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PR01484

Identifier
PRTACTNFAMLY  [View Relations]  [View Alignment]  
Accession
PR01484
No. of Motifs
8
Creation Date
25-MAR-2001
Title
Pertactin virulence factor family signature
Database References
PRINTS; PR01482 PERTACTIN
PDB; 1DAB
SCOP; 1DAB
CATH; 1DAB
Literature References
1. CHARLES, I.G., DOUGAN, G., PICKARD, D., CHATFIELD, S. SMITH, M.,
NOVOTNY, P., MORRISSEY, P. AND FAIRWEATHER, N.F.
Molecular cloning and characterisation of protective outer membrane protein  
P.69 from Bordetella pertussis.
PROC.NATL.ACAD.SCI.U.S.A. 86 3554-3558 (1989).
 
2. LI, J., FAIRWEATHER, N.F., NOVOTNY, P., DOUGAN, G. AND CHARLES, I.G.
Cloning, nucleotide sequence and heterologous expression of the protective 
outer-membrane protein P.68 pertactin from Bordetella bronchiseptica.
J.GEN.MICROBIOL. 138 1697-1705 (1992).
 
3. LOCHT, C.
Molecular aspects of Bordetella pertussis pathogenesis.
INT.MICROBIOL. 2 137-144 (1999).
 
4. EMSLEY, P., CHARLES, I.G., FAIRWEATHER, N.F. AND ISAACS, N.W.
Structure of Bordetella pertussis virulence factor P.69 pertactin.
NATURE 381 90-92 (1996).
 
5. FINN, T.M. AND STEVENS, L.A.
Tracheal colonization factor: a Bordetella pertussis secreted virulence determinant.
MOL.MICROBIOL. 16 625-634 (1995).
 
6. FERNANDEZ, R.C. AND WEISS, A.A.
Cloning and sequencing of a Bordetella pertussis serum resistance locus.
INFECT.IMMUN. 62 4727-4738 (1994). 

Documentation
Bordetella pertussis is a Gram-negative, aerobic coccobacillus that causes 
pertussis (whooping cough), especially in young children [1]. Once present 
in the lungs, the bacterium attaches to ciliated pulmonary epithelial cells 
via a collection of outer membrane proteins, all of which are virulence 
factors [1].
 
Pertactin, or P69 protein, is one of these virulence factors. Pertactin and
filamentous haemagglutinin have been identified as bordetella adhesins [2]. 
Both proteins contain an arg-gly-asp (RGD) motif that promotes binding to
integrins, known to be important in cell mobility and development [2]. The
production of most bordetella virulence factors (including pertactin) is 
controlled by a two-component signal transduction system, comprising the
BvgA regulator and the BvgS sensor [3]. Pertactin shares a high level of
similarity with other bordetella adhesins [3]. The protein is first produced
as a 93kDa precursor. Upon secretion into the extracellular environment, a
30kDa domain at the C-terminus remains in the outer membrane, while the
mature 60.4kDa pertactin molecule is released [4].
 
The crystal structure of mature pertactin has been determined to 2.5A 
resolution by means of X-ray diffraction {4]. The fold is characterised by
a 16-stranded parallel beta-helix, with a V-shaped cross-section. Several
between-strand amino-acid repeats form internal and external ladders [4].
The helical structure is interrupted by several protruding loops that
contain motifs associated with the activity of the protein [4]. One 
such sequence - [GGXXP]5 - appears directly after the RGD motif, and may
mediate interaction with epithelial cells [4]. The C-terminal region of
P.69 pertactin contains a [PQP]5 motif loop, which contains the major
immunoprotective epitope [4]. 
 
The tcfA gene of Bordetella pertussis encodes a unique virulence-associated 
factor, Tcf (tracheal colonisation factor) [5]. The derived amino acid
sequence of tcfA predicts a 68kDa RGD-containing, proline-rich protein.
Amino acid sequence analysis reveals that the C-terminal 30kDa of this
protein shares ~50% identity with the 30kDa C-terminus of the Bordetella
pertactin precursor [5]. 
 
The Bordetella resistance to killing, brk, locus has cloned and sequenced
and found to encode two divergently transcribed open reading frames (ORFs),
designated BrkA and BrkB [6]. Both ORFs are necessary for serum resistance.
BrkA shares ~29% identity with pertactin and contains two RGD motifs, in 
addition to a proteolytic processing site and an outer membrane targeting
signal [6]. BrkA, like pertactin, is involved in adherence and invasion [6].
 
PRTACTNFAMLY is an 8-element fingerprint that provides a signature for the 
pertactin virulence factor family. The fingerprint was derived from an
initial alignment of 5 sequences: the motifs were drawn from conserved 
regions spanning the C-terminal half of the alignment, which has been 
identified as the putative pertactin propeptide. Two iterations on 
SPTR39_15f were required to reach convergence, at which point a true set
comprising 15 sequences was identified. A single partial match was also
found, O66044, a VAG8 protein from B.pertussis that matches motifs 2 and 4-8.
Summary Information
  15 codes involving  8 elements
0 codes involving 7 elements
1 codes involving 6 elements
0 codes involving 5 elements
0 codes involving 4 elements
0 codes involving 3 elements
0 codes involving 2 elements
Composite Feature Index
81515151515151515
700000000
601011111
500000000
400000000
300000000
200000000
12345678
True Positives
O69257        O69259        O86044        O86135        
O88143 PERT_BORBR PERT_BORPA PERT_BORPE
Q45340 Q45343 Q9L4E2 Q9S3M8
Q9S6M9 Q9S6N0 Q9S6N1
True Positive Partials
Codes involving 6 elements
O66044
Sequence Titles
O69257      PERTACTIN PRECURSOR - Bordetella pertussis.   
O69259 PERTACTIN PRECURSOR - Bordetella pertussis.
O86044 PUTATIVE AUTOTRANSPORTER - Bordetella pertussis.
O86135 TRACHEAL COLONIZATION FACTOR PRECURSOR - Bordetella pertussis.
O88143 P.69B PROTEIN PRECURSOR - Bordetella pertussis.
PERT_BORBR PERTACTIN PRECURSOR (OUTER MEMBRANE PROTEIN P.68) (P.94) - Bordetella bronchiseptica.
PERT_BORPA PERTACTIN PRECURSOR (OUTER MEMBRANE PROTEIN P.70) (P.95) - Bordetella parapertussis.
PERT_BORPE PERTACTIN PRECURSOR (OUTER MEMBRANE PROTEIN P.69) (P.93) - Bordetella pertussis.
Q45340 BRKA - Bordetella pertussis.
Q45343 TRACHEAL COLONIZATION FACTOR - Bordetella pertussis.
Q9L4E2 PERTACTIN - Bordetella bronchiseptica.
Q9S3M8 PERTACTIN PRECURSOR - Bordetella pertussis.
Q9S6M9 PERTACTIN PRECURSOR - Bordetella pertussis.
Q9S6N0 PERTACTIN - Bordetella pertussis.
Q9S6N1 PERTACTIN - Bordetella pertussis.

O66044 VAG8 - Bordetella pertussis.
Scan History
SPTR39_15f 2  40   NSINGLE    
Initial Motifs
Motif 1  width=19
Element Seqn Id St Int Rpt
WYAESNALSKRLGELRLNP PERT_BORPE 626 626 -
WYAESNALSKRLGELRLNP PERT_BORBR 627 627 -
WYAESNALSKRLGELRLNP PERT_BORPA 638 638 -
WYAEGNALSKRLGELRLDP O86044 475 475 -
WQAEMNALSKRMGELRLTP Q45343 388 388 -

Motif 2 width=21
Element Seqn Id St Int Rpt
AGGAWGRGFAQRQQLDNRAGR PERT_BORPE 646 1 -
AGGAWGRGFAQRQQLDNRAGR PERT_BORBR 647 1 -
AGGAWGRGFAQRQQLDNRAGR PERT_BORPA 658 1 -
AGGFWGRTFAQKQQLDNKAGR O86044 495 1 -
AGGVWGRAFGRRQDVDNRVSR Q45343 408 1 -

Motif 3 width=25
Element Seqn Id St Int Rpt
GGRWHLGGLAGYTRGDRGFTGDGGG PERT_BORPE 687 20 -
GGRWHLGGLAGYTRGDRGFTGDGGG PERT_BORBR 688 20 -
GGRWHLGGLAGYTRGDRGFTGDGGG PERT_BORPA 699 20 -
QGRWHVGGLLGYTRARRSFIDDGAG O86044 536 20 -
DGRWHVGAVAGYTNGRIKFDRGGTG Q45343 449 20 -

Motif 4 width=18
Element Seqn Id St Int Rpt
GWFLEPQAELAVFRAGGG PERT_BORPE 779 67 -
GWFLEPQAELAVFRVGGG PERT_BORBR 780 67 -
GWFLEPQAELAVFRVGGG PERT_BORPA 791 67 -
GWFVEPQSEVSLFHASGG O86044 628 67 -
AWYVEPQLEVAAFHAQGA Q45343 541 67 -

Motif 5 width=24
Element Seqn Id St Int Rpt
YRAANGLRVRDEGGSSVLGRLGLE PERT_BORPE 798 1 -
YRAANGLRVRDEGGSSVLGRLGLE PERT_BORBR 799 1 -
YRAANGLRVRDEGGSSVLGRLGLE PERT_BORPA 810 1 -
YRAANNLSVKDEGGTSAVLRLGLA O86044 647 1 -
YTASNGLRIKDDGTNSMLGRLGLH Q45343 560 1 -

Motif 6 width=22
Element Seqn Id St Int Rpt
ELAGGRQVQPYIKASVLQEFDG PERT_BORPE 827 5 -
ELAGGRQVQPYIKASVLQEFDG PERT_BORBR 828 5 -
ELAGGRQVQPYIKASVLQEFDG PERT_BORPA 839 5 -
DLGKDRVIQPYATLSWLQEFKG O86044 676 5 -
DLGDGRVVQPYMKLSWVQEFDG Q45343 589 5 -

Motif 7 width=26
Element Seqn Id St Int Rpt
GTRAELGLGMAAALGRGHSLYASYEY PERT_BORPE 865 16 -
GTRAELGLGMAAALGRGHSLYASYEY PERT_BORBR 866 16 -
GTRAELGLGMAAALGRGHSLYASYEY PERT_BORPA 877 16 -
GGRAELALGLAAALGRGHQLYTSYEY O86044 714 16 -
GGRTELAVGVASQLGKHGSLFGSYEY Q45343 627 16 -

Motif 8 width=21
Element Seqn Id St Int Rpt
YSKGPKLAMPWTFHAGYRYSW PERT_BORPE 890 -1 -
YSKGPKLAMPWTFHAGYRYSW PERT_BORBR 891 -1 -
YSKGPKLAMPWTFHAGYRYSW PERT_BORPA 902 -1 -
YAKGNKLTLPWTFHLGYRYTW O86044 739 -1 -
YAKGSRQTMPWTFHVGYRYAW Q45343 652 -1 -
Final Motifs
Motif 1  width=19
Element Seqn Id St Int Rpt
WYAESNALSKRLGELRLNP O69257 623 623 -
WYAESNALSKRLGELRLNP Q9S6N1 626 626 -
WYAESNALSKRLGELRLNP Q9S6N0 621 621 -
WYAESNALSKRLGELRLNP Q9S6M9 621 621 -
WYAESNALSKRLGELRLNP Q9S3M8 621 621 -
WYAESNALSKRLGELRLNP PERT_BORPE 626 626 -
WYAESNALSKRLGELRLNP O88143 631 631 -
WYAESNALSKRLGELRLNP O69259 626 626 -
WYAESNALSKRLGELRLNP PERT_BORBR 627 627 -
WYAESNALSKRLGELRLNP PERT_BORPA 638 638 -
WYAESNALSKRLGELRLNP Q9L4E2 627 627 -
WYAEGNALSKRLGELRLDP O86044 475 475 -
WQAEMNALSKRMGELRLTP O86135 363 363 -
WQAEMNALSKRMGELRLTP Q45343 388 388 -
ALAESNALDKRLGELRLRA Q45340 726 726 -

Motif 2 width=21
Element Seqn Id St Int Rpt
AGGAWGRGFAQRQQLDNRAGR O69257 643 1 -
AGGAWGRGFAQRQQLDNRAGR Q9S6N1 646 1 -
AGGAWGRGFAQRQQLDNRAGR Q9S6N0 641 1 -
AGGAWGRGFAQRQQLDNRAGR Q9S6M9 641 1 -
AGGAWGRGFAQRQQLDNRAGR Q9S3M8 641 1 -
AGGAWGRGFAQRQQLDNRAGR PERT_BORPE 646 1 -
AGGAWGRGFAQRQQLDNRAGR O88143 651 1 -
AGGAWGRGFAQRQQLDNRAGR O69259 646 1 -
AGGAWGRGFAQRQQLDNRAGR PERT_BORBR 647 1 -
AGGAWGRGFAQRQQLDNRAGR PERT_BORPA 658 1 -
AGGAWGRGFAQRQQLDNRAGR Q9L4E2 647 1 -
AGGFWGRTFAQKQQLDNKAGR O86044 495 1 -
AGGVWGRAFGRRQDVDNRVSR O86135 383 1 -
AGGVWGRAFGRRQDVDNRVSR Q45343 408 1 -
AGGPWARTFSERQQISNRHAR Q45340 746 1 -

Motif 3 width=25
Element Seqn Id St Int Rpt
GGRWHLGGLAGYTRGDRGFTGDGGG O69257 684 20 -
GGRWHLGGLAGYTRGDRGFTGDGGG Q9S6N1 687 20 -
GGRWHLGGLAGYTRGDRGFTGDGGG Q9S6N0 682 20 -
GGRWHLGGLAGYTRGDRGFTGDGGG Q9S6M9 682 20 -
GGRWHLGGLAGYTRGDRGFTGDGGG Q9S3M8 682 20 -
GGRWHLGGLAGYTRGDRGFTGDGGG PERT_BORPE 687 20 -
GGRWHLGGLAGYTRGDRGFTGDGGG O88143 692 20 -
GGRWHLGGLAGYTRGDRGFTGDGGG O69259 687 20 -
GGRWHLGGLAGYTRGDRGFTGDGGG PERT_BORBR 688 20 -
GGRWHLGGLAGYTRGDRGFTGDGGG PERT_BORPA 699 20 -
GGRWHLGGLAGYTRGDRGFTGDGGG Q9L4E2 688 20 -
QGRWHVGGLLGYTRARRSFIDDGAG O86044 536 20 -
DGRWHVGAVAGYTNGRIKFDRGGTG O86135 424 20 -
DGRWHVGAVAGYTNGRIKFDRGGTG Q45343 449 20 -
GGRWYAGGLLGYTYADRTYPGDGGG Q45340 787 20 -

Motif 4 width=18
Element Seqn Id St Int Rpt
GWFLEPQAELAVFRAGGG O69257 776 67 -
GWFLEPQAELAVFRAGGG Q9S6N1 779 67 -
GWFLEPQAELAVFRAGGG Q9S6N0 774 67 -
GWFLEPQAELAVFRAGGG Q9S6M9 774 67 -
GWFLEPQAELAVFRAGGG Q9S3M8 774 67 -
GWFLEPQAELAVFRAGGG PERT_BORPE 779 67 -
GWFLEPQAELAVFRAGGG O88143 784 67 -
GWFLEPQAELAVFRAGGG O69259 779 67 -
GWFLEPQAELAVFRVGGG PERT_BORBR 780 67 -
GWFLEPQAELAVFRVGGG PERT_BORPA 791 67 -
GWFLEPQAELAVFRVGGG Q9L4E2 780 67 -
GWFVEPQSEVSLFHASGG O86044 628 67 -
AWYVEPQLEVAAFHAQGA O86135 516 67 -
AWYVEPQLEVAAFHAQGA Q45343 541 67 -
DWFAEPQAEVMLWRTSGK Q45340 879 67 -

Motif 5 width=24
Element Seqn Id St Int Rpt
YRAANGLRVRDEGGSSVLGRLGLE O69257 795 1 -
YRAANGLRVRDEGGSSVLGRLGLE Q9S6N1 798 1 -
YRAANGLRVRDEGGSSVLGRLGLE Q9S6N0 793 1 -
YRAANGLRVRDEGGSSVLGRLGLE Q9S6M9 793 1 -
YRAANGLRVRDEGGSSVLGRLGLE Q9S3M8 793 1 -
YRAANGLRVRDEGGSSVLGRLGLE PERT_BORPE 798 1 -
YRAANGLRVRDEGGSSVLGRLGLE O88143 803 1 -
YRAANGLRVRDEGGSSVLGRLGLE O69259 798 1 -
YRAANGLRVRDEGGSSVLGRLGLE PERT_BORBR 799 1 -
YRAANGLRVRDEGGSSVLGRLGLE PERT_BORPA 810 1 -
YRAANGLRVRDEGGSSVLGRLGLE Q9L4E2 799 1 -
YRAANNLSVKDEGGTSAVLRLGLA O86044 647 1 -
YTASNGLRIKDDGTNSMLGRLGLH O86135 535 1 -
YTASNGLRIKDDGTNSMLGRLGLH Q45343 560 1 -
YRASNGLRVKVDANTATLGRLGLR Q45340 898 1 -

Motif 6 width=22
Element Seqn Id St Int Rpt
ELAGGRQVQPYIKASVLQEFDG O69257 824 5 -
ELAGGRQVQPYIKASVLQEFDG Q9S6N1 827 5 -
ELAGGRQVQPYIKASVLQEFDG Q9S6N0 822 5 -
ELAGGRQVQPYIKASVLQEFDG Q9S6M9 822 5 -
ELAGGRQVQPYIKASVLQEFDG Q9S3M8 822 5 -
ELAGGRQVQPYIKASVLQEFDG PERT_BORPE 827 5 -
ELAGGRQVQPYIKASVLQEFDG O88143 832 5 -
ELAGGRQVQPYIKASVLQEFDG O69259 827 5 -
ELAGGRQVQPYIKASVLQEFDG PERT_BORBR 828 5 -
ELAGGRQVQPYIKASVLQEFDG PERT_BORPA 839 5 -
ELAGGRQVQPYIKASVLQEFDG Q9L4E2 828 5 -
DLGKDRVIQPYATLSWLQEFKG O86044 676 5 -
DLGDGRVVQPYMKLSWVQEFDG O86135 564 5 -
DLGDGRVVQPYMKLSWVQEFDG Q45343 589 5 -
ALAGGNIVQPYARLGWTQEFKS Q45340 927 5 -

Motif 7 width=26
Element Seqn Id St Int Rpt
GTRAELGLGMAAALGRGHSLYASYEY O69257 862 16 -
GTRAELGLGMAAALGRGHSLYASYEY Q9S6N1 865 16 -
GTRAELGLGMAAALGRGHSLYASYEY Q9S6N0 860 16 -
GTRAELGLGMAAALGRGHSLYASYEY Q9S6M9 860 16 -
GTRAELGLGMAAALGRGHSLYASYEY Q9S3M8 860 16 -
GTRAELGLGMAAALGRGHSLYASYEY PERT_BORPE 865 16 -
GTRAELGLGMAAALGRGHSLYASYEY O88143 870 16 -
GTRAELGLGMAAALGRGHSLYASYEY O69259 865 16 -
GTRAELGLGMAAALGRGHSLYASYEY PERT_BORBR 866 16 -
GTRAELGLGMAAALGRGHSLYASYEY PERT_BORPA 877 16 -
GTRAELGLGMAAALGRGHSLYASYEY Q9L4E2 866 16 -
GGRAELALGLAAALGRGHQLYTSYEY O86044 714 16 -
GGRTELAVGVASQLGKHGSLFGSYEY O86135 602 16 -
GGRTELAVGVASQLGKHGSLFGSYEY Q45343 627 16 -
HGRVELGAGVDAALGKGHNLYASYEY Q45340 965 16 -

Motif 8 width=21
Element Seqn Id St Int Rpt
YSKGPKLAMPWTFHAGYRYSW O69257 887 -1 -
YSKGPKLAMPWTFHAGYRYSW Q9S6N1 890 -1 -
YSKGPKLAMPWTFHAGYRYSW Q9S6N0 885 -1 -
YSKGPKLAMPWTFHAGYRYSW Q9S6M9 885 -1 -
YSKGPKLAMPWTFHAGYRYSW Q9S3M8 885 -1 -
YSKGPKLAMPWTFHAGYRYSW PERT_BORPE 890 -1 -
YSKGPKLAMPWTFHAGYRYSW O88143 895 -1 -
YSKGPKLAMPWTFHAGYRYSW O69259 890 -1 -
YSKGPKLAMPWTFHAGYRYSW PERT_BORBR 891 -1 -
YSKGPKLAMPWTFHAGYRYSW PERT_BORPA 902 -1 -
YSKGPKLAMPWTFHAGYRYSW Q9L4E2 891 -1 -
YAKGNKLTLPWTFHLGYRYTW O86044 739 -1 -
YAKGSRQTMPWTFHVGYRYAW O86135 627 -1 -
YAKGSRQTMPWTFHVGYRYAW Q45343 652 -1 -
YAAGDRINIPWSFHAGYRYSF Q45340 990 -1 -