SPRINT Home UMBER Home Contents Standard Search Advanced Search Relation Search

==SPRINT==> PRINTS View



  selected as


PR01374

Identifier
TONBPROTEIN  [View Relations]  [View Alignment]  
Accession
PR01374
No. of Motifs
4
Creation Date
16-SEP-2000
Title
Gram-negative bacterial tonB protein signature 
Database References
Literature References
1. PAYNE, S.M.
Detection, isolation, and characterisation of siderophores.
METHODS ENZYMOL. 235 329-344 (1994).
 
2. NAHLIK, M.S., BRICKMAN, T.J., OZENBERGER, B.A. AND MCINTOSH, M.A.
Nucleotide sequence and transcriptional organisation of the Escherichia 
coli enterobactin biosynthesis cistrons entB and entA.
J.BACTERIOL. 171 784-790 (1989).
 
3. BUCHANAN, S.K., SMITH, B.S., VENKATRAMANI, L., XIA, D., ESSER, L., 
PALNITKAR, M., CHAKRABORTY, R., VAN DER HELM, D. AND DEISENHOFER, J.
Crystal structure of the outer membrane active transporter FepA from 
Escherichia coli. 
NAT.STRUCT.BIOL. 6 56-63 (1999).
 
4. MOECK, G.S. AND COULTON, J.W.
TonB-dependant iron acquisition: mechanisms of siderophore-mediated active
transport.
MOL.MICROBIOL. 28 675-681 (1998).

Documentation
Iron is essential for growth in both bacteria and mammals. Controlling the
amount of free iron in solution is often used as a tactic by hosts to limit
invasion of pathogenic microbes; binding iron tightly within protein
molecules can accomplish this. Such iron-protein complexes include haem in
blood, lactoferrin in tears/saliva and transferrin in blood plasma. Some
bacteria express surface receptors to capture eukaryotic iron-binding
compounds, while others have evolved siderophores to scavenge iron from
iron-binding host proteins [1].
 
The absence of free iron molecules in the surrounding environment triggers 
transcription of gene clusters that encode both siderophore-synthesis 
enzymes, and receptors that recognise iron-bound siderophores [2]. An 
example of the latter is Escherichia coli fepA, which resides in the outer 
envelope and captures iron-bound enterobactin [3]. 
 
To complete transport of bound iron across the inner membrane, a second 
receptor complex is needed. The major component of this is tonB, a 27kDa
protein that facilitates energy transfer from the proton motive force to
outer receptors [4]. B-12 and colicin receptors also make use of the tonB
system to drive active transport at the outer membrane. 
 
TONBBPROTEIN is a 4-element fingerprint that provides a signature for 
Gram-negative bacterial tonB proteins. The fingerprint was derived from an
initial alignment of 8 sequences: the motifs were drawn from conserved
regions spanning virtually the full alignment length - motif 1 includes the
characteristic KP repeat region. Two iterations on SPTR37_10f were required
to reach convergence, at which point a true set comprising 9 sequences was
identified. Several partial matches were also found, all of which are tonB
proteins that fail to match one or more motifs. 
Summary Information
   9 codes involving  4 elements
0 codes involving 3 elements
5 codes involving 2 elements
Composite Feature Index
49999
30000
23331
1234
True Positives
Q9ZJP4        TONB_ECOLI    TONB_ENTAE    TONB_HELPY    
TONB_KLEPN TONB_PSEAE TONB_SALTY TONB_SERMA
TONB_YEREN
True Positive Partials
Codes involving 2 elements
Q9ZG18 Q9ZHV8 TONB_HAEDU TONB_HAEIN
TONB_XANCP
Sequence Titles
Q9ZJP4      SIDEROPHORE-MEDIATED IRON TRANSPORT PROTEIN - HELICOBACTER PYLORI J99. 
TONB_ECOLI TONB PROTEIN - ESCHERICHIA COLI.
TONB_ENTAE TONB PROTEIN - ENTEROBACTER AEROGENES (AEROBACTER AEROGENES).
TONB_HELPY TONB PROTEIN - HELICOBACTER PYLORI (CAMPYLOBACTER PYLORI).
TONB_KLEPN TONB PROTEIN - KLEBSIELLA PNEUMONIAE.
TONB_PSEAE TONB PROTEIN - PSEUDOMONAS AERUGINOSA.
TONB_SALTY TONB PROTEIN - SALMONELLA TYPHIMURIUM.
TONB_SERMA TONB PROTEIN - SERRATIA MARCESCENS.
TONB_YEREN TONB PROTEIN - YERSINIA ENTEROCOLITICA.

Q9ZG18 TONB - BORDETELLA BRONCHISEPTICA.
Q9ZHV8 TONB2 - VIBRIO CHOLERAE.
TONB_HAEDU TONB PROTEIN - HAEMOPHILUS DUCREYI.
TONB_HAEIN TONB PROTEIN - HAEMOPHILUS INFLUENZAE.
TONB_XANCP TONB PROTEIN - XANTHOMONAS CAMPESTRIS (PV. CAMPESTRIS).
Scan History
SPTR37_10f 2  200  NSINGLE    
Initial Motifs
Motif 1  width=11
Element Seqn Id St Int Rpt
KPKPKPKPKPK TONB_ECOLI 91 91 -
KPKPKPKPKPK TONB_SALTY 93 93 -
KPKPKPKPKPK TONB_ENTAE 97 97 -
KPKPKPKPKPK TONB_KLEPN 95 95 -
KPKPKPKPKPK TONB_SERMA 101 101 -
KPKPKPKPKPK TONB_PSEAE 170 170 -
KPKPKPVKKEV TONB_YEREN 107 107 -
KPKPKPKPKPK TONB_HELPY 97 97 -

Motif 2 width=22
Element Seqn Id St Int Rpt
ALSRNQPQYPARAQALRIEGQV TONB_ECOLI 155 53 -
ALSRNQPQYPARAQALRIEGRV TONB_SALTY 158 54 -
ALKRGDPSYPQRAQALRIEGDV TONB_ENTAE 160 52 -
AISRVQPSYPARAQALRIEGTV TONB_KLEPN 160 54 -
PISRANPLYPPRAQALQIEGNV TONB_SERMA 164 52 -
PLRMDPPVYPRMAQARRIEGRV TONB_PSEAE 256 75 -
ALSKAKPTYPARALALGVEGQV TONB_YEREN 172 54 -
TAISSKNRYPKMAQIRGIEGEV TONB_HELPY 203 95 -

Motif 3 width=19
Element Seqn Id St Int Rpt
VKVKFDVTPDGRVDNVQIL TONB_ECOLI 176 -1 -
VKVKFDVTSAGRVENVQIL TONB_SALTY 179 -1 -
VRVKFDVTADGRVENIQIL TONB_ENTAE 181 -1 -
VRVKFDVSPDGRIDNLQIL TONB_KLEPN 181 -1 -
VRVQFDIDSDGRVSNVRIL TONB_SERMA 185 -1 -
VKVLFTITSDGRIDDIQVL TONB_PSEAE 277 -1 -
VKVQYDIDENGRVTNVRIL TONB_YEREN 193 -1 -
VLVSFTINADGSVTDIKVV TONB_HELPY 224 -1 -

Motif 4 width=18
Element Seqn Id St Int Rpt
SAKPANMFEREVKNAMRR TONB_ECOLI 195 0 -
SAQPANMFEREVKNAMRK TONB_SALTY 198 0 -
SAKPANMFERDVKTAMRK TONB_ENTAE 200 0 -
SAQPANMFEREVKSAMRR TONB_KLEPN 200 0 -
SAEPRNMFEREVKQAMRK TONB_SERMA 204 0 -
ESVPSRMFDREVRQAMAK TONB_PSEAE 296 0 -
EATPRNTFEREVKQVMRK TONB_YEREN 212 0 -
TTDILNHAALEAIKSAAH TONB_HELPY 246 3 -
Final Motifs
Motif 1  width=11
Element Seqn Id St Int Rpt
KPKPKPKPKPK TONB_ECOLI 91 91 -
KPKPKPKPKPK TONB_SALTY 93 93 -
KPKPKPKPKPK TONB_ENTAE 97 97 -
KPKPKPKPKPK TONB_KLEPN 95 95 -
KPKPKPKPKPK TONB_SERMA 101 101 -
KPKPKPKPKPK TONB_PSEAE 170 170 -
KPKPKPVKKEV TONB_YEREN 107 107 -
KPKPKPKPKPK Q9ZJP4 96 96 -
KPKPKPKPKPK TONB_HELPY 97 97 -

Motif 2 width=22
Element Seqn Id St Int Rpt
ALSRNQPQYPARAQALRIEGQV TONB_ECOLI 155 53 -
ALSRNQPQYPARAQALRIEGRV TONB_SALTY 158 54 -
ALKRGDPSYPQRAQALRIEGDV TONB_ENTAE 160 52 -
AISRVQPSYPARAQALRIEGTV TONB_KLEPN 160 54 -
PISRANPLYPPRAQALQIEGNV TONB_SERMA 164 52 -
PLRMDPPVYPRMAQARRIEGRV TONB_PSEAE 256 75 -
ALSKAKPTYPARALALGVEGQV TONB_YEREN 172 54 -
TAISSKNRYPKMAQIRGIEGEV Q9ZJP4 198 91 -
TAISSKNRYPKMAQIRGIEGEV TONB_HELPY 203 95 -

Motif 3 width=19
Element Seqn Id St Int Rpt
VKVKFDVTPDGRVDNVQIL TONB_ECOLI 176 -1 -
VKVKFDVTSAGRVENVQIL TONB_SALTY 179 -1 -
VRVKFDVTADGRVENIQIL TONB_ENTAE 181 -1 -
VRVKFDVSPDGRIDNLQIL TONB_KLEPN 181 -1 -
VRVQFDIDSDGRVSNVRIL TONB_SERMA 185 -1 -
VKVLFTITSDGRIDDIQVL TONB_PSEAE 277 -1 -
VKVQYDIDENGRVTNVRIL TONB_YEREN 193 -1 -
VLVSFTINADGSVTDIKVV Q9ZJP4 219 -1 -
VLVSFTINADGSVTDIKVV TONB_HELPY 224 -1 -

Motif 4 width=18
Element Seqn Id St Int Rpt
SAKPANMFEREVKNAMRR TONB_ECOLI 195 0 -
SAQPANMFEREVKNAMRK TONB_SALTY 198 0 -
SAKPANMFERDVKTAMRK TONB_ENTAE 200 0 -
SAQPANMFEREVKSAMRR TONB_KLEPN 200 0 -
SAEPRNMFEREVKQAMRK TONB_SERMA 204 0 -
ESVPSRMFDREVRQAMAK TONB_PSEAE 296 0 -
EATPRNTFEREVKQVMRK TONB_YEREN 212 0 -
TTDILNHAALEAIKSAAH Q9ZJP4 241 3 -
TTDILNHAALEAIKSAAH TONB_HELPY 246 3 -