Mobile element type:
Transposon
Name:
TnPa40
Synonyms:
Tn7173
Accession:
TnPa40-CP003149
Family:
Tn3
Group:
Tn21
First isolate:
Yes
Partial:
ND
Evidence of transposition:
ND
Host Organism:
Pseudomonas aeruginosa DK2
Date of Isolation:
2012
Country:
Denmark
| Name | Coordinates | Direction | Length | Sequence |
|---|---|---|---|---|
| IRL | 1-37 | + | 37 | GGGTGCCCGC AGAATTCGGA AAAAATCGTA CGCTAAG |
| IRR | 6555-6591 | - | 37 | GGGGAGCCCG CAGAACTCGG AAAAAATCGT ACGCTAA |
| Name | Associated TE | Coordinates | Orientation | Length | Sequence |
|---|---|---|---|---|---|
| res_site_I | TnPa40 | 2848-2868 | + | 21 | ATACCCTAAC TGGATGTCAG G |
| res_site_II | TnPa40 | 2893-2919 | + | 27 | TAGAGTCTGC TTTCACATTC TTTGACA |
| res_site_III | TnPa40 | 2922-2953 | + | 32 | TGCTTGCCAA GGTCATAGAT TCCAACCTGA CA |
ORF Summary
| Name | Associated TE | Coordinates | Orientation | Class | Subclass |
|---|---|---|---|---|---|
| sod | TnPa40 | 67-327 | - | Passenger Gene | Heavy Metal Resistance |
| chrA | TnPa40 | 387-1637 | - | Passenger Gene | Heavy Metal Resistance |
| chrR | TnPa40 | 1808-2698 | - | Passenger Gene | Heavy Metal Resistance |
| tnpR | TnPa40 | 2974-3588 | + | Accessory Gene | Resolvase |
| tnpA | TnPa40 | 3592-6558 | + | Transposase |
ORF Details
| Gene Name | Protein Name | Associated TE | Gene Length | Coordinates | Strand | sod | Sod | TnPa40 | 86 | 67-327 | - |
|---|
| Class: | Passenger Gene | ||||||||||
| Subclass: | Heavy Metal Resistance | ||||||||||
| Target: | Chromate | ||||||||||
| Comment: | superoxide dismutase chromate restistance | ||||||||||
| Protein Sequence: | MPYELKPLSC DPAKLTGLSE KLIVSHWENN YGGAVKRLNA IASPAIGGAL FAAGWLAAPL VACGLLKVVY DVVLWRAFRK YEGPSS |
||||||||||
| Gene Name | Protein Name | Associated TE | Gene Length | Coordinates | Strand | chrA | ChrA | TnPa40 | 416 | 387-1637 | - |
|---|
| Class: | Passenger Gene | ||||||||||
| Subclass: | Heavy Metal Resistance | ||||||||||
| Function: | chrA | ||||||||||
| Target: | Chromate | ||||||||||
| Comment: | efflux protein | ||||||||||
| Protein Sequence: | MSVANEESYR PSKATDATTE AVPPPMSYPQ LFARFLKFGL LAWGGPVAQI DMLRRELVDE ERWISSKRFN KLLAVMQVLP GPEAHEICVH LGIRAKGRLG GVLAGLGFML PGFLLMFALS WLYFQIEFVG TALGAAFLGV QAAVIALIVR AVHRIGEHIL LDRWLWVIAI VCALAAIGRV DFWITLPAGG LVYALLVLNH RASALLVTLA AVALAAAVAL WAAPTAKLVE AVVQGQASVL LIFASGLKAG LLTFGGAYTA IPFVRNDAVG RGWMTDGQFL DGLALSGVLP APLIIFATFV GYVAGGPIGA VAMTVGVFLP AFAFSLIFYD RLEAVVENKR LHAFLDGVAA GVVGLIGATT IDLAQVTAER VPSLTVGMSI FAAGLAFLYA WKNKLNVVVV ILAAGLAGWL VFPNQG |
||||||||||
| Gene Name | Protein Name | Associated TE | Gene Length | Coordinates | Strand | chrR | ChrR | TnPa40 | 296 | 1808-2698 | - |
|---|
| Class: | Passenger Gene | ||||||||||
| Subclass: | Heavy Metal Resistance | ||||||||||
| Target: | Chromate | ||||||||||
| Protein Sequence: | MRVWRSVKAQ GCATLRDGVY LLPDSADSAA TLGEVAAQAV EVGGSGQVYR LSGCDEAQKA ALRALFDRGE EYASIAEEIK ALGRNLASPD GADAMRKLQP LVRRFEQVNR IDFFPGEAQR QTLSLLDDLR DAITRRMSPD EPTARQTDIP RLNRADYQGR TWATRARPWV DRLASAWLIR RFIDPSARIV WLASPSDCRN GWLGFDFDGA AFSHVGTKVT FETLLASFGL DSAPALVRLG KLVHCLDLGG LPVAEALGIE SLLAGLRASE PDDDALLARA CEIFDWLLKS YEDKTT |
||||||||||
| Gene Name | Protein Name | Associated TE | Gene Length | Coordinates | Strand | tnpR | TnpR | TnPa40 | 204 | 2974-3588 | + |
|---|
| Class: | Accessory Gene | ||||||||||
| Subclass: | Resolvase | ||||||||||
| Sequence Family: | Serine Site-Specific Recombinase | ||||||||||
| Transposase Chemistry: | Serine | ||||||||||
| Protein Sequence: | MEPKTNVSPT AHPAYGGILQ GQRIGYVRVS SYDQNPERQL EQVEIGKLFT DKASGKDTQR PQLEAMLGFV REGDTVVVHS MDRLARNLDD LRRLVQRLTK RGVRIEFLKE GLVFTGEDSP MANLMLSVMG AFAEFERALI RERQREGIAL AKQRGAYRGR KKALSDDQAI TLRQRAAAGE PKAQLAREFG ISRETLYQYL RTDD |
||||||||||
| Gene Name | Protein Name | Associated TE | Gene Length | Coordinates | Strand | tnpA | TnpA | TnPa40 | 988 | 3592-6558 | + |
|---|
| Class: | Transposase | ||||||||||
| Transposase Chemistry: | DDE | ||||||||||
| Protein Sequence: | MPRRSILSAT ERDTLLALPE SQDDLIRYYT FNDSDLSLIR QRRGDGNRLG FAVQLCLLRY PGYALGNDTA LPEPVIQWVA KQVQADPASW AKYGERDVTR REHALELRTY LQLAPFGLSD FRALVRELTE LAQQTDKGLL LAGQALESLR QKRRILPTLS VIDRACSEAI ARANRRVYRA LIEPLNPSHH AKLDELLTIK AGSNSTWLTW LRQSPLKPNS RHMIEHIERL KIFQLVGLPD SLGRHIHQNR LLKLAREGGQ MTPQDLGKFE PERRYATLVA VVLESTATVI DELVDLHDRI LVKLFSGAKH KHQQQFQKQG KAINDKVRLY SKIGQALLDA KESGDDPFAA IEAVIPWDEF TQSVTEAELL ARPEAFDHLH LVSENFATLR RYTPAFLEVL QLRAATAAQA VLDAVQTLRE MNADNLRKVP SDAPTAFIKP RWKPLVITPE GIDRRFYEIC ALSELKNALR SGDIWVKGSR QFRDFDDYLL PPEKFAALKR EQALPLAINP NSDQYLEERL QLLDEQLATV TRLAKDNELP DAILTESGLK ITPLDSAVPN TAQALIDQTS QLLPRIKITE LLMDVDEWTG FTRHFTHLKD GAQAKDRTLL LTAILGDAIN LGLTKMAESS PGMTYAKLSW LQAWHIRDET YSTALAELVN SQFRHAFAAN WGDGTTSSSD GQRFRAGGKG ESTGHVNPKY GSEPGRLFYT HISDQYAPFS TRVVNVGVRD STYVLDGLLY HESDLRIEEH YTDTAGFTDH VFALMHLLGF RFAPRIRDLG ETKLYVPNSV QDYPTLRPML GGTLNIKHVC AHWDEILRLA ASIKQGTVTA SLMLRKLGSY PRQNGLAVAL RELGRIERTL FILDWLQSVE LRRRVHAGLN KGEARNSLAR AVFFNRLGEI RDRSFEQQRY RASGLNLVTA AIVLWNTVYL ERATQAREEA GKPVNPELLQ YLSPLGWEHI NLTGDYVWRQ SRKLEDGKFR PLRQLGKP |
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1. Rau MH, Marvig RL, Ehrlich GD, Molin S, Jelsbak L.
Deletion and acquisition of genomic content during early stage adaptation of Pseudomonas aeruginosa to a human host environment.. Environ Microbiol. 2012 Aug;14(8):2200-11. doi: 10.1111/j.1462-2920.2012.02795.x. Epub 2012 Jun 5. PubMed ID:
22672046
.
2. Yang L, Jelsbak L, Marvig RL, Damkiaer S, Workman CT, Rau MH, Hansen SK, Folkesson A, Johansen HK, Ciofu O, Hoiby N, Sommer MO, Molin S. Evolutionary dynamics of bacteria in a human host environment.. Proc Natl Acad Sci U S A. 2011 May 3;108(18):7481-6. doi: 10.1073/pnas.1018249108. Epub 2011 Apr 25. PubMed ID: 21518885 .
2. Yang L, Jelsbak L, Marvig RL, Damkiaer S, Workman CT, Rau MH, Hansen SK, Folkesson A, Johansen HK, Ciofu O, Hoiby N, Sommer MO, Molin S. Evolutionary dynamics of bacteria in a human host environment.. Proc Natl Acad Sci U S A. 2011 May 3;108(18):7481-6. doi: 10.1073/pnas.1018249108. Epub 2011 Apr 25. PubMed ID: 21518885 .