Mobile element type:
Transposon
Name:
Tn5053.1
Synonyms:
Tn4671
Accession:
Tn5053.1-CP002451
Family:
Tn402
Group:
Tn5053
First isolate:
Yes
Partial:
ND
Evidence of transposition:
Yes
Host Organism:
Alicycliphilus denitrificans BC
Date of Isolation:
2011
Country:
U.s.a.
Molecular Source:
plasmid pALIDE02
| Name | Coordinates | Direction | Length | Sequence |
|---|---|---|---|---|
| IRt | 1-25 | + | 25 | TGTCATTTTC AGAAGACGAC TGCAC |
| repeat t1 | 9-27 | + | 19 | TCAGAAGACG ACTGCACCA |
| repeat t4 | 110-128 | + | 19 | TCAATACTCG TGTGCACCA |
| IR Tn21-like | 8347-8384 | - | 38 | GGAGTCGCCT CAGAAAACGG AAAATAAAGC ACGCTAAG |
| repeat i4 | 8357-8375 | - | 19 | TCAGAAAACG GAAAATAAA |
| repeat i2 | 8399-8417 | + | 19 | CCGTGCGGTC GACTTTTGA |
| IRi | 8421-8448 | - | 28 | TGTCACTTTC AGAAGGCGAC AGCACGAA |
| repeat i1 | 8422-8440 | - | 19 | TCAGAAGGCG ACAGCACGA |
| Name | Associated TE | Coordinates | Orientation | Length | Sequence |
|---|---|---|---|---|---|
| r5 | Tn5053.1 | 3873-3886 | + | 14 | AATTTCTGTC ACAT |
| r3 | Tn5053.1 | 3929-3942 | + | 14 | GGGTTAAGTG ACAA |
| res | Tn5053.1 | 3970-4004 | + | 35 | ACACTGTCAC ATAATCGAAC GTATATGTGA CAGGT |
| r2 | Tn5053.1 | 3973-3986 | - | 14 | CGATTATGTG ACAG |
| r1 | Tn5053.1 | 3989-4002 | + | 14 | CGTATATGTG ACAG |
ORF Summary
| Name | Associated TE | Coordinates | Orientation | Class | Subclass |
|---|---|---|---|---|---|
| tniA | Tn5053.1 | 142-1824 | + | Transposase | |
| tniB | Tn5053.1 | 1827-2735 | + | Accessory Gene | |
| tniQ | Tn5053.1 | 2732-3949 | + | Accessory Gene | Target Site Selection |
| tniR | Tn5053.1 | 4010-4624 | + | Accessory Gene | Resolvase |
| merE | Tn5053.1 | 4677-4913 | - | Passenger Gene | Heavy Metal Resistance |
| merD | Tn5053.1 | 4910-5275 | - | Passenger Gene | Heavy Metal Resistance |
| merA | Tn5053.1 | 5292-6938 | - | Passenger Gene | Heavy Metal Resistance |
| merF | Tn5053.1 | 6935-7180 | - | Passenger Gene | Heavy Metal Resistance |
| merP | Tn5053.1 | 7183-7458 | - | Passenger Gene | Heavy Metal Resistance |
| merT | Tn5053.1 | 7474-7824 | - | Passenger Gene | Heavy Metal Resistance |
| merR | Tn5053.1 | 7896-8330 | + | Passenger Gene | Heavy Metal Resistance |
ORF Details
| Gene Name | Protein Name | Associated TE | Gene Length | Coordinates | Strand | tniA | TniA | Tn5053.1 | 560 | 142-1824 | + |
|---|
| Class: | Transposase | ||||||||||
| Transposase Chemistry: | DDE | ||||||||||
| Comment: | can be extended upstream by 12 amino acids | ||||||||||
| Protein Sequence: | MATDTAPITE HGVATLPEQA WERARRRAEI IGPLAQSETV GHEAADAAAQ ALGLSRRQVY VLIRRARLGS GLVTDLALGQ SSGGKGKGRL PESVERIIRE LLQKRFLTKQ KRSLAAFHRE VVRACKLQKL RVPARNTVAL RIAGLDPREV THRREGQDAA RDLQGVGGVP PPVSAPLEQV QIDHTVIDLI VVDERDRQPI GRPYLTLAID VFTRCVVGMV VTLEAPSAVS VGLCLVHAAC DKRPWLEGLN VEMDWPMSGK PRLLYLDNAA EFKSEALRRG CEQHGIRLDY RPLGQPHYGG IVERIIGTAM QMIHDELPGT TFSNPDQRGE YASEKMAALT LRELERWLTL AVGTYHGSVH NGLLQPPAAR WAEAITRTGV PTVITRATAF LVDFLPIIRR TLTRTGFVID HIHYYADALK PWIARRDRLP AFLIRRDPRD ISRIWVLEPE GQHYLEIPYR TLSHPAVTLW EQRQALAKLR QQGREQVDES ALFRMIGQMR EIVTTAQKAT RKARRDADRR QHLKATAPPV KTTPPPDADM ADPQADNQPP AKPFDQIEEW |
||||||||||
| Gene Name | Protein Name | Associated TE | Gene Length | Coordinates | Strand | tniB | TniB | Tn5053.1 | 302 | 1827-2735 | + |
|---|
| Class: | Accessory Gene | ||||||||||
| Transposase Chemistry: | Serine | ||||||||||
| Comment: | homologous to TnsC protein of Tn7 putative ATP-binding protein | ||||||||||
| Protein Sequence: | MDEYPIIDLS HLLPAAQGLA RLPADERIQR LRADRWIGYP RAVEALNRLE TLYAWPNKQR MPNLLLVGPT NNGKSMIVEK FRRTHPASAD ADQEHIPVLV VQMPSEPSVI RFYVALLAAM GAPLRPRPRL PEMEQLALAL LRKVGVRMLV IDELHNVLAG NSVNRREFLN LLRFLGNELR IPLVGVGTRD AYLVIRSDDQ LENRFEPMML PVWEANDDCC SLLASFAASL PLRRPSSIAT LDMARYLLTR SEGTIGELTH LLMAAALAAV ESGEEAINHR TLSMADYTGP SERRRQFERE LM |
||||||||||
| Gene Name | Protein Name | Associated TE | Gene Length | Coordinates | Strand | tniQ | TniQ | Tn5053.1 | 405 | 2732-3949 | + |
|---|
| Class: | Accessory Gene | ||||||||||
| Subclass: | Target Site Selection | ||||||||||
| Protein Sequence: | VKPAPRWPLH PAPREGEALS SWLNRVALCY HIEVSELLEH DLGHGQVDDL DTAPPLALLA MLSQRSGIEL NRLRCMSFAG WVPWLLDSLD DQIPDALETY AFQLSVLLPT HRRKTRSITS WRAWLPSQPI HRACPLCLND PENQAVLLAW KLPLMLSCPL HGCRLESYWG VPGRFLGWEN ADAEPRTASD AIAAMDQRTW QALTTGHLEL PRRRIHAGLW FRLLRTLLDE LNTPLSACGT YAGYLRQVWE GCGHPLRAGQ SLWRPYETLN PAVRLQMLEA AATAISLIEV RYISPPGEQA KLFWSEPQTG FTSGLPTKAP KPEPINHWQR AVQAIDEAII EARHNPETAR SLFALASYGR RDPASLEQLR ATFAKEGIAT EFLSHYEPDG SFACLRQNDG LSDKF |
||||||||||
| Gene Name | Protein Name | Associated TE | Gene Length | Coordinates | Strand | tniR | TniR | Tn5053.1 | 204 | 4010-4624 | + |
|---|
| Class: | Accessory Gene | ||||||||||
| Subclass: | Resolvase | ||||||||||
| Sequence Family: | Serine Site-Specific Recombinase | ||||||||||
| Transposase Chemistry: | Serine | ||||||||||
| Comment: | also calledTniC | ||||||||||
| Protein Sequence: | MLIGYMRVSK ADGSQATDLQ RDALIAAGVD PVHLYEDQAS GMREDRPGLT SCLKALRTGD TLVVWKLDRL GRDLRHLINT VHDLTGRGIG LKVLTGHGAA IDTTTAAGKL VFGIFAALAE FERELIAERT IAGLASARAR GRKGGRPFKM TAAKLRLAMA AMGQPETKVG DLCQELGVTR QTLYRHVSPK GELRPDGEKL LSRI |
||||||||||
| Gene Name | Protein Name | Associated TE | Gene Length | Coordinates | Strand | merE | MerE | Tn5053.1 | 78 | 4677-4913 | - |
|---|
| Class: | Passenger Gene | ||||||||||
| Subclass: | Heavy Metal Resistance | ||||||||||
| Target: | Mercury | ||||||||||
| Comment: | Broad-spectrum mercury transporter | ||||||||||
| Protein Sequence: | MNSPERLPSE THKPITGYLW GALAVLTCPC HLPILAIVLA GTTAGAFIGE YWGIAALTLT GLFVLSVTRL LRAFKDRS |
||||||||||
| Gene Name | Protein Name | Associated TE | Gene Length | Coordinates | Strand | merD | MerD | Tn5053.1 | 121 | 4910-5275 | - |
|---|
| Class: | Passenger Gene | ||||||||||
| Subclass: | Heavy Metal Resistance | ||||||||||
| Target: | Mercury | ||||||||||
| Protein Sequence: | MSAYTVSRLA LDAGVSVHIV RDYLLRGLLR PVACTPGGYG LFDDAALQRL CFVRAAFEAG IGLDALARLC RALDAADGDE AAAQLAVLRQ FVERRREALA DLEVQLATMP TEPAQHAESL P |
||||||||||
| Gene Name | Protein Name | Associated TE | Gene Length | Coordinates | Strand | merA | MerA | Tn5053.1 | 548 | 5292-6938 | - |
|---|
| Class: | Passenger Gene | ||||||||||
| Subclass: | Heavy Metal Resistance | ||||||||||
| Function: | mercuric ion reductase | ||||||||||
| Target: | Mercury | ||||||||||
| Protein Sequence: | MTEITVNGMT CTSCATHVKD ALEKIPGVNA AVVSYPESRA QVMADTAVSH NQLLAAIAAL GYQGSIRVGD FKDEPKIRDA LEGAGLHIAI IGSGGAAMAA ALKAVEQGAT VTLIERGTIG GTCVNIGCVP SKIMIRAAHI AHLRRESPFD GGIAATVPAI DRSKLLAQQQ ARVDELRHAK YEGILDGNPA ITVLHGEARF KDDQSLVVRL NEGGEREVTF DRCLVATGAS PAVPPIPGLK ESPYWTSTEA LVSDTIPARL AVIGSSVVAL ELAQAFARLG SQVTILARST LFFREDPAIG EAVTAAFRAE GIEVLEHTQA SQVAHVNGEF VLTTGHGELR ADKLLVATGR APNTRSLALD AAGVTVNAQG AIVIDQGMRT SNPNIYAAGD CTDQPQFVYV AAAAGTRAAI NMTGGDAALN LTAMPAVVFT DPQVATVGYS EAEAHHDGIE TDSRTLTLDN VPRALANFDT RGFIKLVIEE GSGRLIGVQA VAPEAGELIQ TAVLAIRNRM TVQELADQLF PYLTMVEGLK LAAQTFNKDV KQLSCCAG |
||||||||||
| Gene Name | Protein Name | Associated TE | Gene Length | Coordinates | Strand | merF | MerF | Tn5053.1 | 81 | 6935-7180 | - |
|---|
| Class: | Passenger Gene | ||||||||||
| Subclass: | Heavy Metal Resistance | ||||||||||
| Target: | Mercury | ||||||||||
| Comment: | mercuric ion transport protein | ||||||||||
| Protein Sequence: | MKDPKTLLRV SIIGTTLVAL CCFTPVLVIL LGVVGLSALT GYLDYVLLPA LAIFIGLTIY AIQRKRQADA CCTPKFNGVK K |
||||||||||
| Gene Name | Protein Name | Associated TE | Gene Length | Coordinates | Strand | merP | MerP | Tn5053.1 | 91 | 7183-7458 | - |
|---|
| Class: | Passenger Gene | ||||||||||
| Subclass: | Heavy Metal Resistance | ||||||||||
| Target: | Mercury | ||||||||||
| Comment: | periplasmic mercuric ion binding protein | ||||||||||
| Protein Sequence: | MKKLLSALAL AAVVAPVWAA TQTVTLSVPG MTCSACPITV KKAISKVDGV SKVDVTFETR EAVVTFDDAK TSVQKLTKAT EDAGYPSSVK N |
||||||||||
| Gene Name | Protein Name | Associated TE | Gene Length | Coordinates | Strand | merT | MerT | Tn5053.1 | 116 | 7474-7824 | - |
|---|
| Class: | Passenger Gene | ||||||||||
| Subclass: | Heavy Metal Resistance | ||||||||||
| Target: | Mercury | ||||||||||
| Comment: | mercury ion transport protein | ||||||||||
| Protein Sequence: | MSEPQNGRGA LFTGGLAAIL ASACCLGPLV LIALGFSGAW IGNLTVLEPY RPIFIGVALV ALFFAWRRIY RPSAACKPGE VCAIPQVRAT YKLIFWGVAV LVLVALGFPY VVPFFY |
||||||||||
| Gene Name | Protein Name | Associated TE | Gene Length | Coordinates | Strand | merR | MerR | Tn5053.1 | 144 | 7896-8330 | + |
|---|
| Class: | Passenger Gene | ||||||||||
| Subclass: | Heavy Metal Resistance | ||||||||||
| Target: | Mercury | ||||||||||
| Comment: | regulatory protein (repressor /inducer) | ||||||||||
| Protein Sequence: | MENNLENLTI GVFARTAGVN VETIRFYQRK GLLPEPDKPY GSIRRYGETD VTRVRFVKSA QRLGFSLDEI AELLRLEDGT HCEEASSLAE HKLKDVRERM ADLARMEAVL SDLVCACHAR KGNVSCPLIA SLQGKKEPRS ADAV |
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1. Oosterkamp MJ, Veuskens T, Plugge CM, Langenhoff AA, Gerritse J, van Berkel WJ, Pieper DH, Junca H, Goodwin LA, Daligault HE, Bruce DC, Detter JC, Tapia R, Han CS, Land ML, Hauser LJ, Smidt H, Stams AJ.
Genome sequences of Alicycliphilus denitrificans strains BC and K601T.. J Bacteriol. 2011 Sep;193(18):5028-9. doi: 10.1128/JB.00365-11. Epub 2011 Jul 8. PubMed ID:
21742888
.