WORKLIST ENTRIES (1):

CHANLCOLICIN View alignment View Structure    Channel forming colicin signature
 Type of fingerprint: COMPOUND with 4  elements
Links:
   PRINTS; PR01295 CLOACIN; PR01297 LYSISCOLICIN; PR01300 PYOCINKILLER
   INTERPRO; IPR000293
   PROSITE; PS00276 CHANNEL_COLICIN
   PFAM; PF01024 Colicin
   PDB; 1COL 3Dinfo
   SCOP; 1COL
   CATH; 1COL

 Creation date 03-NOV-1994; UPDATE 06-JUN-1999

   1. LAKEY, J.H., VAN DER GOOT, F.G. AND PATTUS, F.
   All in the family: the toxic activity of pore-forming colicins. 
   TOXICOLOGY 87 85-108 (1994).

   2. PATTUS, F., MASSOTTE, D., WILMSEN, H.U., LAKEY, J., TSERNOGLOU, D.,
   TUCKER, A. AND PARKER, M.W.
   Colicins - Prokaryotic killer pores.
   EXPERIENTIA 46 180-192 (1990).

   3. CRAMER, W.A., COHEN, F.S., MERRILL, A.R. AND SONG, H.Y.
   The structure and dynamics of the colicin E1 channel.
   MOL.MICROBIOL. 4 519-526 (1990).

   Colicins are unusual bacterial toxins. They are directed against close
   relatives of the producing strain, killing their targets in one of
   three distinct ways: via a ribonuclease; via a deoxyribonuclease activity;
   or by forming pores in the target cell membrane [1]. Channel-forming 
   colicins are transmembrane proteins that depolarise the cytoplasmic
   membrane, leading to dissipation of cellular energy [2,3]. Their N-terminal
   regions are involved in their uptake, the central portion is important for
   binding to outer membrane receptors, and the C-terminus forms the channel.
  
   CHANLCOLICIN is a 4-element fingerprint that provides a signature for the
   channel-forming colicins. The fingerprint was derived from an initial
   alignment of 5 sequences: the motifs were drawn from short conserved
   regions towards the C-terminus, motif 4 including the region encoded by
   PROSITE pattern CHANNEL_COLCIN (PS00276). Two iterations on OWL24.0
   were required to reach convergence, at which point a true set comprising
   10 sequences was identified. A single partial match was also found, which
   fails to make a significant match with motif 4.
  
   An update on SPTR37_9f identified a true set of 23 sequences, and 1
   partial match.

  SUMMARY INFORMATION
     23 codes involving  4 elements
      1 codes involving  3 elements
      0 codes involving  2 elements

   COMPOSITE FINGERPRINT INDEX
  
    4|  23   23   23   23  
    3|   1    1    1    0  
    2|   0    0    0    0  
   --+---------------------
     |   1    2    3    4  

True positives..
 CEA1_ECOLI     Q51626         Q46743         Q46742         
 CEA1_SHISO     Q46745         Q46744         Q57462         
 Q46746         CEAK_ECOLI     Q46732         Q46740         
 Q46738         Q46734         CEIA_ECOLI     Q46737         
 Q46736         CE05_ECOLI     CE10_ECOLI     CEIB_ECOLI     
 O24681         CEA_CITFR      CEAB_ECOLI     
Subfamily:  Codes involving 3 elements
 Subfamily True positives..
 CEAN_ECOLI     


  PROTEIN TITLES
   CEA1_ECOLI       COLICIN E1 PROTEIN - ESCHERICHIA COLI.
   Q51626           COLICIN E1 PROTEIN - ESCHERICHIA COLI.
   Q46743           COLICIN PROTEIN - ESCHERICHIA COLI.
   Q46742           COLICIN PROTEIN - ESCHERICHIA COLI.
   CEA1_SHISO       COLICIN E1* PROTEIN - SHIGELLA SONNEI.
   Q46745           COLICIN PROTEIN - ESCHERICHIA COLI.
   Q46744           COLICIN PROTEIN - ESCHERICHIA COLI.
   Q57462           COLICIN PROTEIN - ESCHERICHIA COLI.
   Q46746           COLICIN PROTEIN - ESCHERICHIA COLI.
   CEAK_ECOLI       COLICIN K - ESCHERICHIA COLI.
   Q46732           COLICIN PROTEIN - ESCHERICHIA COLI.
   Q46740           COLICIN PROTEIN - ESCHERICHIA COLI.
   Q46738           COLICIN PROTEIN - ESCHERICHIA COLI.
   Q46734           COLICIN PROTEIN - ESCHERICHIA COLI.
   CEIA_ECOLI       COLICIN IA PROTEIN - ESCHERICHIA COLI.
   Q46737           COLICIN PROTEIN - ESCHERICHIA COLI.
   Q46736           COLICIN PROTEIN - ESCHERICHIA COLI.
   CE05_ECOLI       COLICIN 5 - ESCHERICHIA COLI.
   CE10_ECOLI       COLICIN 10 - ESCHERICHIA COLI.
   CEIB_ECOLI       COLICIN IB PROTEIN - ESCHERICHIA COLI.
   O24681           COLICIN U - SHIGELLA BOYDII.
   CEA_CITFR        COLICIN A - CITROBACTER FREUNDII.
   CEAB_ECOLI       COLICIN B - ESCHERICHIA COLI.
 
   CEAN_ECOLI       COLICIN N - ESCHERICHIA COLI.

SCAN HISTORY OWL24_0 2 100 NSINGLE SPTR37_9f 2 26 NSINGLE INITIAL MOTIF SETS CHANLCOLICIN1 Length of motif = 16 Motif number = 1 Colicin motif I - 1 PCODE ST INT GKTIRSFDDAMASLNK CEA_CITFR 438 438 GKKIGNVNEALAAFEK CEA1_ECOLI 380 380 GKTIRSYDDAMSSINK CEAB_ECOLI 359 359 GRNIRSYNEAMASLNK CEAN_ECOLI 234 234 GKQIKSVDDALNAFDK CEIB_ECOLI 484 484 CHANLCOLICIN2 Length of motif = 17 Motif number = 2 Colicin motif II - 1 PCODE ST INT NPAMKINKADRDALVNA CEA_CITFR 457 3 VLNKKFSKADRDAIFNA CEA1_ECOLI 399 3 NPSLKINATDKEAIVNA CEAB_ECOLI 378 3 NPKMKVNKSDKDAIVNA CEAN_ECOLI 253 3 NLNKKYNIQDRMAISKA CEIB_ECOLI 503 3 CHANLCOLICIN3 Length of motif = 14 Motif number = 3 Colicin motif III - 1 PCODE ST INT TGNWGPLMLEVESW CEA_CITFR 515 41 TGDWKPLFLTLEKK CEA1_ECOLI 457 41 TGNWGPLMLEVESW CEAB_ECOLI 436 41 TGNWGPLLLEVESW CEAN_ECOLI 311 41 TDNWRPFFVKLESL CEIB_ECOLI 561 41 CHANLCOLICIN4 Length of motif = 19 Motif number = 4 Colicin motif IV - 1 PCODE ST INT VLSGIASSVALGIFSATLG CEA_CITFR 529 0 AADAGVSYVVALLFSLLAG CEA1_ECOLI 471 0 VISGMASAVALSLFSLTLG CEAB_ECOLI 450 0 IIGGVVAGVAISLFGAVLS CEAN_ECOLI 325 0 AAGRAASAVTAWAFSVMLG CEIB_ECOLI 575 0 FINAL MOTIF SETS CHANLCOLICIN1 Length of motif = 16 Motif number = 1 Colicin motif I - 2 PCODE ST INT GKKIGNVNEALAAFEK CEA1_ECOLI 380 380 GKKIGNVNEALAAFEK Q51626 380 380 GKKIGNVNEALAAFEK Q46743 380 380 GKKIGNVNEALAAFEK Q46742 380 380 GKKISNVNEALAAFEK CEA1_SHISO 379 379 GKKISNVNEALAAFEK Q46745 380 380 GKKISNVNEALAAFEK Q46744 380 380 GKKIGNVNEALAAFEK Q57462 380 380 GKKIGNVNEALAAFEK Q46746 380 380 GKKIQGVDEALAAFEK CEAK_ECOLI 406 406 GKKIRNVEEALKTYEK Q46732 484 484 GKKIRNVEEALKTYEK Q46740 484 484 GKKIRNVEEALKTYEK Q46738 484 484 GKKIRNVEEALKTYEK Q46734 484 484 GKKIRNVEEALKTYEK CEIA_ECOLI 484 484 GKKIRNVEEALKTYEK Q46737 484 484 GKKIRNVEEALKTYEK Q46736 484 484 GSKFSSVDEALAAFEK CE05_ECOLI 348 348 GSKFNSVDEALAAFEK CE10_ECOLI 348 348 GKQIKSVDDALNAFDK CEIB_ECOLI 484 484 GKTIRSYDEAMASVNK O24681 465 465 GKTIRSFDDAMASLNK CEA_CITFR 438 438 GKTIRSYDDAMSSINK CEAB_ECOLI 359 359 CHANLCOLICIN2 Length of motif = 17 Motif number = 2 Colicin motif II - 2 PCODE ST INT VLNKKFSKADRDAIFNA CEA1_ECOLI 399 3 VLNKKFSKADRDAIFNA Q51626 399 3 VLNKKFSKADRDAIFNA Q46743 399 3 VLNKKFSKADRDAIFNA Q46742 399 3 VLNKKFSKADRDAIFNA CEA1_SHISO 398 3 VLNKKFSKADRDAIFNA Q46745 399 3 VLNKKFSKADRDAIFNA Q46744 399 3 VLNKKFSKADRDAIFNA Q57462 399 3 VLNKKFSKADRDAIFNA Q46746 399 3 VLDKKFSKVDRDAIFNA CEAK_ECOLI 425 3 DINKKINAKDRAAIAAA Q46732 503 3 DINKKINAKDRAAIAAA Q46740 503 3 DINKKINAKDRAAIAAA Q46738 503 3 DINKKINAKDRAAIAAA Q46734 503 3 DINKKINAKDRAAIAAA CEIA_ECOLI 503 3 DINKKINAKDRAAIAAA Q46737 503 3 DINKKINAKDRAAIAAA Q46736 503 3 VLDKKISKVDRDAIFNA CE05_ECOLI 367 3 VLDKKFSKVDRDDIFNA CE10_ECOLI 367 3 NLNKKYNIQDRMAISKA CEIB_ECOLI 503 3 NPDLKINAADRDAIVNA O24681 484 3 NPAMKINKADRDALVNA CEA_CITFR 457 3 NPSLKINATDKEAIVNA CEAB_ECOLI 378 3 CHANLCOLICIN3 Length of motif = 14 Motif number = 3 Colicin motif III - 2 PCODE ST INT TGDWKPLFLTLEKK CEA1_ECOLI 457 41 TGDWKPLFLTLEKK Q51626 457 41 TGDWKPLFLTLEKK Q46743 457 41 TGDWKPLFLTLEKK Q46742 457 41 TGDWKPLFLTLEKK CEA1_SHISO 456 41 TGDWKPLFLTLEKK Q46745 457 41 TGDWKPLFLTLEKK Q46744 457 41 TGDWKPLFLTLEKK Q57462 457 41 TGDWKLLFLTLEKK Q46746 457 41 TGNWRPLFVTLEKS CEAK_ECOLI 483 41 TENWRPLFVKTEAI Q46732 561 41 TENWRPLFVKTEAI Q46740 561 41 TENWRPLFVKTEAI Q46738 561 41 TENWRPLFVKTEAI Q46734 561 41 TENWRPLFVKTETI CEIA_ECOLI 561 41 TENWRPLFVKTETI Q46737 561 41 TENWRPLFVKTETI Q46736 561 41 TGNWRPLFVTLEKS CE05_ECOLI 425 41 TGDWKPLFVTLEKS CE10_ECOLI 425 41 TDNWRPFFVKLESL CEIB_ECOLI 561 41 TGNWGPLMLEIESW O24681 542 41 TGNWGPLMLEVESW CEA_CITFR 515 41 TGNWGPLMLEVESW CEAB_ECOLI 436 41 CHANLCOLICIN4 Length of motif = 19 Motif number = 4 Colicin motif IV - 2 PCODE ST INT AADAGVSYVVALLFSLLAG CEA1_ECOLI 471 0 AADAGVSYVVALLFSLLAG Q51626 471 0 AADAGVSYVVALLFSLLAG Q46743 471 0 AVDAGVSYVVVLLFSVLAG Q46742 471 0 AVDAGVSYVVVLLFSVLAG CEA1_SHISO 470 0 AVDAGVSYVVVLLFSVLAG Q46745 471 0 AVDAGVSYVVVLLFSVLAG Q46744 471 0 AVDAGVSYIVVLLFSVLAG Q57462 471 0 AVDAGVSYVVVLLFSVLAG Q46746 471 0 AVDVGVAKIVALMFSFIVG CEAK_ECOLI 497 0 IAGNAATALVALVFSILTG Q46732 575 0 IAGNAATALVALVFSILTG Q46740 575 0 IAGNAATALVALVFSILTG Q46738 575 0 IAGNAATALVALVFSILTG Q46734 575 0 IAGNAATALVALVFSILTG CEIA_ECOLI 575 0 IAGNAATALVALVFSILTG Q46737 575 0 IAGNAATALVALVFSILTG Q46736 575 0 AVDVGVAKIVALMFSFIVG CE05_ECOLI 439 0 AVDFGVAKIVALMFSFIVG CE10_ECOLI 439 0 AAGRAASAVTAWAFSVMLG CEIB_ECOLI 575 0 VLSGIASAVALSFFSAIFG O24681 556 0 VLSGIASSVALGIFSATLG CEA_CITFR 529 0 VISGMASAVALSLFSLTLG CEAB_ECOLI 450 0

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