ISPpu12
- Family ISL3
- Group
Isoform Synonym(s)
| Accession number | Transposition | Origin | Host |
|---|---|---|---|
| AY128707 | Y | Pseudomonas putida | Pseudomonas sp. LM14 Shewanella putrefaciens 200 Shewanella putrefaciens CN-32 Shewanella putrefaciens W3-18-1 Pseudomonas putida plasmid pWW0 |
DNA section
IS Length : 3372 bp
Ends
IR Length : 21/24
IRL : GGGTAAGCGGATTAAATGGTTGATCTTACCTTTGCATGAGAGTGAGACAG
IRR : GGGTATACGGATTTAATGGTTGATGGGGCACCTTCACCCCATCAATCTGA
Insertion site
| Left flank | Direct repeat | Right flank | DR Length |
|---|---|---|---|
| TGAACAGCAA | AAAAATGA | AAAATATCAA | 8 |
DNA sequence
GGGTAAGCGGATTAAATGGTTGATCTTACCTTTGCATGAGAGTGAGACAGACCGGCATCTCATCGGATTATCTGGTTGATGCTTCACCTACTGCTGGTGC
ATGTTTCCTTCGCTAATTCCAGCAAGAACCCCACACGCCTCAACTTCCCGGTCATCGTTGCAACTCGCTCTCAGTGAAACGAGTTGTTTCTCAAGCGCTT
GCAGAGCGGTTATCTGCGACCGCACATGAGAGATGTGATCATCGAGCAAGGCGTTGACGGCGGTACAAGGCTGATGAGGGTCGTCCTGATAGCGCTTTAG
TTCGTGAATTTCTGCCAGTGACAGATCCAGGATGCGGCAGCGACGAATAAAGGCCAGCCGCTCAACGTGTTTCTCGGTATAGACACGGTAACCGTTGTCC
TGCCGATCAGGCGGCGGCAACAAGCCCTGCTGTTCATAGAAGCGGATCGTCTGTGTTTCGACCCCTACCAACTGCGCCAACTGACCAATGCGCATCAGCC
TCCTCCCCAACGGATTCTTTACTCTATTGACCTTATAGTAGCTTTATAGTTTTAAATGGTACCACAACATTGTTCAAGTGGAGTCGTATCATGAGCAAAT
CCTGTGGTGGCGCCTGTGGCGGTGATGCAACGTCCGCAGCGGATACCGATATACAGGCCTCCTCCGAGGCGCCAGGGAGATGGGTCAGTGTTTATGCCGT
GCCGAAGATGGACTGTCCATCAGAAGAACGAATGATTCGCCTAGCCCTGAACGGCTTTGAGGAGATTCGGGCGCTGTCCTTCGACTTGTCGAACCGCCGG
CTGAAGGTCGTGCATGACGGCGAGGTCGAGCCCGTCACCTCGAAACTGAAGACCTTGGGGCTAGGCGCCTCGCTTCAGGAAACCGTCGCTGCAAATCCGG
AGACCATCAAGGCCGCCGAGTTTTCGGCAGCTTCTGCTAAGCAAGAATCCGGGACCCTGCGCTGGTTGCTCGGCATCAATGCACTTCTGTTCGTGGTGGA
AATGACTGCCGGTCTGATCGCCCGGTCCACCGGCCTGATTGGAGAATCCCTGGACAATTTTGCCGATGCGGCGGTGTACGGGCTTGCCCTTTATGCGGTT
GGACATAGCGTGAAAATGCAGGTACGTGCCGCGCATCTTGCTGGTGTACTGCAACTGATCTTGGCTGTGGGCGTGCTCGTAGAGGTGGTGAGACGCTTTG
TATTCGGTAGTGAGCCTGAATCGCTGGTGATGATGGCTATCGCATTCGTCGCATTGATTGCCAATACCAGTTGTCTGCTGCTCATATCCAAACATCGGGA
AGGCGGGGCGCACATGAAGGCAAGCTGGATATTCTCGGCCAACGACGTGGTGATCAACCTGGGGGTCATCACCGCCGGCGCCCTGGTCGCGTGGACCGGT
TCCAATTATCCGGATCTGATTATCGGCACCATCGCGGGGGGCATTGTACTTAACGGTGCCAGACGCATTTTGGCGTTGAAGGGTTAAATAATGCTCATTA
TTGGCAAAAAGCTCTCGCCGTATGCCCTATTGTCCATATCGGGCCTGCTGGCAGCGTCTGATCAGGCTGTAAAGTGGCTGGTGCAGCAATCAATGGCCTA
TGGCGAGTATGTTTCGGTGACCCCGTTCTTTAACTGGGTGCACCTATGGAACACCGGTGCCGCATTCAGTCTTTTTGCGAATGGTGGAGGCTGGCAGCGC
TACTTTTTTATCGGAATCGCGGTAGTGGTCTCGATTTTTCTGATCAAGCTGATCCTTGAAAATCGTCATAAAGGAGAAGCCATCGCTTACAGTCTTATCC
TCGGTGGCGCCATGGGCAACCTGATTGACCGGGTCTTTCGCGGCTATGTTGTGGATTCCTTTGATTTCTATTGGCGAGACTGGCATTGGCCGGCCTTCAA
CCTGGCTGATATTGCAATTGTCCTCGGTGCCTTACTTTTCGTTTCCAGCAGCTTGTTGGGTAAAAAAGCAAACACCAATGCCGAGTCGGATGGATCTGAC
TGACACCTACGCCTATACAACACCATGACCGAACTTCCCGACAACATCCTTCACCTGCCGCAATACCAAGTACTGGGCTGCAAATCAACCGACGACGAAA
TGCACTTCCAGGTGGACGTGCCCGATCCCATCGCCTGCGAGGAATGCGGCGTGCAGGGTGAGTTCGTACGGTTCGGCAAGCGTGACGTTCCCTATCGTGA
TCTGCCCATCCACGGCAAGCGGGTCACTCTCTGGGTGGTCCGCCGCCGATACACCTGCCGGGCCTGCAAGACAACATTCAGGCCCCAGCTACCGGAGATG
GTGGACGGATTCCGTATGACACTGCGGCTGCATGAGTACGTGGAGAAGGAATCCTTCAACCACCCCTACACCTTTGTGGCGGCACAGACCGGCCTGGACG
AGAAGACGGTGCGCGACATCTTCAACGCCCGCGCCGAGTTCCTGGGGCGCTGGCACCGCTTCGAGACGCCCCGCATCCTGGGCATTGACGAGCTATACCT
GAACAAGCGCTACCGCTGCATTCTGACCAACATTGAGGAGCGAACCCTGCTCGACCTGCTGGCCACCCGCCGCCAGGACGTGGTGACCAACTACCTGATG
AAGCTGAAAGACCGGCAGAAGGTCGAGATCGTCAGCATGGACATGTGGAACCCCTACCGGGCAGCGGTCAAGGCTGTGCTGCCCCAGGCCCGTATCGTGG
TCGATAAGTTCCATGTGGTGCGCATGGCCAACGATGCCCTAGAGAGAGTGCGCAAGGGCCTCAGAAAGGAGCTGAAACCGTCCCAGAGCCGGACTCTCAA
GGGAGACCGGAAAATCCTGCTGAAACGCGCTCACGAAGTCTCAGACCGGGAGCGCCTCATCATGGAGACCTGGACAGGCGCGTTCCCGCAACTGCTGGCC
GCCTACGAGCACAAGGAGCGCTTCTACGGCATCTGGGACGCCACCACACGGCTCCAGGCAGAAGCCGCCCTGGACGAGTGGATAGCCACCATCCCGAAGG
GCCAAAAGGAAGTCTGGAGCGATCTGGTCAGGGCAGTGGGAAACTGGCGCGAAGAGACCATGACCTACTTCGAGACGGACATGCCCGTCACCAACGCTTA
CACGGAGTCCATCAACCGACTGGCCAAGGACAAGAACCGTGAAGGGCGCGGTTACTCCTTCGAGGTGATGCGGGCACGAATGCTCTACACCACGAAGCAC
AAGAAGAAGGCACCGACTGCGAAGGTCTCTCCTTTCTACAAGAAAACCATCGGTTACGGACTGCCGGACTTCGCAGAGGAACTCAACTACGGAGTCGATC
TATCAACCATCTGAGGGTGGTATCAGATTGATGGGGTGAAGGTGCCCCATCAACCATTAAATCCGTATACCC
ATGTTTCCTTCGCTAATTCCAGCAAGAACCCCACACGCCTCAACTTCCCGGTCATCGTTGCAACTCGCTCTCAGTGAAACGAGTTGTTTCTCAAGCGCTT
GCAGAGCGGTTATCTGCGACCGCACATGAGAGATGTGATCATCGAGCAAGGCGTTGACGGCGGTACAAGGCTGATGAGGGTCGTCCTGATAGCGCTTTAG
TTCGTGAATTTCTGCCAGTGACAGATCCAGGATGCGGCAGCGACGAATAAAGGCCAGCCGCTCAACGTGTTTCTCGGTATAGACACGGTAACCGTTGTCC
TGCCGATCAGGCGGCGGCAACAAGCCCTGCTGTTCATAGAAGCGGATCGTCTGTGTTTCGACCCCTACCAACTGCGCCAACTGACCAATGCGCATCAGCC
TCCTCCCCAACGGATTCTTTACTCTATTGACCTTATAGTAGCTTTATAGTTTTAAATGGTACCACAACATTGTTCAAGTGGAGTCGTATCATGAGCAAAT
CCTGTGGTGGCGCCTGTGGCGGTGATGCAACGTCCGCAGCGGATACCGATATACAGGCCTCCTCCGAGGCGCCAGGGAGATGGGTCAGTGTTTATGCCGT
GCCGAAGATGGACTGTCCATCAGAAGAACGAATGATTCGCCTAGCCCTGAACGGCTTTGAGGAGATTCGGGCGCTGTCCTTCGACTTGTCGAACCGCCGG
CTGAAGGTCGTGCATGACGGCGAGGTCGAGCCCGTCACCTCGAAACTGAAGACCTTGGGGCTAGGCGCCTCGCTTCAGGAAACCGTCGCTGCAAATCCGG
AGACCATCAAGGCCGCCGAGTTTTCGGCAGCTTCTGCTAAGCAAGAATCCGGGACCCTGCGCTGGTTGCTCGGCATCAATGCACTTCTGTTCGTGGTGGA
AATGACTGCCGGTCTGATCGCCCGGTCCACCGGCCTGATTGGAGAATCCCTGGACAATTTTGCCGATGCGGCGGTGTACGGGCTTGCCCTTTATGCGGTT
GGACATAGCGTGAAAATGCAGGTACGTGCCGCGCATCTTGCTGGTGTACTGCAACTGATCTTGGCTGTGGGCGTGCTCGTAGAGGTGGTGAGACGCTTTG
TATTCGGTAGTGAGCCTGAATCGCTGGTGATGATGGCTATCGCATTCGTCGCATTGATTGCCAATACCAGTTGTCTGCTGCTCATATCCAAACATCGGGA
AGGCGGGGCGCACATGAAGGCAAGCTGGATATTCTCGGCCAACGACGTGGTGATCAACCTGGGGGTCATCACCGCCGGCGCCCTGGTCGCGTGGACCGGT
TCCAATTATCCGGATCTGATTATCGGCACCATCGCGGGGGGCATTGTACTTAACGGTGCCAGACGCATTTTGGCGTTGAAGGGTTAAATAATGCTCATTA
TTGGCAAAAAGCTCTCGCCGTATGCCCTATTGTCCATATCGGGCCTGCTGGCAGCGTCTGATCAGGCTGTAAAGTGGCTGGTGCAGCAATCAATGGCCTA
TGGCGAGTATGTTTCGGTGACCCCGTTCTTTAACTGGGTGCACCTATGGAACACCGGTGCCGCATTCAGTCTTTTTGCGAATGGTGGAGGCTGGCAGCGC
TACTTTTTTATCGGAATCGCGGTAGTGGTCTCGATTTTTCTGATCAAGCTGATCCTTGAAAATCGTCATAAAGGAGAAGCCATCGCTTACAGTCTTATCC
TCGGTGGCGCCATGGGCAACCTGATTGACCGGGTCTTTCGCGGCTATGTTGTGGATTCCTTTGATTTCTATTGGCGAGACTGGCATTGGCCGGCCTTCAA
CCTGGCTGATATTGCAATTGTCCTCGGTGCCTTACTTTTCGTTTCCAGCAGCTTGTTGGGTAAAAAAGCAAACACCAATGCCGAGTCGGATGGATCTGAC
TGACACCTACGCCTATACAACACCATGACCGAACTTCCCGACAACATCCTTCACCTGCCGCAATACCAAGTACTGGGCTGCAAATCAACCGACGACGAAA
TGCACTTCCAGGTGGACGTGCCCGATCCCATCGCCTGCGAGGAATGCGGCGTGCAGGGTGAGTTCGTACGGTTCGGCAAGCGTGACGTTCCCTATCGTGA
TCTGCCCATCCACGGCAAGCGGGTCACTCTCTGGGTGGTCCGCCGCCGATACACCTGCCGGGCCTGCAAGACAACATTCAGGCCCCAGCTACCGGAGATG
GTGGACGGATTCCGTATGACACTGCGGCTGCATGAGTACGTGGAGAAGGAATCCTTCAACCACCCCTACACCTTTGTGGCGGCACAGACCGGCCTGGACG
AGAAGACGGTGCGCGACATCTTCAACGCCCGCGCCGAGTTCCTGGGGCGCTGGCACCGCTTCGAGACGCCCCGCATCCTGGGCATTGACGAGCTATACCT
GAACAAGCGCTACCGCTGCATTCTGACCAACATTGAGGAGCGAACCCTGCTCGACCTGCTGGCCACCCGCCGCCAGGACGTGGTGACCAACTACCTGATG
AAGCTGAAAGACCGGCAGAAGGTCGAGATCGTCAGCATGGACATGTGGAACCCCTACCGGGCAGCGGTCAAGGCTGTGCTGCCCCAGGCCCGTATCGTGG
TCGATAAGTTCCATGTGGTGCGCATGGCCAACGATGCCCTAGAGAGAGTGCGCAAGGGCCTCAGAAAGGAGCTGAAACCGTCCCAGAGCCGGACTCTCAA
GGGAGACCGGAAAATCCTGCTGAAACGCGCTCACGAAGTCTCAGACCGGGAGCGCCTCATCATGGAGACCTGGACAGGCGCGTTCCCGCAACTGCTGGCC
GCCTACGAGCACAAGGAGCGCTTCTACGGCATCTGGGACGCCACCACACGGCTCCAGGCAGAAGCCGCCCTGGACGAGTGGATAGCCACCATCCCGAAGG
GCCAAAAGGAAGTCTGGAGCGATCTGGTCAGGGCAGTGGGAAACTGGCGCGAAGAGACCATGACCTACTTCGAGACGGACATGCCCGTCACCAACGCTTA
CACGGAGTCCATCAACCGACTGGCCAAGGACAAGAACCGTGAAGGGCGCGGTTACTCCTTCGAGGTGATGCGGGCACGAATGCTCTACACCACGAAGCAC
AAGAAGAAGGCACCGACTGCGAAGGTCTCTCCTTTCTACAAGAAAACCATCGGTTACGGACTGCCGGACTTCGCAGAGGAACTCAACTACGGAGTCGATC
TATCAACCATCTGAGGGTGGTATCAGATTGATGGGGTGAAGGTGCCCCATCAACCATTAAATCCGTATACCC
Protein section
ORF number : 4
ORF 1
| Length | Begin | End | Strand | Fusion ORF | |
|---|---|---|---|---|---|
| 408 bp | 135 aa | 495 | 88 | - | No |
Annotation : PnbR-like regulatory proteinDescription :
ORF sequence :
MRIGQLAQLVGVETQTIRFYEQQGLLPPPDRQDNGYRVYTEKHVERLAFIRRCRILDLSLAEIHELKRYQDDPHQPCTAVNALLDDHISHVRSQITALQA
LEKQLVSLRASCNDDREVEACGVLAGISEGNMHQQ
LEKQLVSLRASCNDDREVEACGVLAGISEGNMHQQ
Blast result :ORF 2
| Length | Begin | End | Strand | Fusion ORF | |
|---|---|---|---|---|---|
| 897 bp | 298 aa | 591 | 1487 | + | No |
Annotation : Putative membrane/transport proteinDescription :
ORF sequence :
MSKSCGGACGGDATSAADTDIQASSEAPGRWVSVYAVPKMDCPSEERMIRLALNGFEEIRALSFDLSNRRLKVVHDGEVEPVTSKLKTLGLGASLQETVA
ANPETIKAAEFSAASAKQESGTLRWLLGINALLFVVEMTAGLIARSTGLIGESLDNFADAAVYGLALYAVGHSVKMQVRAAHLAGVLQLILAVGVLVEVV
RRFVFGSEPESLVMMAIAFVALIANTSCLLLISKHREGGAHMKASWIFSANDVVINLGVITAGALVAWTGSNYPDLIIGTIAGGIVLNGARRILALKG
ANPETIKAAEFSAASAKQESGTLRWLLGINALLFVVEMTAGLIARSTGLIGESLDNFADAAVYGLALYAVGHSVKMQVRAAHLAGVLQLILAVGVLVEVV
RRFVFGSEPESLVMMAIAFVALIANTSCLLLISKHREGGAHMKASWIFSANDVVINLGVITAGALVAWTGSNYPDLIIGTIAGGIVLNGARRILALKG
Blast result :ORF 3
| Length | Begin | End | Strand | Fusion ORF | |
|---|---|---|---|---|---|
| 513 bp | 170 aa | 1491 | 2003 | + | No |
Annotation : Putative lipoprotein signal peptide-like proteinDescription :
ORF sequence :
MLIIGKKLSPYALLSISGLLAASDQAVKWLVQQSMAYGEYVSVTPFFNWVHLWNTGAAFSLFANGGGWQRYFFIGIAVVVSIFLIKLILENRHKGEAIAY
SLILGGAMGNLIDRVFRGYVVDSFDFYWRDWHWPAFNLADIAIVLGALLFVSSSLLGKKANTNAESDGSD
SLILGGAMGNLIDRVFRGYVVDSFDFYWRDWHWPAFNLADIAIVLGALLFVSSSLLGKKANTNAESDGSD
Blast result :ORF 4
| Length | Begin | End | Strand | Fusion ORF | |
|---|---|---|---|---|---|
| 1215 bp | 404 aa | 2100 | 3314 | + | No |
Chemistry : Unknow
ORF sequence :
MHFQVDVPDPIACEECGVQGEFVRFGKRDVPYRDLPIHGKRVTLWVVRRRYTCRACKTTFRPQLPEMVDGFRMTLRLHEYVEKESFNHPYTFVAAQTGLD
EKTVRDIFNARAEFLGRWHRFETPRILGIDELYLNKRYRCILTNIEERTLLDLLATRRQDVVTNYLMKLKDRQKVEIVSMDMWNPYRAAVKAVLPQARIV
VDKFHVVRMANDALERVRKGLRKELKPSQSRTLKGDRKILLKRAHEVSDRERLIMETWTGAFPQLLAAYEHKERFYGIWDATTRLQAEAALDEWIATIPK
GQKEVWSDLVRAVGNWREETMTYFETDMPVTNAYTESINRLAKDKNREGRGYSFEVMRARMLYTTKHKKKAPTAKVSPFYKKTIGYGLPDFAEELNYGVD
LSTI
EKTVRDIFNARAEFLGRWHRFETPRILGIDELYLNKRYRCILTNIEERTLLDLLATRRQDVVTNYLMKLKDRQKVEIVSMDMWNPYRAAVKAVLPQARIV
VDKFHVVRMANDALERVRKGLRKELKPSQSRTLKGDRKILLKRAHEVSDRERLIMETWTGAFPQLLAAYEHKERFYGIWDATTRLQAEAALDEWIATIPK
GQKEVWSDLVRAVGNWREETMTYFETDMPVTNAYTESINRLAKDKNREGRGYSFEVMRARMLYTTKHKKKAPTAKVSPFYKKTIGYGLPDFAEELNYGVD
LSTI
Blast result :
Comments
The ORF1 (complementary strand) is a PnbR-like regulatory protein, ORF2 a putative membrane/transport protein, ORF3 putative lipoprotein signal peptide-like protein, ORF4 a transposase.
The ISPpu12 transposase is 100% aa similar to IS1396 transposase and 97% aa similar to ISPst2 transposase.
An isoform of ISPpu12 has been identified in Pseudomonas sp. LM14 (KJ920394) by its transposition to entrapment vector pMAT1 (sacB cassette). As judged from DNA hybridization analysis, this isoform is present in 1 copy in the genome of Pseudomonas sp. LM14. Homologous sequences of transposase gene were also detected by DNA hybridization in Pseudomonas sp. LM5, Pseudomonas sp. LM6, Pseudomonas mendocina strain LM7, Pseudomonas sp. LM8, Pseudomonas sp. LM11, Pseudomonas sp. LM12, Pseudomonas sp. LM13, Pseudomonas sp. ZM1, Pseudomonas sp. ZM2, Acinetobacter sp. LM3, Halomonas sp. ZM3, Halomonas sp. ZM4.
File updated the January 22 2015 with the information provided by Szuplewska M.
The ISPpu12 transposase is 100% aa similar to IS1396 transposase and 97% aa similar to ISPst2 transposase.
An isoform of ISPpu12 has been identified in Pseudomonas sp. LM14 (KJ920394) by its transposition to entrapment vector pMAT1 (sacB cassette). As judged from DNA hybridization analysis, this isoform is present in 1 copy in the genome of Pseudomonas sp. LM14. Homologous sequences of transposase gene were also detected by DNA hybridization in Pseudomonas sp. LM5, Pseudomonas sp. LM6, Pseudomonas mendocina strain LM7, Pseudomonas sp. LM8, Pseudomonas sp. LM11, Pseudomonas sp. LM12, Pseudomonas sp. LM13, Pseudomonas sp. ZM1, Pseudomonas sp. ZM2, Acinetobacter sp. LM3, Halomonas sp. ZM3, Halomonas sp. ZM4.
File updated the January 22 2015 with the information provided by Szuplewska M.
References
1] Williams,P.A., Jones,R.M. and Shaw,L.E. (2002) J. Bacteriol. 184 (23), 6572-6580
2] Szuplewska, M., and Bartosik, D. (2014) Direct submission.
2] Szuplewska, M., and Bartosik, D. (2014) Direct submission.