WORKLIST ENTRIES (1): PYOCIN View alignment View Structure Colicin E2 (pyocin) immunity protein signature Type of fingerprint: COMPOUND with 3 elements Links: PRINTS; PR01295 CLOACIN; PR01296 CLOACNIMMNTY; PR01297 LYSISCOLICIN PRINTS; PR01298 MICROCIN; PR01300 PYOCINKILLER PDB; 1IMQ 3Dinfo; 1IMP 3Dinfo SCOP; 1IMQ; 1IMP CATH; 1IMQ; 1IMP Creation date 17-FEB-2000 1. COLE, S.T., SAINT-JOANIS, B. AND PUGSLEY, A.P. Molecular characterisation of the colicin E2 operon and identification of its products. MOL.GEN.GENET. 198 465-472 (1985). 2. 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). 3. VAN DEN ELZEN, P.J., GAASTRA, W., SPELT, C.E., DE GRAAF, F.K., VELTKAMP, E. AND NIJKAMP, H.J. Molecular structure of the immunity gene and immunity protein of the bacteriocinogenic plasmid Clo DF13. NUCLEIC ACIDS RES. 8 4349-4363 (1980). 4. OSBORNE, M.J., BREEZE, A.L., LIAN, L.Y., REILLY, A., JAMES, R., KLEANTHOUS, C. AND MOORE, G.R. Three-dimensional solution structure and 13C nuclear magnetic resonance assignments of the colicin E9 immunity protein Im9. BIOCHEMISTRY 35 9505-9512 (1996). The DNA sequence of the entire colicin E2 operon has been determined . The operon comprises the colicin activity gene (ceaB), the colicin immunity gene (ceiB) and the lysis gene (celB), which is essential for colicin release from producing cells . A putative LexA binding site is located upstream from ceaB, and a rho-independent terminator structure is located downstream from celB . Comparison of the amino acid sequences of colicin E2 and cloacin DF13 reveal extensive similarity. These colicins have different modes of action and recognise different cell surface receptors; the two major regions of heterology at the C-terminus, and in the C-terminal end of the central region are thought to correspond to the catalytic and receptor-recognition domains, respectively . Sequence similarities between colicins E2, A and E1  are less striking. The colicin E2 (pyocin) immunity protein does not share similarity with either the colicin E3 or cloacin DF13  immunity proteins. Pyocin protects a cell that harbours the plasmid ColE2 encoding colicin E2 against colicin E2; it is thus essential both for autonomous replication and colicin E2 immunity . The three-dimensional structure of the colicin E9 immunity protein Im9 has been solved by NMR . The fold is a distorted anti-parallel four-helix bundle, in which the third helix is rather short, a structure consistent with available kinetic and biochemical data concerning the interaction between Im9 and its target DNase . Important residues that govern specificity are located on the molecular surface in a region rich in negatively charged groups, consistent with the proposed electrostatically- steered association . PYOCIN is a 3-element fingerprint that provides a signature for pyocins. The fingerprint was derived from an initial alignment of 6 sequences: the motifs were drawn from conserved regions spanning the full alignment length - motif 1 includes helix 1; motif 2 spans the C-terminus of helix 2 and helix 3; and motif 3 includes helix 4. Two iterations on SPTR37_10f were required to reach convergence, at which point a true set comprising 9 sequences was identified. SUMMARY INFORMATION 9 codes involving 3 elements 0 codes involving 2 elements COMPOSITE FINGERPRINT INDEX 3| 9 9 9 2| 0 0 0 --+---------------- | 1 2 3 True positives.. IMM2_ECOLI IMM2_PSEAE IMM1_PSEAE IMM7_ECOLI IMM9_ECOLI IMM8_ECOLI Q57086 IMMX_ECOLI Q51503 PROTEIN TITLES IMM2_ECOLI COLICIN E2 IMMUNITY PROTEIN (IMME2) (MICROCIN E2 IMMUNITY PR IMM2_PSEAE IMMUNITY PROTEIN FOR PYOCIN S2 - PSEUDOMONAS AERUGINOSA. IMM1_PSEAE IMMUNITY PROTEIN FOR PYOCIN S1 - PSEUDOMONAS AERUGINOSA. IMM7_ECOLI COLICIN E7 IMMUNITY PROTEIN (IMME7) (MICROCIN E7 IMMUNITY PR IMM9_ECOLI COLICIN E9 IMMUNITY PROTEIN (IMME9) (MICROCIN E9 IMMUNITY PR IMM8_ECOLI COLICIN E8 IMMUNITY PROTEIN (IMME8) (MICROCIN E8 IMMUNITY PR Q57086 IMMUNITY PROTEIN 8 - SHIGELLA SONNEI, AND UNIDENTIFIED. IMMX_ECOLI COLICIN E8 IMMUNITY PROTEIN IN COLE6 (E8IMM[E6]) - ESCHERICH Q51503 THE SMALL COMPONENT OF PYOCIN AP41 - PSEUDOMONAS AERUGINOSA.
SCAN HISTORY SPTR37_10f 1 100 NSINGLE INITIAL MOTIF SETS PYOCIN1 Length of motif = 19 Motif number = 1 Pyocin motif I - 1 PCODE ST INT KSKISEYTEKEFLEFVEDI IMM1_PSEAE 2 2 KHSISDYTEAEFLEFVKKI IMM2_ECOLI 4 4 KNSISDYTEAEFVQLLKEI IMM7_ECOLI 4 4 KNSISDYTETEFKKIIEDI IMM8_ECOLI 4 4 KHSISDYTEAEFLQLVTTI IMM9_ECOLI 4 4 KSKISEYTEKEFLEFVKDI IMM2_PSEAE 2 2 PYOCIN2 Length of motif = 17 Motif number = 2 Pyocin motif II - 1 PCODE ST INT FKKLTEHPSGSDLLYYP IMM1_PSEAE 41 20 FERLTEHPDGSDLIYYP IMM2_ECOLI 40 17 FVKITEHPDGTDLIYYP IMM7_ECOLI 41 18 FISVTEHPSGSDLIYYP IMM8_ECOLI 39 16 FEEMTEHPSGSDLIYYP IMM9_ECOLI 40 17 FKKLTEHPSGSDLLYYP IMM2_PSEAE 41 20 PYOCIN3 Length of motif = 22 Motif number = 3 Pyocin motif III - 1 PCODE ST INT SPAGVVKEVKEWRASKGLPGFK IMM1_PSEAE 64 6 SPEGIVKEIKEWRAANGKSGFK IMM2_ECOLI 63 6 SPEGIVKEIKEWRAANGKPGFK IMM7_ECOLI 64 6 SPEAVIKEIKEWRAANGKSGFK IMM8_ECOLI 62 6 SPSGIVNTVKQWRAANGKSGFK IMM9_ECOLI 63 6 SPAGVVKEVKEWRASKGLPGFK IMM2_PSEAE 64 6 FINAL MOTIF SETS PYOCIN1 Length of motif = 19 Motif number = 1 Pyocin motif I - 2 PCODE ST INT KHSISDYTEAEFLEFVKKI IMM2_ECOLI 4 4 KSKISEYTEKEFLEFVKDI IMM2_PSEAE 2 2 KSKISEYTEKEFLEFVEDI IMM1_PSEAE 2 2 KNSISDYTEAEFVQLLKEI IMM7_ECOLI 4 4 KHSISDYTEAEFLQLVTTI IMM9_ECOLI 4 4 KNSISDYTETEFKKIIEDI IMM8_ECOLI 4 4 KKSIGDYTETEFKKFIEDI Q57086 4 4 KKSIGDYTETEFKKIIENI IMMX_ECOLI 4 4 KNNLSDYTESEFLEIIEEF Q51503 4 4 PYOCIN2 Length of motif = 17 Motif number = 2 Pyocin motif II - 2 PCODE ST INT FERLTEHPDGSDLIYYP IMM2_ECOLI 40 17 FKKLTEHPSGSDLLYYP IMM2_PSEAE 41 20 FKKLTEHPSGSDLLYYP IMM1_PSEAE 41 20 FVKITEHPDGTDLIYYP IMM7_ECOLI 41 18 FEEMTEHPSGSDLIYYP IMM9_ECOLI 40 17 FISVTEHPSGSDLIYYP IMM8_ECOLI 39 16 FINVTEHPSGSDLIYYP Q57086 39 16 FISVTEHPSGSDLIYYP IMMX_ECOLI 39 16 FEEVTSHPRKSGVIFHP Q51503 45 22 PYOCIN3 Length of motif = 22 Motif number = 3 Pyocin motif III - 2 PCODE ST INT SPEGIVKEIKEWRAANGKSGFK IMM2_ECOLI 63 6 SPAGVVKEVKEWRASKGLPGFK IMM2_PSEAE 64 6 SPAGVVKEVKEWRASKGLPGFK IMM1_PSEAE 64 6 SPEGIVKEIKEWRAANGKPGFK IMM7_ECOLI 64 6 SPSGIVNTVKQWRAANGKSGFK IMM9_ECOLI 63 6 SPEAVIKEIKEWRAANGKSGFK IMM8_ECOLI 62 6 SPEGVIKEIKEWRAANGKSGFK Q57086 62 6 SPEAVIKEIKEWRAANGKSGFK IMMX_ECOLI 62 6 TPEGIVKEVKEWRAANGLPGFK Q51503 67 5
User query: Display/Full Code "PYOCIN"