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PR01009

Identifier
FLGMRINGFLIF  [View Relations]  [View Alignment]  
Accession
PR01009
No. of Motifs
5
Creation Date
26-NOV-1998  (UPDATE 15-JUN-1999)
Title
Flagellar M-ring protein signature
Database References

INTERPRO; IPR000067
Literature References
1. JONES, C.J., HOMMA, M. AND MACNAB, R.M.
L-, P-, and M-ring proteins of the flagellar basal body of Salmonella
typhimurium: gene sequences and deduced protein sequences.
J.BACTERIOL. 171 3890-3900 (1989).
 
2. HOMMA, M., KUTSUKAKE, K., HASEBE, M., IINO, T. AND MACNAB, R.M.
FlgB, FlgC, FlgF and FlgG. A family of structurally related proteins in 
the flagellar basal body of Salmonella typhimurium.
J.MOL.BIOL. 211 465-477 (1990). 
 
3.HOMMA, M., KOMEDA, Y., IINO, T. AND MACNAB, R.M. 
The flaFIX gene product of Salmonella typhimurium is a flagellar basal body
component with a signal peptide for export.
J.BACTERIOL. 169 1493-1498 (1987). 

Documentation
The flgH, flgI and fliF genes of Salmonella typhimurium encode the major 
proteins for the L, P and M rings of the flagellar basal body [1]. In fact,
the basal body consists of four rings (L,P,S and M) surrounding the
flagellar rod, which is believed to transmit motor rotation to the filament 
[2]. The M ring is integral to the inner membrane of the cell, and may be
connected to the rod via the S (supramembrane) ring, which lies just distal
to it. The L and P rings reside in the outer membrane and periplasmic space,
respectively.
 
The sequences of the FlgH, FlgI and FliF gene products have been determined
[1]. FlgH and FlgI, have typical N-terminal cleaved signal-peptide sequences 
[1,3] and are predicted to have extensive beta-sheet structures [1]. By 
contrast, FliF lacks a signal peptide and is predicted to have considerable 
alpha-helical structure, including an N-terminal sequence that is likely
to be membrane-spanning [1]. Overall, however, FliF has a relatively
hydrophilic sequence, with a high charge density, especially towards its 
C-terminus [1]. Several aspects of the DNA sequence of these genes and 
their surrounds suggest complex regulation of the flagellar gene system. 
 
FLGMRINGFLIF is a 5-element fingerprint that provides a signature for 
flagellar M-ring proteins. The fingerprint was derived from an initial 
alignment of 6 sequences: the motifs were drawn from conserved regions
spanning the central portion of the alignment. Four iterations on OWL30.2
were required to reach convergence, at which point a true set comprising
10 sequences was identified.
 
An update on SPTR37_9f identified a true set of 10 sequences.
Summary Information
10 codes involving  5 elements
0 codes involving 4 elements
0 codes involving 3 elements
0 codes involving 2 elements
Composite Feature Index
51010101010
400000
300000
200000
12345
True Positives
FLIF_BACSU    FLIF_CAUCR    FLIF_ECOLI    FLIF_PSEAE    
FLIF_RHOSH FLIF_SALTY O25118 O52069
O54239 O67241
Sequence Titles
FLIF_BACSU  FLAGELLAR M-RING PROTEIN - BACILLUS SUBTILIS. 
FLIF_CAUCR FLAGELLAR M-RING PROTEIN - CAULOBACTER CRESCENTUS.
FLIF_ECOLI FLAGELLAR M-RING PROTEIN - ESCHERICHIA COLI.
FLIF_PSEAE FLAGELLAR M-RING PROTEIN - PSEUDOMONAS AERUGINOSA.
FLIF_RHOSH FLAGELLAR M-RING PROTEIN - RHODOBACTER SPHAEROIDES (RHODOPSEUDOMONAS SPHAEROIDES).
FLIF_SALTY FLAGELLAR M-RING PROTEIN - SALMONELLA TYPHIMURIUM.
O25118 FLAGELLAR BASAL-BODY M-RING PROTEIN (FLIF) - HELICOBACTER PYLORI (CAMPYLOBACTER PYLORI).
O52069 M-RING - BRUCELLA ABORTUS.
O54239 FLAGELLAR BASAL-BODY MS-RING PROTEIN - SINORHIZOBIUM MELILOTI.
O67241 FLAGELLAR M-RING PROTEIN - AQUIFEX AEOLICUS.
Scan History
OWL30_2    4  50   NSINGLE    
SPTR37_9f 2 30 NSINGLE
Initial Motifs
Motif 1  width=19
Element Seqn Id St Int Rpt
GISQFSEQVNYQRALEGEL FLIF_SALTY 121 121 -
GISQFSEQVNYQRALEGEL FLIF_ECOLI 119 119 -
GTSQFMEATNYRRGLEGEL FLIF_PSEAE 140 140 -
GQTDFVQQLNRQRALQGEL FLIF_CAUCR 96 96 -
GTSKSVETARLRQAQELDL FLIF_RHOSH 136 136 -
GLTDNEFDMVKVKATQTEL FLIF_BACSU 122 122 -

Motif 2 width=15
Element Seqn Id St Int Rpt
RVHLAMPKPSLFVRE FLIF_SALTY 153 13 -
RVHLAMPKPSLFVRE FLIF_ECOLI 151 13 -
RVHLAIPKSSVFVRD FLIF_PSEAE 172 13 -
RVHLVLPKRQLFEED FLIF_CAUCR 128 13 -
RVHLALPERSAFLRE FLIF_RHOSH 168 13 -
KVMINLPKDAVFVGE FLIF_BACSU 154 13 -

Motif 3 width=19
Element Seqn Id St Int Rpt
LVSSAVAGLPPGNVTLVDQ FLIF_SALTY 196 28 -
LVSSAVAGLPPGNVTLVDQ FLIF_ECOLI 194 28 -
LVATSVPELDKSQVTVVDQ FLIF_PSEAE 215 28 -
LVSSSVPNMKAEKVAVIDQ FLIF_CAUCR 170 27 -
LVSSSVPGMARQDVTVVDQ FLIF_RHOSH 211 28 -
LVSKSVPNLKEDNIVIMDQ FLIF_BACSU 198 29 -

Motif 4 width=19
Element Seqn Id St Int Rpt
VTAQLDFANKEQTEEHYSP FLIF_SALTY 265 50 -
VTAQLDFASKEQTEEQYRP FLIF_ECOLI 263 50 -
VSADVDFSAVESTSEMYNP FLIF_PSEAE 285 51 -
VTAELDLNRVTTQEERFDP FLIF_CAUCR 238 49 -
VTIDMDFTRQEIREEQVDP FLIF_RHOSH 281 51 -
VTADIDFTKENRTEDIVEP FLIF_BACSU 270 53 -

Motif 5 width=25
Element Seqn Id St Int Rpt
NYEVDRTIRHTKMNVGDIERLSVAV FLIF_SALTY 364 80 -
NYEVDRTIRHTKMNVGDVQRLSVAV FLIF_ECOLI 357 75 -
NYELDRSISYTKQQQGRLRRLSVAV FLIF_PSEAE 392 88 -
NYEISKSVTTTVQEPGTIKKIAVAV FLIF_CAUCR 312 55 -
NFEVSRKVETTLPATARIARVSAAV FLIF_RHOSH 362 62 -
NYEVNRIHKEIAESPYKVRDLGIQV FLIF_BACSU 349 60 -
Final Motifs
Motif 1  width=19
Element Seqn Id St Int Rpt
GISQFSEQVNYQRALEGEL FLIF_SALTY 121 121 -
GISQFSEQVNYQRALEGEL FLIF_ECOLI 119 119 -
GTSQFMEATNYRRGLEGEL FLIF_PSEAE 140 140 -
GQTDFVQQLNRQRALQGEL FLIF_CAUCR 96 96 -
GLTSFMQEVTRVRALEGEI O54239 120 120 -
GLTSFMQEITRVRALEGEI O52069 127 127 -
VLSRFQQLVNFKRAIEGEL O67241 120 120 -
GTSKSVETARLRQAQELDL FLIF_RHOSH 136 136 -
GATDFDQNIKLIRAIEGEL O25118 124 124 -
GLTDNEFDMVKVKATQTEL FLIF_BACSU 122 122 -

Motif 2 width=15
Element Seqn Id St Int Rpt
RVHLAMPKPSLFVRE FLIF_SALTY 153 13 -
RVHLAMPKPSLFVRE FLIF_ECOLI 151 13 -
RVHLAIPKSSVFVRD FLIF_PSEAE 172 13 -
RVHLVLPKRQLFEED FLIF_CAUCR 128 13 -
RVHIVMPERGSFRKA O54239 152 13 -
RVHIVLAEKGSFRRG O52069 159 13 -
RVHIVLPEKSLFIRE O67241 152 13 -
RVHLALPERSAFLRE FLIF_RHOSH 168 13 -
NVHIAIPKDSVFVAK O25118 156 13 -
KVMINLPKDAVFVGE FLIF_BACSU 154 13 -

Motif 3 width=19
Element Seqn Id St Int Rpt
LVSSAVAGLPPGNVTLVDQ FLIF_SALTY 196 28 -
LVSSAVAGLPPGNVTLVDQ FLIF_ECOLI 194 28 -
LVATSVPELDKSQVTVVDQ FLIF_PSEAE 215 28 -
LVSSSVPNMKAEKVAVIDQ FLIF_CAUCR 170 27 -
LVASSVPGLDVDDVTVLDS O54239 193 26 -
LVAAAVPSLDASSVTVLDT O52069 200 26 -
LVSGSVENLKPSQVVVVDD O67241 195 28 -
LVSSSVPGMARQDVTVVDQ FLIF_RHOSH 211 28 -
LIAAAVPKLTIENVKIVNE O25118 199 28 -
LVSKSVPNLKEDNIVIMDQ FLIF_BACSU 198 29 -

Motif 4 width=19
Element Seqn Id St Int Rpt
VTAQLDFANKEQTEEHYSP FLIF_SALTY 265 50 -
VTAQLDFASKEQTEEQYRP FLIF_ECOLI 263 50 -
VSADVDFSAVESTSEMYNP FLIF_PSEAE 285 51 -
VTAELDLNRVTTQEERFDP FLIF_CAUCR 238 49 -
VTARLNTDAQQIQETVFDP O54239 262 50 -
VQAALDTDRRQTKETTYDP O52069 269 50 -
VSAELDFSSMKKREELYDP O67241 264 50 -
VTIDMDFTRQEIREEQVDP FLIF_RHOSH 281 51 -
VNAEFDFSQKKSTKETFDP O25118 271 53 -
VTADIDFTKENRTEDIVEP FLIF_BACSU 270 53 -

Motif 5 width=25
Element Seqn Id St Int Rpt
NYEVDRTIRHTKMNVGDIERLSVAV FLIF_SALTY 364 80 -
NYEVDRTIRHTKMNVGDVQRLSVAV FLIF_ECOLI 357 75 -
NYELDRSISYTKQQQGRLRRLSVAV FLIF_PSEAE 392 88 -
NYEISKSVTTTVQEPGTIKKIAVAV FLIF_CAUCR 312 55 -
NYEINSKTIATVKNSYSIERLSIAV O54239 337 56 -
NYEVNSKTVSTVSDGYSIKRLSIAV O52069 344 56 -
NYEVSKREIYFEDKTIKVKRISVGL O67241 334 51 -
NFEVSRKVETTLPATARIARVSAAV FLIF_RHOSH 362 62 -
NYEVGKTISEIKGEFGTLVRLNAAV O25118 344 54 -
NYEVNRIHKEIAESPYKVRDLGIQV FLIF_BACSU 349 60 -