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PR00956

Identifier
FLGMOTORFLIN  [View Relations]  [View Alignment]  
Accession
PR00956
No. of Motifs
4
Creation Date
17-AUG-1998  (UPDATE 15-JUN-1999)
Title
Flagellar motor switch protein FliN signature
Database References

INTERPRO; IPR001172
Literature References
1. ROMAN, S.J., FRANTZ, B.B. AND MATSUMURA, P.
Gene sequence, overproduction, purification and determination of the
wild-type level of the Escherichia coli flagellar switch protein FliG. 
GENE 133 103-108 (1993). 
 
2. MARYKWAS, D.L. AND BERG, H.C.
A mutational analysis of the interaction between FliG and FliM, two
components of the flagellar motor of Escherichia coli. 
J.BACTERIOL. 178 1289-1294 (1996). 
 
3. KIHARA, M., HOMMA, M., KUTSUKAKE, K. AND MACNAB, R.M.
Flagellar switch of Salmonella typhimurium: gene sequences and deduced 
protein sequences. 
J.BACTERIOL. 171 3247-3257 (1989). 
 
4. FRANCIS, N.R., IRIKURA, V.M., YAMAGUCHI, S., DEROSIER, D.J.
AND MACNAB, R.M.
Localization of the Salmonella typhimurium flagellar switch protein FliG to
the cytoplasmic M-ring face of the basal body. 
PROC.NATL.ACAD.SCI.U.S.A. 89 6304-6308 (1992). 

Documentation
The flagellar motor switch in E.coli and S.typhimurium regulates the 
direction of flagellar rotation and hence controls swimming behaviour [1].
The switch is a complex apparatus that responds to signals transduced by the
chemotaxis sensory signalling system during chemotactic behaviour [1]. CheY,
the chemotaxis response regulator, is believed to act directly on the switch
to induce tumbles in the swimming pattern, but no physical interactions of 
CheY and switch proteins have yet been demonstrated. 
 
The switch complex comprises at least three proteins - FliG, FliM and FliN.
It has been shown that FliG interacts with FliM, FliM interacts with itself,
and FliM interacts with FliN [2]. Several residues within the middle third
of FliG appear to be strongly involved in the FliG-FliM interaction, with
residues near the N- or C-termini being less important [2]. Such clustering
suggests that FliG-FliM interaction plays a central role in switching. 
 
Analysis of the FliG, FliM and FliN sequences shows that none are especially
hydrophobic or appear to be integral membrane proteins [3]. This result is
consistent with other evidence suggesting that the proteins may be 
peripheral to the membrane, possibly mounted on the basal body M ring [3,4]. 
 
FLGMOTORFLIN is a 4-element fingerprint that provides a signature for
flagellar motor switch FliN proteins. The fingerprint was derived from
an initial alignment of 11 sequences: the motifs were drawn from short
conserved regions spanning the C-terminal portion of the alignment. Two 
iterations on OWL30.2 were required to reach convergence, at which point 
a true set comprising 13 sequences was identified. Several partial matches 
were also found, all of which are FliN homologues that fail to match one or
more motifs.    
 
An update on SPTR37_9f identified a true set of 16 sequences, and 2
partial matches.
Summary Information
16 codes involving  4 elements
0 codes involving 3 elements
0 codes involving 2 elements
Composite Feature Index
416161616
30000
20000
1234
True Positives
FLIN_AGRTU    FLIN_BORBU    FLIN_CAUCR    FLIN_ECOLI    
FLIN_PSEAE FLIN_SALTY FLIY_BACSU O25306
O25674 O32370 O33577 O54245
O67495 P72274 P74928 Y4YK_RHISN
Sequence Titles
FLIN_AGRTU  FLAGELLAR MOTOR SWITCH PROTEIN FLIN - AGROBACTERIUM TUMEFACIENS. 
FLIN_BORBU FLAGELLAR MOTOR SWITCH PROTEIN FLIN - BORRELIA BURGDORFERI (LYME DISEASE SPIROCHETE).
FLIN_CAUCR FLAGELLAR MOTOR SWITCH PROTEIN FLIN - CAULOBACTER CRESCENTUS.
FLIN_ECOLI FLAGELLAR MOTOR SWITCH PROTEIN FLIN - ESCHERICHIA COLI.
FLIN_PSEAE FLAGELLAR MOTOR SWITCH PROTEIN FLIN - PSEUDOMONAS AERUGINOSA.
FLIN_SALTY FLAGELLAR MOTOR SWITCH PROTEIN FLIN - SALMONELLA TYPHIMURIUM.
FLIY_BACSU FLAGELLAR MOTOR SWITCH PROTEIN FLIY - BACILLUS SUBTILIS.
O25306 FLAGELLAR SWITCH PROTEIN (FLIN) - HELICOBACTER PYLORI (CAMPYLOBACTER PYLORI).
O25674 FLIY PROTEIN (FLIY) - HELICOBACTER PYLORI (CAMPYLOBACTER PYLORI).
O32370 FLAGELLAR SWITCH PROTEIN - CAMPYLOBACTER JEJUNI.
O33577 FLAGELLAR SWITCH PROTEIN - RHODOBACTER SPHAEROIDES (RHODOPSEUDOMONAS SPHAEROIDES).
O54245 FLAGELLAR C-RING PROTEIN - SINORHIZOBIUM MELILOTI.
O67495 FLAGELLAR SWITCH PROTEIN FLIN - AQUIFEX AEOLICUS.
P72274 NODULATION PROTEIN (NOLX, NOLW, NOLB, NOLT, NOLU, NOLV), PUTATIVE ATPASE (HRCN), HRCQ, HRCR, HRCS, HRCT GENES, COMPLETE CDS AND HRCU (HRCN) - RHIZOBIUM FREDII.
P74928 FLIY - TREPONEMA PALLIDUM.
Y4YK_RHISN PROBABLE TRANSLOCATION PROTEIN Y4YK - RHIZOBIUM SP. (STRAIN NGR234).
Scan History
OWL30_2    2  100  NSINGLE    
SPTR37_9f 4 50 NSINGLE
Initial Motifs
Motif 1  width=17
Element Seqn Id St Int Rpt
LLMDVSMQLTVELGRTE FLIN_BORBU 38 38 -
VILDIPVTISMEVGHTD FLIN_PSEAE 77 77 -
MLLDIPLSITVELGRTK FLIY_BACSU 298 298 -
LIMDIPVKLTVELGRTR FLIN_ECOLI 56 56 -
LIMDIPVKLTVELGRTR FLIN_SALTY 56 56 -
LIMDVFMEVTVELGRTR JC4505 269 269 -
LIMDIPIDVQIVLGTSR SMAJ44457 121 121 -
DILDITVDFVSELGTTN CJFLIN 19 19 -
MIMDIPIDVQIVLGTSR S21380 101 101 -
LLENIGVRLTVEVGRTE RSY143351 73 73 -
PVFDVPVNISAVLGRAN FLIN_CAUCR 34 34 -

Motif 2 width=17
Element Seqn Id St Int Rpt
MMIKDILGMGEGHIIEL JC4505 286 0 -
MQVSGLMALTEGATIAL SMAJ44457 138 0 -
MSVAELLKLEVGSVIDL CJFLIN 36 0 -
MLVSGLMSLEEGATIAL S21380 118 0 -
MTIRDLLRLSEGSVVEL RSY143351 90 0 -
MTIKELLRLTQGSVVAL FLIN_SALTY 73 0 -
MTIKELLRLTQGSVVAL FLIN_ECOLI 73 0 -
RSVKEILELSAGSIIEL FLIY_BACSU 315 0 -
ISIRNLLQLNQGSVIEL FLIN_PSEAE 94 0 -
RKIKDILGMSEGTIITL FLIN_BORBU 55 0 -
MSVAQLLQLGQGSILEL FLIN_CAUCR 51 0 -

Motif 3 width=14
Element Seqn Id St Int Rpt
LDRLAGDPLDVLVN RSY143351 106 -1 -
LEKPAGESVELYIN CJFLIN 52 -1 -
LDRKIGEPVEIMVN SMAJ44457 154 -1 -
LDKLAGEPVDILVN JC4505 302 -1 -
LDGLAGEPLDILIN FLIN_SALTY 89 -1 -
LDGLAGEPLDILIN FLIN_ECOLI 89 -1 -
LDKLAGEPVDILVN FLIY_BACSU 331 -1 -
LDRLAGEPLDVLVN FLIN_PSEAE 110 -1 -
LDKLAGEPVDILVN FLIN_BORBU 71 -1 -
LDRKVGEAIDIYVN FLIN_CAUCR 67 -1 -
LDRKIGEPVEIMVN S21380 134 -1 -

Motif 4 width=16
Element Seqn Id St Int Rpt
NGRVIGRGEITVLEGD SMAJ44457 167 -1 -
NKRIFGKGEVMVYEKN CJFLIN 65 -1 -
NGRRIARGEITVLEDD S21380 147 -1 -
NGTPIAKGEVVMVGER RSY143351 119 -1 -
NGYLIAQGEVVVVADK FLIN_SALTY 102 -1 -
NGYLIAQGEVVVVADK FLIN_ECOLI 102 -1 -
NQRIVAKGEVVVIEEN FLIY_BACSU 344 -1 -
NGTLIAHGEVVVVNEK FLIN_PSEAE 123 -1 -
NGKIVAKGEVVVIDEN FLIN_BORBU 84 -1 -
NNRLVARGEVVVVDER FLIN_CAUCR 80 -1 -
NHKLIAKGEVVVIDEN JC4505 315 -1 -
Final Motifs
Motif 1  width=17
Element Seqn Id St Int Rpt
LIMDIPVKLTVELGRTR FLIN_SALTY 56 56 -
LIMDIPVKLTVELGRTR FLIN_ECOLI 56 56 -
MLLDIPLSITVELGRTK FLIY_BACSU 298 298 -
LIMDVFMEVTVELGRTR P74928 269 269 -
VILDIPVTISMEVGHTD FLIN_PSEAE 77 77 -
LLMDVSMQLTVELGRTE FLIN_BORBU 38 38 -
LLENIGVRLTVEVGRTE O33577 73 73 -
MIMDIPIDVQIVLGTSR FLIN_AGRTU 101 101 -
PVFDVPVNISAVLGRAN FLIN_CAUCR 34 34 -
LIMDIPIDVQIVLGTSR O54245 121 121 -
DILDITVDFVSELGTTN O32370 19 19 -
NLLDMEIVFSAELGSTQ O25306 40 40 -
HFSDIPVEVEVVVGRAN O67495 38 38 -
DLDDIEIVLVFECGRWP Y4YK_RHISN 284 284 -
DLDDIEIVLVFECGRWP P72274 308 308 -
MLLDVKLNVKVRIGQKK O25674 206 206 -

Motif 2 width=17
Element Seqn Id St Int Rpt
MTIKELLRLTQGSVVAL FLIN_SALTY 73 0 -
MTIKELLRLTQGSVVAL FLIN_ECOLI 73 0 -
RSVKEILELSAGSIIEL FLIY_BACSU 315 0 -
MMIKDILGMGEGHIIEL P74928 286 0 -
ISIRNLLQLNQGSVIEL FLIN_PSEAE 94 0 -
RKIKDILGMSEGTIITL FLIN_BORBU 55 0 -
MTIRDLLRLSEGSVVEL O33577 90 0 -
MLVSGLMSLEEGATIAL FLIN_AGRTU 118 0 -
MSVAQLLQLGQGSILEL FLIN_CAUCR 51 0 -
MQVSGLMALTEGATIAL O54245 138 0 -
MSVAELLKLEVGSVIDL O32370 36 0 -
IPLLQILRFEKGSVIDL O25306 57 0 -
KTLGELLAMGIGSVIEI O67495 55 0 -
ISLGELRSAGDGHVFEL Y4YK_RHISN 301 0 -
ISLGDLRSAGDGHVFEL P72274 325 0 -
MILKDVVSMDIGSVVEL O25674 223 0 -

Motif 3 width=14
Element Seqn Id St Int Rpt
LDGLAGEPLDILIN FLIN_SALTY 89 -1 -
LDGLAGEPLDILIN FLIN_ECOLI 89 -1 -
LDKLAGEPVDILVN FLIY_BACSU 331 -1 -
LDKLAGEPVDILVN P74928 302 -1 -
LDRLAGEPLDVLVN FLIN_PSEAE 110 -1 -
LDKLAGEPVDILVN FLIN_BORBU 71 -1 -
LDRLAGDPLDVLVN O33577 106 -1 -
LDRKIGEPVEIMVN FLIN_AGRTU 134 -1 -
LDRKVGEAIDIYVN FLIN_CAUCR 67 -1 -
LDRKIGEPVEIMVN O54245 154 -1 -
LEKPAGESVELYIN O32370 52 -1 -
LQKPAGESVDTFVN O25306 73 -1 -
IDREPKDLVDIKVN O67495 71 -1 -
LGRPIDGLVDIVAN Y4YK_RHISN 317 -1 -
LGRPIDGLVDIVAN P72274 341 -1 -
LDQLVNDPLEILVD O25674 239 -1 -

Motif 4 width=16
Element Seqn Id St Int Rpt
NGYLIAQGEVVVVADK FLIN_SALTY 102 -1 -
NGYLIAQGEVVVVADK FLIN_ECOLI 102 -1 -
NQRIVAKGEVVVIEEN FLIY_BACSU 344 -1 -
NHKLIAKGEVVVIDEN P74928 315 -1 -
NGTLIAHGEVVVVNEK FLIN_PSEAE 123 -1 -
NGKIVAKGEVVVIDEN FLIN_BORBU 84 -1 -
NGTPIAKGEVVMVGER O33577 119 -1 -
NGRRIARGEITVLEDD FLIN_AGRTU 147 -1 -
NNRLVARGEVVVVDER FLIN_CAUCR 80 -1 -
NGRVIGRGEITVLEGD O54245 167 -1 -
NKRIFGKGEVMVYEKN O32370 65 -1 -
NGRVIGKGEVMVFERN O25306 86 -1 -
NGKLIAKGELVIIDGK O67495 84 -1 -
NGRCIGRGDIVRIGDD Y4YK_RHISN 330 -1 -
NGRCIGRGDIVRIGDE P72274 354 -1 -
DDKVIAKGEVVIVDGN O25674 252 -1 -