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PR00335

Identifier
KUPTAKETRKA  [View Relations]  [View Alignment]  
Accession
PR00335
No. of Motifs
5
Creation Date
31-OCT-1994  (UPDATE 21-JUN-1999)
Title
TrkA potassium uptake protein signature
Database References

INTERPRO; IPR000309
Literature References
1. SCHLOSSER, A, HAMANN, A., BOSSEMEYER, D., SCHNEIDER, E. AND BAKKER, E.P.
NAD+ binding to the Escherichia coli K+-uptake protein TrkA and sequence
similarity between TrkA and domains of a family of dehydrogenases suggest
a role for NAD+ in bacterial transport.
MOL.MICROBIOL. 9 533-543 (1993).
 
2. PARRA-LOPEZ, C., LIN, R., ASPEDON, A. AND GROISMAN, E.A.
A Salmonella protein that is required for resistance to antimicrobial
peptides and transport of potassium.
EMBO J. 13(17) 3964-3972 (1994).
 
3. MUNRO, A.W., RITCHIE, G.Y., LAMB, A.J., DOUGLAS, R.M. AND BOOTH, I.R.
The cloning and DNA-sequence of the gene for the glutathione-regulated
potassium-efflux system KefC of Escherichia coli.
MOL.MICROBIOL. 5 607-616 (1991).

Documentation
The NAD(+)-binding protein TrkA is a component of a low-affinity K+
uptake system in E.coli [1]. Sequence analysis reveals that the protein
consists of 2 tandemly arrayed halves that are 22% identical, a situation 
that might have arisen through gene duplication. TrkA also exhibits
similarity to other E.coli proteins [2], in particular KefC, a glutathione-
regulated efflux protein [3], and to various dehydrogenase proteins that
possess NAD+ binding sites.
 
KUPTAKETRKA is a 5-element fingerprint that provides a signature for TrkA
and related proteins. The fingerprint was derived from an initial alignment
of 3 sequences: the motifs correspond to conserved regions spanning an 
80-residue domain, which includes the predicted N-terminal NAD+/NADH
binding site (motif 1). Two iterations on OWL24.0 were required to reach
convergence, at which point a true set comprising 4 sequences was
identified. Two partial matches were also found (DHL2_LACCO and A49337),
both of which are dehydrogenases possessing NAD+/NADH binding sites. 
 
An update on SPTR37_9f identified a true set of 6 sequences, and 7
partial matches.
Summary Information
   6 codes involving  5 elements
0 codes involving 4 elements
0 codes involving 3 elements
6 codes involving 2 elements
Composite Feature Index
566666
400000
300000
251213
12345
True Positives
KEFC_ECOLI    P71354        TRKA_ECOLI    TRKA_METMA    
TRKA_SALTY TRKA_VIBAL
True Positive Partials
Codes involving 2 elements
O29420 O29541 O54141 O57719
Q50866 Q58505
Sequence Titles
KEFC_ECOLI  GLUTATHIONE-REGULATED POTASSIUM-EFFLUX SYSTEM PROTEIN KEFC (K(+)/H(+) ANTIPORTER) - ESCHERICHIA COLI. 
P71354 TRK SYSTEM POTASSIUM UPTAKE PROTEIN (TRKA) - HAEMOPHILUS INFLUENZAE.
TRKA_ECOLI TRK SYSTEM POTASSIUM UPTAKE PROTEIN TRKA - ESCHERICHIA COLI.
TRKA_METMA TRK SYSTEM POTASSIUM UPTAKE PROTEIN TRKA HOMOLOG - METHANOSARCINA MAZEI.
TRKA_SALTY TRK SYSTEM POTASSIUM UPTAKE PROTEIN TRKA - SALMONELLA TYPHIMURIUM.
TRKA_VIBAL TRK SYSTEM POTASSIUM UPTAKE PROTEIN TRKA - VIBRIO ALGINOLYTICUS.

O29420 TRK POTASSIUM UPTAKE SYSTEM PROTEIN (TRKA-2) - ARCHAEOGLOBUS FULGIDUS.
O29541 CONSERVED HYPOTHETICAL PROTEIN - ARCHAEOGLOBUS FULGIDUS.
O54141 PUTATIVE POTASSIUM UPTAKE PROTEIN - STREPTOMYCES COELICOLOR.
O57719 228AA LONG HYPOTHETICAL PROTEIN - PYROCOCCUS HORIKOSHII.
Q50866 KEFC - MYXOCOCCUS XANTHUS.
Q58505 HYPOTHETICAL PROTEIN MJ1105 - METHANOCOCCUS JANNASCHII.
Scan History
OWL24_0    2  100  NSINGLE    
SPTR37_9f 3 102 NSINGLE
Initial Motifs
Motif 1  width=15
Element Seqn Id St Int Rpt
KAVIIGAGEVGYHIA MMTRKA 2 2 -
KVVICGAGQVGFGIA S18626 2 2 -
KIIILGAGQVGGTLA TRKA_ECOLI 2 2 -

Motif 2 width=15
Element Seqn Id St Int Rpt
LVGENNDITVVDTNG TRKA_ECOLI 19 2 -
ALSPKNDVVIIDKDE MMTRKA 18 1 -
LASEQNDVSIVDASP S18626 19 2 -

Motif 3 width=11
Element Seqn Id St Int Rpt
QGHGSHPRVLR TRKA_ECOLI 49 15 -
VGHGSHPDVLA S18626 49 15 -
NGDGTDVSLLR MMTRKA 281 248 -

Motif 4 width=11
Element Seqn Id St Int Rpt
EENIEDMDVVV MMTRKA 292 0 -
RAGIEQADMLI S18626 60 0 -
EAGADDADMLV TRKA_ECOLI 60 0 -

Motif 5 width=15
Element Seqn Id St Int Rpt
TLHDEVNMVACQVGH S18626 73 2 -
TSSDETNMVACQVAY TRKA_ECOLI 73 2 -
TDSDEKNLLCSLLAK MMTRKA 305 2 -
Final Motifs
Motif 1  width=15
Element Seqn Id St Int Rpt
KIIILGAGQVGGTLA TRKA_ECOLI 2 2 -
KIIILGAGQVGGTLA TRKA_SALTY 2 2 -
KIIILGAGQVGGTLA TRKA_VIBAL 2 2 -
KIIILGAGQVGTTLA P71354 2 2 -
KAVIIGAGEVGYHIA TRKA_METMA 2 2 -
RVIIAGFGRFGQITG KEFC_ECOLI 401 401 -

Motif 2 width=15
Element Seqn Id St Int Rpt
LVGENNDITVVDTNG TRKA_ECOLI 19 2 -
LVGENNDITVVDTNG TRKA_SALTY 19 2 -
LVGENNDITIVDNNA TRKA_VIBAL 19 2 -
LVSEDNDITLVDNES P71354 19 2 -
ALSPKNDVVIIDKDE TRKA_METMA 18 1 -
LLSSGVKMVVLDHDP KEFC_ECOLI 418 2 -

Motif 3 width=11
Element Seqn Id St Int Rpt
QGHGSHPRVLR TRKA_ECOLI 49 15 -
QGHGSHPRVLR TRKA_SALTY 49 15 -
NGHASHPDVLH TRKA_VIBAL 49 15 -
QGSPSSPKVLR P71354 49 15 -
NGDGTDVSLLR TRKA_METMA 281 248 -
YGDATRMDLLE KEFC_ECOLI 447 14 -

Motif 4 width=11
Element Seqn Id St Int Rpt
EAGADDADMLV TRKA_ECOLI 60 0 -
EAGADDADMLV TRKA_SALTY 60 0 -
EAGAQDADMLV TRKA_VIBAL 60 0 -
DAGAADADLMV P71354 60 0 -
EENIEDMDVVV TRKA_METMA 292 0 -
SAGAAKAEVLI KEFC_ECOLI 458 0 -

Motif 5 width=15
Element Seqn Id St Int Rpt
TSSDETNMVACQVAY TRKA_ECOLI 73 2 -
TSSDETNMVACQVAY TRKA_SALTY 73 2 -
TNTDETNMAACQVAF TRKA_VIBAL 73 2 -
TASDEINMVACQMGY P71354 73 2 -
TDSDEKNLLCSLLAK TRKA_METMA 305 2 -
NAIDDPQTNLQLTEM KEFC_ECOLI 469 0 -