Mobile element type:
Transposon
Name:
Tn5501.3
Synonyms:
Accession:
Tn5501.3-GQ983559.1
Family:
Tn3
Group:
Tn3000
First isolate:
Yes
Partial:
ND
Evidence of transposition:
Yes
Host Organism:
Uncultured Bacterium
Date of Isolation:
2010
Country:
Molecular Source:
plasmidpAKD4
| Name | Coordinates | Direction | Length | Sequence |
|---|---|---|---|---|
| IRL | 1-38 | + | 38 | GGGGTTCTAA GCCGGAACCG CCGAAAATTC CGTCAGCC |
| IRR | 6307-6344 | - | 38 | GGGGTTCTAA GCCAGAACCG CCGAAATTTC CGTCATCC |
| Name | Associated TE | Coordinates | Orientation | Length | Sequence |
|---|---|---|---|---|---|
| res | Tn5501.3 | 2555-2685 | + | 131 | GCCTGTCGGA AAACATTTGT TTTTCGACAG GCCTTCAACG GTCCTCTGCA CCAACCTCCG AGTGGCCGCA AAATTGTGCG GAAAACTCTG TCGCCAGACG CTACCATACG GAAACCTCGT CTTAATGGTT T |
| res_site_I | Tn5501.3 | 2555-2583 | + | 29 | GCCTGTCGGA AAACATTTGT TTTTCGACA |
| res_site_II | Tn5501.3 | 2617-2660 | + | 44 | TGGCCGCAAA ATTGTGCGGA AAACTCTGTC GCCAGACGCT ACCA |
| res_site_III | Tn5501.3 | 2661-2685 | + | 25 | TACGGAAACC TCGTCTTAAT GGTTT |
ORF Summary
| Name | Associated TE | Coordinates | Orientation | Class | Subclass |
|---|---|---|---|---|---|
| cupin2 | Tn5501.3 | 438-920 | - | Passenger Gene | Other |
| chlorite dismutase | Tn5501.3 | 928-1488 | - | Passenger Gene | Other |
| parE | Tn5501.3 | 1895-2179 | - | Passenger Gene | Toxin |
| parD | Tn5501.3 | 2176-2454 | - | Passenger Gene | Antitoxin |
| tnpR | Tn5501.3 | 2708-3286 | + | Accessory Gene | Resolvase |
| tnpA | Tn5501.3 | 3283-6312 | + | Transposase |
ORF Details
| Gene Name | Protein Name | Associated TE | Gene Length | Coordinates | Strand | cupin2 | Cupin2 | Tn5501.3 | 160 | 438-920 | - |
|---|
| Class: | Passenger Gene | ||||||||||
| Subclass: | Other | ||||||||||
| Protein Sequence: | MNTDPQQRRV APPFRAGYRQ RRTLGYSCSV ITSQAKLIFG VDMEMESRIF SVTEYIRPSD GEPIRSVVLE TKDSAVVVWH AHPGQEITAH VHPDGQDTWT VISGEAEYYQ GGGKVAHLKA GDIAIAKPGQ VHGALNTSPV PFVFVSVVAS GNAGFALAEK |
||||||||||
| Gene Name | Protein Name | Associated TE | Gene Length | Coordinates | Strand | chlorite dismutase | Chlorite dismutase | Tn5501.3 | 186 | 928-1488 | - |
|---|
| Class: | Passenger Gene | ||||||||||
| Subclass: | Other | ||||||||||
| Protein Sequence: | MDTRLFAFVG ADIGPWRIVR AETRVGEPLP EAKRLNVVSA SELQSETNAP WILRGITSNE RYVMRAEKNE IVAKQQGLAR PEATCGALIP IRKNAAWWEL TQDERRSVFE QSKHVQIGLQ YLPAVARKLH HCRDLSENEP FDFLNWFEYA PIHEVEFNRL LSELRASEEW KYVDREVDIR LTQAQV |
||||||||||
| Gene Name | Protein Name | Associated TE | Gene Length | Coordinates | Strand | parE | ParE | Tn5501.3 | 94 | 1895-2179 | - |
|---|
| Class: | Passenger Gene | ||||||||||
| Subclass: | Toxin | ||||||||||
| Sequence Family: | ParE_toxin (Pfam:PF05016) | ||||||||||
| Target: | DNA gyrase | ||||||||||
| Protein Sequence: | VRVVWTPEAQ QDRADVWDYI AADNPRAAAR MDEIFSDAAA RLIQHPMLGK PGKIPGTREL IPHESYRLVY QIDGETVWIL TLVHTARLWP PVRD |
||||||||||
| Gene Name | Protein Name | Associated TE | Gene Length | Coordinates | Strand | parD | ParD | Tn5501.3 | 92 | 2176-2454 | - |
|---|
| Class: | Passenger Gene | ||||||||||
| Subclass: | Antitoxin | ||||||||||
| Sequence Family: | parD (PDB:4Q2U) | ||||||||||
| Comment: | RelB/ParD/CcdA/DinJ | ||||||||||
| Protein Sequence: | MSKQAVFTMK LEPELRAEFM AEAEAAHRPA SQVLRELMRE FVQRQRESRE YDEFLRRKVE AGRASMRAGL GRSNDEVEAE FAARRASVAS QA |
||||||||||
| Gene Name | Protein Name | Associated TE | Gene Length | Coordinates | Strand | tnpR | TnpR | Tn5501.3 | 192 | 2708-3286 | + |
|---|
| Class: | Accessory Gene | ||||||||||
| Subclass: | Resolvase | ||||||||||
| Sequence Family: | Serine Site-Specific Recombinase | ||||||||||
| Transposase Chemistry: | Serine | ||||||||||
| Protein Sequence: | MRVSSDSDRQ STNLQRDALL AVGVDARHLF EDHASGAKDD RAGLARALEF VRPGDVLVVW KLDRLGRSLS HLLAIVTSLK KKQVAFRSLT ENLDTTTPSG EFLFQVFGAL AQYERALIQE RVVAGLAAAR KRGRIGGRPQ AITGEKLEAI VAALDGGMSK AAVCRNFGVK RTTLIETLAR VGWTGSRGAS SR |
||||||||||
| Gene Name | Protein Name | Associated TE | Gene Length | Coordinates | Strand | tnpA | TnpA | Tn5501.3 | 1009 | 3283-6312 | + |
|---|
| Class: | Transposase | ||||||||||
| Transposase Chemistry: | DDE | ||||||||||
| Protein Sequence: | MTTKSERLTV LSDAEQEALY GLPDFDDAQR LEYLALTETE LALASSRPGL HAQVYCILQI GYFKAKHAFF RFDWSEVEHD CAFVLSRYFH GESFEHKPIS KHEHYTQREW IADLFGYRPW AAEFLAQLAQ QAAQTVRRDV MPGFIAAELI VWLNEHKIIR PGYTTLQELV SEALSAERRR LAGLLSEVLD ESAKAALGRL LVRDDTLSQL AALKQDAKDF GWRQMARERE KRATLEPLHR IAKALLPKLG VSQQNLLYYA SLANFYTVHD LRNLKADQTY LYLLCYAWVR YRQLSDNLVD AMAYHMKQLE DESSAGAKQS FVAEQVRRQQ DTPQVGRLLS LYIDDSVPDP TPFGDVRQRA YKIMPRDTLQ TTAQRMSVKP VSKLALHWQA VDGLAERIRR HLRPLYVALD LAGTDPGSPW LVALAWAKDV FAKQQRLSQR PLAECPAATL PKRLRPYLLT FDADGKPTDL HADRYEFWLY RQVRKRFQSG ELYLDDSLQH RHFSDELVSL DEKAAVLAQI DIPFLRQPLD AQLDALATEL RAQWLAFNRE LKQGKLTHLE YDKDTQKLTW RKPKGENQKA REKAFYEQLP FCDVADVFRF VNGQCQFLSA LTPLQPRYAK KVADADSLMA VIIAQAMNHG NQVMARTSDI PYHVLESAYQ QYLRHATLHA ANDCISNAIA ALPIFPYYSF DLDALYGAVD GQKFGVERPT VKARHSRKYF GRGKGVVAYT LLCNHVPLNG YLIGAHDYEA HHVFDIWYRN TSDIVPTAIT GDMHSVNKAN FAILHWFGLR FEPRFTDLGD QLKELYSADD PALYDQCLIR PAGRIDRDLI VSEKPNLDQI VATLGLKEMT QGTLIRKLCT YTAPNPTRRA VFEFDKLIRS IYTLRYLRDP QLERNVHRSQ NRIESYHQLR STIAQVGGKK ELTGRTDIEI EISNQCARLI ANAVIFYNSA ILSRLLMKYE ASGNAKAHAL LTQISPAAWR HILLNGHYTF QSDGKMIDLD ALVAGLELG |
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1. Sen D, Yano H, Suzuki H, Krol JE, Rogers L, Brown CJ, Top EM.
Comparative genomics of pAKD4, the prototype IncP-1delta plasmid with a complete backbone.. Plasmid. 2010 Mar;63(2):98-107. doi: 10.1016/j.plasmid.2009.11.005. Epub 2009 Dec 16. PubMed ID:
20018208
.