Mobile element type:
Transposon
Name:
Tn5393.7
Synonyms:
Accession:
Tn5393.7-LT827129.1
Family:
Tn3
Group:
Tn163
First isolate:
ND
Partial:
ND
Evidence of transposition:
ND
Host Organism:
Escherichia coli
Date of Isolation:
Country:
Molecular Source:
plasmid R6K
| Name | Coordinates | Direction | Length | Sequence |
|---|---|---|---|---|
| IRLl | 1-81 | + | 81 | GGGGTCGTTT GCGGGAGAGG GCGAAATCCT ACGCTAAGGC TTTGGCCAAC GATATTCTCC GGTAAGATTG ATGTGTTCCC A |
| IRL | 1-40 | + | 40 | GGGGTCGTTT GCGGGAGAGG GCGAAATCCT ACGCTAAGGC |
| IRRl | 11578-11658 | - | 81 | GGGGTCGTTT GCGGGAGGGG GCGGAATCCT ACGCTAAGGC TTTGGCCAGC GATATTCTCC GGTGAGATTG ATGTGTTCCC A |
| IRR | 11619-11658 | - | 40 | GGGGTCGTTT GCGGGAGGGG GCGGAATCCT ACGCTAAGGC |
| Name | Associated TE | Coordinates | Orientation | Length | Sequence |
|---|---|---|---|---|---|
| res | Tn5393.7 | 3565-3786 | + | 222 | TGTCCCGTTC GACACCTGCG GCGCGCAAGG CGTCGTGCTG CAGGTCGAGA GACTGCGAGC CATCGGCTTT GGAGACGCGG GCATATCCGA TCAGCATGTA TCACAAACGT TGGTTTGAGG CGGCGCTTCG GCCACGATTG CATTGACCTC TGGAAATGTA TCTCAACCAG CTTCATAAAC AAAGCGTCTT GAACGCTATC AGATTTTGAA AAAGGAACAT GT |
| res | Tn3.1 | 7645-7765 | + | 121 | AAATGTACCT TAAATCGAAT ATCAGACACG ATGTGTCTAT TATGCCAAAA TGACGATTTA ATGGACACTC AAACGAAGCC GTTTTACTAT GTCTGATAAT TTATAATATT TCGAACGGTT G |
| res_site_III_a | Tn3.1 | 7648-7670 | + | 23 | TGTACCTTAA ATCGAATATC AGA |
| res_site_II_a | Tn3.1 | 7676-7711 | + | 36 | TGTGTCTATT ATGCCAAAAT GACGATTTAA TGGACA |
| res_site_I | Tn3.1 | 7734-7762 | + | 29 | TGTCTGATAA TTTATAATAT TTCGAACGG |
ORF Summary
| Name | Associated TE | Coordinates | Orientation | Class | Subclass |
|---|---|---|---|---|---|
| orfAB | IS1133 | 1853-2982 | - | Transposase | |
| orfB | IS1133 | 1853-2710 | - | Transposase | |
| orfA | IS1133 | 2707-2982 | - | Accessory Gene | Regulator |
| tnpR | Tn5393.7 | 3050-3661 | - | Accessory Gene | Resolvase |
| tnpA N-ter | Tn5393.7 | 3787-5895 | + | Transposase | |
| TEM-1 (ARO:3000873) | Tn3.1 | 6042-6902 | - | Passenger Gene | Antibiotic Resistance |
| tnpR | Tn3.1 | 7085-7642 | - | Accessory Gene | Resolvase |
| tnpA | Tn3.1 | 7771-10809 | + | Transposase | |
| tnpA C-ter | Tn5393.7 | 10843-11625 | + | Transposase |
ORF Details
| Gene Name | Protein Name | Associated TE | Gene Length | Coordinates | Strand | orfAB | OrfAB | IS1133 | 376 | 1853-2982 | - |
|---|
| Class: | Transposase | ||||||||||
| Transposase Chemistry: | DDE | ||||||||||
| Comment: | fusion protein from -1 programmed frameshifting between orfA and orfB | ||||||||||
| Protein Sequence: | MSLKHSDEFK RDAVRIALTS GLTRRQVASD LSIGLSTLGK WIASISDETK IPTQDTDLLR ENERLRKENR ILREEREILK KAAIFFAVQK L*DFSLLRIT VALSHVHAYV V*WA*QIVVY VHGNAVLHHC ASVVILYF*R IYVSSIGCVW GAMVGRV*QK S*KRWACRLG SVGLDV*CAR ITLQLFERVN SNGQRIVIIP STLHRTY*NK TLAQAHPTRN GQAISLMFGP EKDGSILLLS LTCIPVA*LA GQQVID*SRI LH*GH*IWRW LYANHHRVVF NTQTVGANIA LMNIKSYCSN INCCRP*AGK AIVLITPQ*K ASLNH*RLS* FGADTGKQGE ILRLQSSNI* MAFIIHAEDI QHSAGNRRWH LRKKPL |
||||||||||
| Gene Name | Protein Name | Associated TE | Gene Length | Coordinates | Strand | orfB | OrfB | IS1133 | 285 | 1853-2710 | - |
|---|
| Class: | Transposase | ||||||||||
| Function: | transposase activity (GO:0004803) | ||||||||||
| Transposase Chemistry: | DDE | ||||||||||
| Protein Sequence: | MRFQFITDYR GSLSRSRICR LMGVTDRGLR AWKRRPPSLR QRRDLILLAH IREQHRLCLG SYGRPRMTEE LKALGLQVGQ RRVGRLMRQN NITVVRTRKF KRTTDSHHTF NIAPNLLKQD FSASAPNQKW AGDITYVWTR EGWVYLAVIL DLYSRRVIGW ATGDRLKQDL ALRALNMALA LRKPPPGCIQ HTDRGSQYCA HEYQKLLLKH QLLPSMSGKG NCFDNSAVES FFKSLKAELI WRRHWQTRRD IEIAIFEYIN GFYNPRRRHS TLGWKSPVAF EKKAA |
||||||||||
| Gene Name | Protein Name | Associated TE | Gene Length | Coordinates | Strand | orfA | OrfA | IS1133 | 91 | 2707-2982 | - |
|---|
| Class: | Accessory Gene | ||||||||||
| Subclass: | Regulator | ||||||||||
| Function: | transposase activity (GO:0004803) | ||||||||||
| Comment: | orfA, together with orfB, encodes a fusion protein formed by translational frame-shifting that is the transposase forIS1133 | ||||||||||
| Protein Sequence: | MSLKHSDEFK RDAVRIALTS GLTRRQVASD LSIGLSTLGK WIASISDETK IPTQDTDLLR ENERLRKENR ILREEREILK KAAIFFAVQK L |
||||||||||
| Gene Name | Protein Name | Associated TE | Gene Length | Coordinates | Strand | tnpR | TnpR | Tn5393.7 | 204 | 3050-3661 | - |
|---|
| Class: | Accessory Gene | ||||||||||
| Subclass: | Resolvase | ||||||||||
| Function: | recombinaseactivity (GO:0000150) | ||||||||||
| Sequence Family: | Serine Site-Specific Recombinase | ||||||||||
| Transposase Chemistry: | Serine | ||||||||||
| Protein Sequence: | MLIGYARVSK ADGSQSLDLQ HDALRAAGVE RDNIYDDLAS GGRDDRPGLT ACLKSLRDGD VLVVWKLDRL GRSLAHLVNT VKELSDRKIG LRVLTGKGAQ IDTTTASGRM VFGIFATLAE FERDLIRERT MAGLASARAR GRKGGRKFAL TKAQVRLAQA AMAQRDTSVS DLCKELGIER VTLYRYVGPK GELRDHGKHV LGLT |
||||||||||
| Gene Name | Protein Name | Associated TE | Gene Length | Coordinates | Strand | tnpA N-ter | TnpA N-ter | Tn5393.7 | 703 | 3787-5895 | + |
|---|
| Class: | Transposase | ||||||||||
| Transposase Chemistry: | DDE | ||||||||||
| Protein Sequence: | MPRRVTLTDR QKDALLRLPT SQTDLLKHYT LSDEDLGHIR LRRRAHNRFG FALQLCVLRY PGRVLAPGEL IPAEVIEFIG AQLGLGADDL VDYAAREETR HEHLAELRGL YGFRTFSGRG ASELKEWLFR EAEMAVSNED IARRFVAECR RTRTVLPATS TIERLCAAAL VDAERRIETR IASRLPMSIR EQLLALLEET ADDRVTRFVW LRQFEPGSNS SSANRLLDRL EYLQRIDLPE DLLAGVPAHR VTRLRRQGER YYADGMRDLP EDRRLAILAV CVSEWQAMLA DAVVETHDRI VGRLYRASER ICHAKVADEA GVVRDTLKSF AEIGGALVDA QDDGQPLGDV IASGSGWDGL KTLVAMATRL TATMADDPLN HVLDGYHRFR RYAPRMLRLL DLRAAPVALP LLEAVTALRT GLNDAAMTSF LRPSSKWHRH LRAQRAGDAR LWEIAVLFHL RDAFRSGDVW LTRSRRYGDL KHALVPAQSI AEGGRLAVPL RPEEWLADRQ ARLDMRLREL GRAARAGTIP GGSIENGVLH IEKLEAAAPT GAEDLVLDLY KQIPPTRITD LLLEVDAATG FTEAFTHLRT GAPCADRIGL MNVILAEGIN LGLRKMADAT NTHTFWELIR IGRWHVEGEA YDRALAMVVE AQAALPMARF WGMGTSASSD GQFFVATEQG EAMNLVNAKY GNTPGLKAYS HVS |
||||||||||
| Gene Name | Protein Name | Associated TE | Gene Length | Coordinates | Strand | TEM-1 (ARO:3000873) | TEM-1 | Tn3.1 | 286 | 6042-6902 | - |
|---|
| Class: | Passenger Gene | ||||||||||
| Subclass: | Antibiotic Resistance | ||||||||||
| Function: | antibiotic inactivation (ARO:0001004) | ||||||||||
| Sequence Family: | TEM beta-lactamase (ARO:3000014) | ||||||||||
| Target: | penem (ARO:3003706)||cephalosporin (ARO:0000032)||monobactam (ARO:0000004)||penam (ARO:3000008) | ||||||||||
| Comment: | perfect match to reference sequence for ARO:3000873||Synonyms: TEM-98, RTEM-1 | ||||||||||
| Protein Sequence: | MSIQHFRVAL IPFFAAFCLP VFAHPETLVK VKDAEDQLGA RVGYIELDLN SGKILESFRP EERFPMMSTF KVLLCGAVLS RVDAGQEQLG RRIHYSQNDL VEYSPVTEKH LTDGMTVREL CSAAITMSDN TAANLLLTTI GGPKELTAFL HNMGDHVTRL DRWEPELNEA IPNDERDTTM PAAMATTLRK LLTGELLTLA SRQQLIDWME ADKVAGPLLR SALPAGWFIA DKSGAGERGS RGIIAALGPD GKPSRIVVIY TTGSQATMDE RNRQIAEIGA SLIKHW |
||||||||||
| Gene Name | Protein Name | Associated TE | Gene Length | Coordinates | Strand | tnpR | TnpR | Tn3.1 | 185 | 7085-7642 | - |
|---|
| Class: | Accessory Gene | ||||||||||
| Subclass: | Resolvase | ||||||||||
| Function: | resolvase||serine site-specific recombinase | ||||||||||
| Sequence Family: | Serine Site-Specific Recombinase | ||||||||||
| Transposase Chemistry: | Serine | ||||||||||
| Comment: | first defined as a repressor | ||||||||||
| Protein Sequence: | MRIFGYARVS TSQQSLDIQI RALKDAGVKA NRIFTDKASG SSTDREGLDL LRMKVEEGDV ILVKKLDRLG RDTADMIQLI KEFDAQGVAV RFIDDGISTD GDMGQMVVTI LSAVAQAERR RILERTNEGR QEAKLKGIKF GRRRTVDRNV VLTLHQKGTG ATEIAHQLSI ARSTVYKILE DERAS |
||||||||||
| Gene Name | Protein Name | Associated TE | Gene Length | Coordinates | Strand | tnpA | TnpA | Tn3.1 | 1012 | 7771-10809 | + |
|---|
| Class: | Transposase | ||||||||||
| Function: | transposase activity (GO:0004803) | ||||||||||
| Transposase Chemistry: | DDE | ||||||||||
| Comment: | In frame three amino acid deletion relative to tnpA (Tn3) | ||||||||||
| Protein Sequence: | VLKKPSGREA DMPVDFLTTE QVESYGRFTG EPDELQLARY FHLDEADKEF IGKSRGDHNR LGIALQIGCV RFLGTFLTDM NHIPSGVRHF TARQLGIRDI TVLAEYGQRE NTRREHAALI RQHYQYREFA WPWTFRLTRL LYTRSWISNE RPGLLFDLAT GWLMQHRIIL PGATTLTRLI SEVREKATLR LWNKLALIPS AEQRSQLEML LGPTDCSRLS LLESLKKGPV TISGPAFNEA IERWKTLNDF GLHAENLSTL PAVRLKNLAR YAGMTSVFNI ARMSPQKRMA VLVAFVLAWE TLALDDALDV LDAMLAVIIR DARKIGQKKR LRSLKDLDKS ALALASACSY LLKEETPDES IRAEVFSYIP RQKLAEIITL VREIARPSDD NFHDEMVEQY GRVRRFLPHL LNTVKFSSAP AGVTTLNACD YLSREFSSRR QFFDDAPTEI ISQSWKRLVI NKEKHITRRG YTLCFLSKLQ DSLRRRDVYV TGSNRWGDPR ARLLQGADWQ ANRIKVYRSL GHPTDPQEAI KSLGHQLDSR YRQVAARLGE NEAVELDVSG PKPRLTISPL ASLDEPDSLK RLSKMISDLL PPVDLTELLL EINAHTGFAD EFFHASEASA RVDDLPVSIS AVLMAEACNI GLEPLIRSNV PALTRHRLNW TKANYLRAET ITSANARLVD FQATLPLAQI WGGGEVASAD GMRFVTPVRT INAGPNRKYF GNNRGITWYN FVSDQYSGFH GIVIPGTLRD SIFVLEGLLE QETGLNPTEI MTDTAGASDL VFGLFWLLGY QFSPRLADAG ASVFWRMDHD ADYGVLNDIA RGQSDPRKIV LQWDEMIRTA GSLKLGKVQA SVLVRSLLKS ERPSGLTQAI IEVGRINKTL YLLNYIDDED YRRRILTQLN RGESRHAVAR AICHGQKGEI RKRYTDGQED QLGALGLVTN AVVLWNTIYM QAALDHLRAQ GETLNDEDIA RLSPLCHGHI NMLGHYSFTL AELVTKGHLR PLKEASEAEN VA |
||||||||||
| Gene Name | Protein Name | Associated TE | Gene Length | Coordinates | Strand | tnpA C-ter | TnpA C-ter | Tn5393.7 | 260 | 10843-11625 | + |
|---|
| Class: | Transposase | ||||||||||
| Transposase Chemistry: | DDE | ||||||||||
| Protein Sequence: | VSDQYAPFAT QVIPATASEA PYILDGLLMN DAGRHIREQF TDTGGFTDHV FAACAILGYR FAPRIRDLPS KRLYAFNPSA APAHLRALIG GKVNQAMIER NWPDILRIAA TIAAGTVAPS QILRKLASYP RQNELATALR EVGRVERTLF MIDWILDAEL QRRAQIGLNK GEAHHALKRA ISFHRRGEIR DRSAEGQHYR IAGMNLLAAI IIFWNTMKLG EVVANQKRDG KLLSPDLLAH VSPLGWEHIN LTGEYRWPKP |
||||||||||
| TnCentral Accession | TE Name | Type | Coordinates | Strand | Length |
|---|---|---|---|---|---|
| IS1133-LT827129.1 | IS1133 | insertion sequence | 1815-3046 | + | 1232 |
| Tn3.1-KY749247.1 | Tn3.1 | transposon | 5895-10842 | + | 4948 |
| Name | Associated TE | Coordinates | Direction | Length | Sequence |
|---|---|---|---|---|---|
| IRR | IS1133 | 1815-1841 | + | 27 | TGGACTTGCA CCGGTTGTGT TCCGGTC |
| IRL | IS1133 | 3020-3046 | - | 27 | TGGACTTGCC TCGGTTTCGT TCCGGTC |
| IRL | Tn3.1 | 5895-5932 | + | 38 | GGGGTCTGAC GCTCAGTGGA ACGAAAACTC ACGTTAAG |
| IRR | Tn3.1 | 10805-10842 | - | 38 | GGGGTCTGAC GCTCAGTGGA ACGAAAACTC ACGTTAAG |