WORKLIST ENTRIES (1):
MICROCIN View alignment Colicin E1 (microcin) immunity protein signature
Type of fingerprint: COMPOUND with 5 elements
Links:
PRINTS; PR01295 CLOACIN; PR01296 CLOACNIMMNTY; PR01297 LYSISCOLICIN
PRINTS; PR01299 PYOCIN; PR01300 PYOCINKILLER
Creation date 12-MAR-2000
1. WALEH, N.S. AND JOHNSON, P.H.
Structural and functional organization of the colicin E1 operon.
PROC.NATL.ACAD.SCI.U.S.A. 82 8389-8393 (1985).
2. OKA, A., NOMURA, N., MORITA, M., SUGISAKI, H., SUGIMOTO, K.
AND TAKANAMI, M.
Nucleotide sequence of small ColE1 derivatives: structure of the regions
essential for autonomous replication and colicin E1 immunity.
MOL.GEN.GENET. 172 151-159 (1979).
The structural and functional relationships among independently cloned
segments of the plasmid ColE1 region that regulates and codes for colicin E1
(cea), immunity (imm) and the mitomycin C-induced lethality function (lys)
have been analysed [1]. A model for the structure and expression of the
colicin E1 operon has been proposed in which the cea and lys genes are
expressed from a single inducible promoter that is controlled by the lexA
repressor in response to the SOS system of Escherichia coli [1]. The imm
gene lies between the cea and lys genes and is expressed by transcription
in the opposite direction from a promoter located within the lys gene [1].
This arrangement indicates that the transcriptional units for all three
genes overlap. It is proposed that the formation of anti-sense RNA may
be an important element in the coordinate regulation of gene expression
in this system [1].
Hydropathy analysis of the imm gene products suggests that they have
hydrophobic domains characteristic of membrane-associated proteins [1].
The microcin E1 immunity protein is able to protect a cell that harbours
the plasmid ColE1 encoding colicin E1 against colicin E1; it is thus
essential both for autonomous replication and colicin E1 immunity [2].
MICROCIN is a 5-element fingerprint that provides a signature for microcins.
The fingerprint was derived from an initial alignment of 3 sequences: the
motifs were drawn from conserved regions spanning the full alignment length
- motifs 1, 2 and 5 each span hydrophobic domains. A single iteration on
SPTR37_10f was required to reach convergence, no further sequences being
identified beyond the starting set. A single partial match was found,
O87672, an uncharacterised protein from Aeromonas hydrophila that lacks
part of the final motif.
SUMMARY INFORMATION
3 codes involving 5 elements
1 codes involving 4 elements
0 codes involving 3 elements
0 codes involving 2 elements
COMPOSITE FINGERPRINT INDEX
5| 3 3 3 3 3
4| 1 1 1 1 0
3| 0 0 0 0 0
2| 0 0 0 0 0
--+--------------------------
| 1 2 3 4 5
True positives..
IMM0_ECOLI IMM1_ECOLI IMM1_SHISO
Subfamily: Codes involving 4 elements
Subfamily True positives..
O87672
PROTEIN TITLES
IMM0_ECOLI COLICIN E1 IMMUNITY PROTEIN (IMME1) (MICROCIN E1 IMMUNITY PR
IMM1_ECOLI COLICIN E1 IMMUNITY PROTEIN (IMME1) (MICROCIN E1 IMMUNITY PR
IMM1_SHISO COLICIN E1* IMMUNITY PROTEIN (IMME1) (MICROCIN E1* IMMUNITY
O87672 12.5 KDA POLYPEPTIDE - AEROMONAS HYDROPHILA.
SCAN HISTORY
SPTR37_10f 1 50 NSINGLE
INITIAL MOTIF SETS
MICROCIN1 Length of motif = 23 Motif number = 1
Microcin E1 immunity protein motif I - 1
PCODE ST INT
RYYIKNILFGLYCTLIYIYLITK IMM0_ECOLI 4 4
RYYIKNILFGLYCTLIYIYLITK IMM1_ECOLI 4 4
RYYIKNILFGLYCALIYIYLITK IMM1_SHISO 4 4
MICROCIN2 Length of motif = 22 Motif number = 2
Microcin E1 immunity protein motif II - 1
PCODE ST INT
YYFLVTDKMLYAIVISTILCPY IMM0_ECOLI 31 4
YYFLVSDKMLYAIVISTILCPY IMM1_ECOLI 31 4
YYFLASDKMLYAIVISTILCPY IMM1_SHISO 31 4
MICROCIN3 Length of motif = 18 Motif number = 3
Microcin E1 immunity protein motif III - 1
PCODE ST INT
YSKYAIEHIAFNFIKKHF IMM0_ECOLI 52 -1
YSKYAIEYIAFNFIKKDF IMM1_ECOLI 52 -1
YSKYAIEHIFFKFIKKDF IMM1_SHISO 52 -1
MICROCIN4 Length of motif = 14 Motif number = 4
Microcin E1 immunity protein motif IV - 1
PCODE ST INT
FERRKNLNNAPVAK IMM0_ECOLI 70 0
FERRKNLNNAPVAK IMM1_ECOLI 70 0
FRKRKNLNKCPRGK IMM1_SHISO 70 0
MICROCIN5 Length of motif = 22 Motif number = 5
Microcin E1 immunity protein motif V - 1
PCODE ST INT
YNLLCLVLAIPFGLLGLFISIK IMM0_ECOLI 90 6
YNLLCLVLAIPFGLLELFISIK IMM1_ECOLI 90 6
YNLLCLVLAIPFGLLGLVYINK IMM1_SHISO 91 7
FINAL MOTIF SETS
MICROCIN1 Length of motif = 23 Motif number = 1
Microcin E1 immunity protein motif I - 1
PCODE ST INT
RYYIKNILFGLYCTLIYIYLITK IMM0_ECOLI 4 4
RYYIKNILFGLYCTLIYIYLITK IMM1_ECOLI 4 4
RYYIKNILFGLYCALIYIYLITK IMM1_SHISO 4 4
MICROCIN2 Length of motif = 22 Motif number = 2
Microcin E1 immunity protein motif II - 1
PCODE ST INT
YYFLVTDKMLYAIVISTILCPY IMM0_ECOLI 31 4
YYFLVSDKMLYAIVISTILCPY IMM1_ECOLI 31 4
YYFLASDKMLYAIVISTILCPY IMM1_SHISO 31 4
MICROCIN3 Length of motif = 18 Motif number = 3
Microcin E1 immunity protein motif III - 1
PCODE ST INT
YSKYAIEHIAFNFIKKHF IMM0_ECOLI 52 -1
YSKYAIEYIAFNFIKKDF IMM1_ECOLI 52 -1
YSKYAIEHIFFKFIKKDF IMM1_SHISO 52 -1
MICROCIN4 Length of motif = 14 Motif number = 4
Microcin E1 immunity protein motif IV - 1
PCODE ST INT
FERRKNLNNAPVAK IMM0_ECOLI 70 0
FERRKNLNNAPVAK IMM1_ECOLI 70 0
FRKRKNLNKCPRGK IMM1_SHISO 70 0
MICROCIN5 Length of motif = 22 Motif number = 5
Microcin E1 immunity protein motif V - 1
PCODE ST INT
YNLLCLVLAIPFGLLGLFISIK IMM0_ECOLI 90 6
YNLLCLVLAIPFGLLELFISIK IMM1_ECOLI 90 6
YNLLCLVLAIPFGLLGLVYINK IMM1_SHISO 91 7
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