURSOR - Staphylococcus aureus.
O54082 LEUKOTOXIN, LUKD PRECURSOR - Staphylococcus aureus.
O80066 LUKS-PV - bacteriophage phi PVL.
O80067 LUKF-PV - bacteriophage phi PVL.
Q07225 GAMMA-HEMOLYSIN H-GAMMA-I SUBUNIT A PRECURSOR - Staphylococcus aureus.
Q07226 GAMMA-HEMOLYSIN H-GAMMA-I SUBUNIT B PRECURSOR - Staphylococcus aureus.
Q07227 GAMMA-HEMOLYSIN H-GAMMA-I SUBUNIT C PRECURSOR - Staphylococcus aureus.
Q53689 GAMMA-HEMOLYSIN PRECURSOR - Staphylococcus aureus.
Q53690 HLGA-LIKE ORF PRECURSOR - Staphylococcus aureus.
Q53691 HLGC-LIKE ORF PRECURSOR - Staphylococcus aureus.
Q53701 S COMPONENT OF LEUCOCODIN R PRECURSOR - Staphylococcus aureus.
Q53703 LUKM COMPONENT - Staphylococcus aureus.
Q53704 LUKF-PV LIKE COMPONENT - Staphylococcus aureus.
Q53731 PRELUKM PRECURSOR - Staphylococcus aureus.
Q53746 GENES FOR S AND F COMPONENTS OF PANTON-VALENTINE LEUCOCIDINS PRECURSOR - Staphylococcus aureus.
Q53747 LEUCOCIDIN F PRECURSOR - Staphylococcus aureus.
Q54326 SYNERGOHYMENOTROPIC TOXIN - Staphylococcus intermedius.
Q54327 SYNERGOHYMENOTROPIC TOXIN - Staphylococcus intermedius.
Q57227 HLGB-LIKE ORF PRECURSOR - Staphylococcus aureus.
Scan History
SPTR39_14f 2  50   NSINGLE    
Initial Motifs
Motif 1  width=20
Element Seqn Id St Int Rpt
FDFVKDTKYNKDALILKMQG LUKS_STAAU 64 64 -
FNFIKDKSYDKDTLVLKATG LUKF_STAAU 64 64 -
YSFIDDKNHNKKLLVIRTKG HLA_STAAU 66 66 -

Motif 2 width=22
Element Seqn Id St Int Rpt
YLPKNKIESTNVSQTLGYNIGG LUKS_STAAU 125 41 -
YAPKNQNEEFQVQNTLGYTFGG LUKF_STAAU 125 41 -
YYPRNSIDTKEYMSTLTYGFNG HLA_STAAU 127 41 -

Motif 3 width=18
Element Seqn Id St Int Rpt
SGFNPSFIATVSHEKGSS LUKS_STAAU 235 88 -
SNFNPRFLSVLSHRQDAA LUKF_STAAU 243 96 -
SGFSPDFATVITMDRKAS HLA_STAAU 248 99 -
Final Motifs
Motif 1  width=20
Element Seqn Id St Int Rpt
FDFVKDKKYNKDALILKMQG Q07227 64 64 -
FDFVKDKKYNKDALILKMQG Q53701 64 64 -
FDFVKDKKYNKDALILKMQG O50603 61 61 -
FDFVKDKKYNKDALILKMQG Q53746 61 61 -
FDFVKDKKYNKDALILKMQG O80066 61 61 -
FDFVKDTKYNKDALILKMQG LUKS_STAAU 64 64 -
FDFVKDKKYNKDALIIKMQG Q53703 61 61 -
FDFVKDKKYNKDALIIKMQG Q53731 61 61 -
FGFVKDKKYNKVALILKMQG Q53691 64 64 -
FDFVKDKKYNKDALVVKMQG Q53689 62 62 -
FDFVKDKKYNKDALVVKMQG Q53690 74 74 -
FDFVKDPKYNKDALIIKMQG Q54326 62 62 -
FDFVKDKKYNKDALVVKMQG Q07225 62 62 -
FDFVKDKKYNKDALIVKMQG O54081 61 61 -
FNFIKDKSYDKDTLILKAAG Q53704 64 64 -
FNFIKDKSYDKDTLVLKAAG O54082 64 64 -
FNFIKDKSYDKDTLVLKAAG Q57227 64 64 -
FNFIKDKSYDKDTLVLKATG Q07226 64 64 -
FNFIKDKSYDKDTLVLKATG LUKF_STAAU 64 64 -
FNFIKDKSYDKDTLILKAAG O50604 62 62 -
FNFIKDKSYDKDTLILKAAG Q53747 62 62 -
FNFIKDKSYDKDTLILKAAG O80067 62 62 -
FNFIKDKSYDKDTLVLKAAG Q54327 64 64 -
YSFIDDKNHNKKLLVIRTKG HLA_STAAU 66 66 -

Motif 2 width=22
Element Seqn Id St Int Rpt
YLPKNKIESTNVSQTLGYNIGG Q07227 125 41 -
YLPKNKIESTNVSQTLGYNIGG Q53701 125 41 -
YLPKNKIDSVNVSQTLGYNIGG O50603 122 41 -
YLPKNKIDSVNVSQTLGYNIGG Q53746 122 41 -
YLPKNKIDSVNVSQTLGYNIGG O80066 122 41 -
YLPKNKIESTNVSQTLGYNIGG LUKS_STAAU 125 41 -
YLPKNKIETVDVGQTLGYNIGG Q53703 122 41 -
YLPKNKIETVDVGQTLGYNIGG Q53731 122 41 -
YLPKNKIESTNVSQTLGYNIGG Q53691 125 41 -
YLPKNKIDSADVSQKLGYNIGG Q53689 123 41 -
YLPKNKIDSADVSQKLGYNIGG Q53690 135 41 -
YLPKNKIESIDVSQTLGYNVGG Q54326 125 43 -
YLPKNKIDSADVSQKLGYNIGG Q07225 123 41 -
TLPKTKIETTDVGQTLGYNIGG O54081 126 45 -
YAPKNQNEEFQVQQTLGYSYGG Q53704 125 41 -
YAPKNQNEEFQVQQTLGYSYGG O54082 125 41 -
YAPKNQNEEFQVQNTLGYTFGG Q57227 125 41 -
YAPKNQNEEFQVQNTLGYTFGG Q07226 125 41 -
YAPKNQNEEFQVQNTLGYTFGG LUKF_STAAU 125 41 -
YAPKNQNEEFQVQQTVGYSYGG O50604 123 41 -
YAPKNQNEEFQVQQTVGYSYGG Q53747 123 41 -
YAPKNQNEEFQVQQTVGYSYGG O80067 123 41 -
YAPKNQNEEFQVQNTLGYSFGG Q54327 125 41 -
YYPRNSIDTKEYMSTLTYGFNG HLA_STAAU 127 41 -

Motif 3 width=18
Element Seqn Id St Int Rpt
SGFNPSFIATVSHEKGSS Q07227 235 88 -
SGFNPSFIATVSHEKGSS Q53701 235 88 -
SGFNPSFIATVSHEKGSG O50603 232 88 -
SGFNPSFIATVSHEKGSG Q53746 232 88 -
SGFNPSFIATVSHEKGSG O80066 232 88 -
SGFNPSFIATVSHEKGSS LUKS_STAAU 235 88 -
SGFNPSFIATVSHEKDSG Q53703 232 88 -
SGFNPSFIATVSHEKDSG Q53731 232 88 -
SGFNPSFIATVSHEKGSS Q53691 235 88 -
SGFNPSFITTLSHEKGKG Q53689 232 87 -
SGFNPSFITTLSHEKGKG Q53690 244 87 -
SGFNPSFIATVSHEKDKG Q54326 234 87 -
SGFNPSFITTLSHERGKG Q07225 232 87 -
SGFNPSFITTLSHEKGSK O54081 237 89 -
GNFNPEFISVLSHKQKDV Q53704 245 98 -
GNFNPEFISVLSHKLFDT O54082 245 98 -
SNFNPEFLSVLSHRQDGA Q57227 245 98 -
SNFNPEFLSVLSHRQDGA Q07226 245 98 -
SNFNPRFLSVLSHRQDAA LUKF_STAAU 243 96 -
GNFNPEFIGVLSRKQNAA O50604 243 98 -
GNFNPEFIGVLSRKQNAA Q53747 243 98 -
GNFNPEFIGVLSRKQNAA O80067 243 98 -
GNFNPEFLSVLSHKPNGA Q54327 245 98 -
SGFSPDFATVITMDRKAS HLA_STAAU 248 99 -