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PR01005

Identifier
FLGHOOKAP1  [View Relations]  [View Alignment]  
Accession
PR01005
No. of Motifs
11
Creation Date
05-DEC-1998  (UPDATE 15-JUN-1999)
Title
Flagellar hook-associated protein signature
Database References

PROSITE; PS00588 FLAGELLA_BB_ROD
BLOCKS; BL00588
PFAM; PF00460 flg_bb_rod
INTERPRO; IPR002371
Literature References
1. HOMMA, M., DEROSIER, D.J. AND MACNAB, R.M.
Flagellar hook and hook-associated proteins of Salmonella typhimurium and 
their relationship to other axial components of the flagellum.
J.MOL.BIOL. 213 819-832 (1990). 

Documentation
Within the bacterial flagellum, the basal-body rod, the hook, the hook-
associated proteins (HAPs), and the helical filament together constitute an 
axial substructure whose elements share structural features and a common
export pathway [1]. The amino acid sequences of the hook protein and of the 
three HAPs of Salmonella typhimurium have been deduced from the DNA 
sequences of their structural genes (flgE, flgK, flgL and fliD respectively)
[1]. These sequences have been compared with each other and with those for 
the filament protein (flagellin) and four rod proteins [1]. The hook protein
was found to be most similar to the distal rod protein (FlgG) and the
proximal HAP (HAP1), which are thought to be attached to the proximal and
distal ends of the hook, the similarities being most pronounced near the N-
and C-termini [1].
 
It is thought that the axial proteins may adopt amphipathic alpha-helical
conformations at their N- and C-termini. These regions of the filament and
hook are believed to be responsible for quaternary interactions between
subunits [1]. Interaction between N- and C-terminal alpha-helices may be
important in the formation of the axial structures of the flagellum [1].
Although consensus sequences have been noted, no consensus extends to the
entire set of axial proteins. Thus the basis for recognition of a protein
for export by the flagellum-specific pathway remains to be identified [1]. 
 
FLGHOOKAP1 is an 11-element fingerprint that provides a signature for
flagellar hook-associated protein 1. The fingerprint was derived from an
initial alignment of 2 sequences: the motifs were drawn from conserved
regions spanning the full alignment length - motif 1 spans the N-terminal
asparagine-rich domain encoded by PROSITE pattern FLAGELLA_BB_ROD (PS00588),
a region that characterises flagellar basal body rod proteins. A single
iteration on OWL30.2 was required to reach convergence, no further sequences
being identified beyond the starting set.
 
An update on SPTR37_9f identified a true set of 2 sequences, and 5
partial matches.
Summary Information
   2 codes involving 11 elements
0 codes involving 10 elements
0 codes involving 9 elements
0 codes involving 8 elements
0 codes involving 7 elements
0 codes involving 6 elements
0 codes involving 5 elements
0 codes involving 4 elements
1 codes involving 3 elements
4 codes involving 2 elements
Composite Feature Index
1122222222222
1000000000000
900000000000
800000000000
700000000000
600000000000
500000000000
400000000000
310000000011
230110000003
1234567891011
True Positives
FLGK_ECOLI    FLGK_SALTY    
True Positive Partials
Codes involving 3 elements
O30856
Codes involving 2 elements
FLGK_BORBU O25744 O26104 Q56710
Sequence Titles
FLGK_ECOLI  FLAGELLAR HOOK-ASSOCIATED PROTEIN 1 (HAP1) - ESCHERICHIA COLI. 
FLGK_SALTY FLAGELLAR HOOK-ASSOCIATED PROTEIN 1 (HAP1) - SALMONELLA TYPHIMURIUM.

O30856 HOOK ASSOCIATED PROTEIN - VIBRIO CHOLERAE.

FLGK_BORBU FLAGELLAR HOOK-ASSOCIATED PROTEIN 1 (HAP1) - BORRELIA BURGDORFERI (LYME DISEASE SPIROCHETE).
O25744 FLAGELLAR HOOK-ASSOCIATED PROTEIN 1 (HAP1) (FLGK) - HELICOBACTER PYLORI (CAMPYLOBACTER PYLORI).
O26104 FLAGELLAR BASAL-BODY ROD PROTEIN (FLGG) - HELICOBACTER PYLORI (CAMPYLOBACTER PYLORI).
Q56710 HOOK-ASSOCIATED PROTEIN TYPE 1 - VIBRIO PARAHAEMOLYTICUS.
Scan History
OWL30_2    1  100  NSINGLE    
SPTR37_9f 2 50 NSINGLE
Initial Motifs
Motif 1  width=24
Element Seqn Id St Int Rpt
GLNAAQAALNTASNNISSYNVAGY FLGK_ECOLI 10 10 -
GLNAAQAALNTVSNNINNYNVAGY FLGK_SALTY 10 10 -

Motif 2 width=23
Element Seqn Id St Int Rpt
GAGGWVGNGVYVSGVQREYDAFI FLGK_ECOLI 48 14 -
GAGGWIGNGVYVSGVQREYDAFI FLGK_SALTY 48 14 -

Motif 3 width=21
Element Seqn Id St Int Rpt
NAEDPAARQALIGKSEGLVNQ FLGK_ECOLI 122 51 -
NAEDPAARQALIGKAEGLVNQ FLGK_SALTY 122 51 -

Motif 4 width=25
Element Seqn Id St Int Rpt
KQVNIAIGASVDQINNYAKQIASLN FLGK_ECOLI 155 12 -
KQVNIAIGSSVAQINNYAKQIANLN FLGK_SALTY 155 12 -

Motif 5 width=19
Element Seqn Id St Int Rpt
EVSVQDGGTYNITMANGYS FLGK_ECOLI 215 35 -
EVSVQDGGTYNLTMANGYT FLGK_SALTY 215 35 -

Motif 6 width=23
Element Seqn Id St Int Rpt
YVDGTAGNIEIPEKLLNTGSLGG FLGK_ECOLI 259 25 -
YVDEAAGNIEIPEKLLNTGSLGG FLGK_SALTY 259 25 -

Motif 7 width=23
Element Seqn Id St Int Rpt
TDYKISFDNNQWQVTRLASNTTF FLGK_ECOLI 359 77 -
TDYKIVFDGTDWQVTRTADNTTF FLGK_SALTY 360 78 -

Motif 8 width=18
Element Seqn Id St Int Rpt
NDSFTLKPVSDAIVNMDV FLGK_ECOLI 407 25 -
NDSFLLKPVSNAIVDMNV FLGK_SALTY 408 25 -

Motif 9 width=20
Element Seqn Id St Int Rpt
DAGDSDNRNGQALLDLQSNS FLGK_ECOLI 439 14 -
DTGDSDNRNGQALLDLQNSN FLGK_SALTY 446 20 -

Motif 10 width=22
Element Seqn Id St Int Rpt
KSFNDAYASLVSDIGNKTATLK FLGK_ECOLI 465 6 -
KTFNDAYATLVSDVGNKTSTLK FLGK_SALTY 471 5 -

Motif 11 width=25
Element Seqn Id St Int Rpt
DEEYGNLQRFQQYYLANAQVLQTAN FLGK_ECOLI 512 25 -
DEEYGNLQRYQQYYLANAQVLQTAN FLGK_SALTY 518 25 -
Final Motifs
Motif 1  width=24
Element Seqn Id St Int Rpt
GLNAAQAALNTASNNISSYNVAGY FLGK_ECOLI 10 10 -
GLNAAQAALNTVSNNINNYNVAGY FLGK_SALTY 10 10 -

Motif 2 width=23
Element Seqn Id St Int Rpt
GAGGWVGNGVYVSGVQREYDAFI FLGK_ECOLI 48 14 -
GAGGWIGNGVYVSGVQREYDAFI FLGK_SALTY 48 14 -

Motif 3 width=21
Element Seqn Id St Int Rpt
NAEDPAARQALIGKSEGLVNQ FLGK_ECOLI 122 51 -
NAEDPAARQALIGKAEGLVNQ FLGK_SALTY 122 51 -

Motif 4 width=25
Element Seqn Id St Int Rpt
KQVNIAIGASVDQINNYAKQIASLN FLGK_ECOLI 155 12 -
KQVNIAIGSSVAQINNYAKQIANLN FLGK_SALTY 155 12 -

Motif 5 width=19
Element Seqn Id St Int Rpt
EVSVQDGGTYNITMANGYS FLGK_ECOLI 215 35 -
EVSVQDGGTYNLTMANGYT FLGK_SALTY 215 35 -

Motif 6 width=23
Element Seqn Id St Int Rpt
YVDGTAGNIEIPEKLLNTGSLGG FLGK_ECOLI 259 25 -
YVDEAAGNIEIPEKLLNTGSLGG FLGK_SALTY 259 25 -

Motif 7 width=23
Element Seqn Id St Int Rpt
TDYKISFDNNQWQVTRLASNTTF FLGK_ECOLI 359 77 -
TDYKIVFDGTDWQVTRTADNTTF FLGK_SALTY 360 78 -

Motif 8 width=18
Element Seqn Id St Int Rpt
NDSFTLKPVSDAIVNMDV FLGK_ECOLI 407 25 -
NDSFLLKPVSNAIVDMNV FLGK_SALTY 408 25 -

Motif 9 width=20
Element Seqn Id St Int Rpt
DAGDSDNRNGQALLDLQSNS FLGK_ECOLI 439 14 -
DTGDSDNRNGQALLDLQNSN FLGK_SALTY 446 20 -

Motif 10 width=22
Element Seqn Id St Int Rpt
KSFNDAYASLVSDIGNKTATLK FLGK_ECOLI 465 6 -
KTFNDAYATLVSDVGNKTSTLK FLGK_SALTY 471 5 -

Motif 11 width=25
Element Seqn Id St Int Rpt
DEEYGNLQRFQQYYLANAQVLQTAN FLGK_ECOLI 512 25 -
DEEYGNLQRYQQYYLANAQVLQTAN FLGK_SALTY 518 25 -