Mobile element type:
Transposon
Name:
TnXca1
Synonyms:
Tn7215
Accession:
TnXca1-NC_007507
Family:
Tn3
Group:
Tn4651
First isolate:
Yes
Partial:
ND
Evidence of transposition:
ND
Host Organism:
Xanthomonas campestris pv. vesicatoria
Date of Isolation:
2005
Country:
Molecular Source:
plasmid pXCV183
| Name | Coordinates | Direction | Length | Sequence |
|---|---|---|---|---|
| IRL | 1-29 | + | 29 | GAGGGTCGGC AGGGATTGAT ACAAAAAAC |
| IRint | 9857-9894 | + | 38 | GGGGAGTGTT CATGGTCTTT ATCCTCGGTG ATGCACGT |
| IRR | 11495-11523 | - | 29 | GAGGGTCGGC AGGGATTCGT GTAAAAGAC |
| Name | Associated TE | Coordinates | Orientation | Length | Sequence |
|---|---|---|---|---|---|
| res_acc_IR2 | TnXca1 | 2477-2485 | + | 9 | TACCATGTA |
| res_acc_IR2 | TnXca1 | 2533-2546 | + | 14 | TCACGCGGGA TAAT |
| res_acc_IR1 | TnXca1 | 2551-2565 | - | 15 | TCAGGCGGGA TAATT |
| res_core_IRR | TnXca1 | 2593-2600 | + | 8 | CGGGCCGT |
ORF Summary
| Name | Associated TE | Coordinates | Orientation | Class | Subclass |
|---|---|---|---|---|---|
| WP_011345700.1 | TnXca1 | 352-1389 | + | Passenger Gene | Hypothetical |
| tnpT | TnXca1 | 1377-2444 | - | Accessory Gene | Resolvase |
| tnpS | TnXca1 | 2635-3603 | + | Accessory Gene | Resolvase |
| tnpA | TnXca1 | 3612-6575 | + | Transposase | |
| repA | TnXca1 | 6906-8132 | - | Passenger Gene | Other |
| zeta | TnXca1 | 8412-9599 | - | Passenger Gene | Toxin |
| epsilon | TnXca1 | 9606-9869 | - | Passenger Gene | Antitoxin |
| PIN | TnXca1 | 9894-10304 | - | Passenger Gene | Toxin |
| abrB | TnXca1 | 10292-10552 | - | Passenger Gene | Antitoxin |
| tnpR TnPsy42 like | TnXca1 | 10742-11308 | + | Accessory Gene | Resolvase |
ORF Details
| Gene Name | Protein Name | Associated TE | Gene Length | Coordinates | Strand | WP_011345700.1 | WP_011345700.1 | TnXca1 | 345 | 352-1389 | + |
|---|
| Class: | Passenger Gene | ||||||||||
| Subclass: | Hypothetical | ||||||||||
| Protein Sequence: | MRKFKSKYML GACIVGSIVS AGAAAQVAAI NNTGRAEAMS AWETTLKHEA PAMEGCFSST FPDMGWQAVR CGAPPKLVMK PRHVASGNVR TTTDNRVLIT GNGDDYAART GRLTHSAVGS FPSVSGVTTG VVQYSLQINT DNDSNPAACA QFGFSSCKTW QQYVYSSDAD EDSSNGFDPV IFIESWVYAD STSEYDAAGC PSGWDAYEGN ACVINSESVR VPLVPVSGIA GVKLTGSATS GGVDTVSFSV NGRAYSVSQR ASTVDINKIW RLTEFNIFGN GARTQTVSFN RGSHVTVNVA VNDGTTNAPT CLGNAGQTFE QNNLTRGSCS VFGGASPGIS FPQSN |
||||||||||
| Gene Name | Protein Name | Associated TE | Gene Length | Coordinates | Strand | tnpT | TnpT | TnXca1 | 355 | 1377-2444 | - |
|---|
| Class: | Accessory Gene | ||||||||||
| Subclass: | Resolvase | ||||||||||
| Protein Sequence: | MARSGLYKSD VQRARDSLRA TGKNPSVDAV RVALGNTGSK TTIHRYLREL EEEEGQGVGA KMAVSDALQD LVARLAERLH GEADTVVAQA QARFQAQLQE RTQTLEQARQ EADSLTTQLQ RCETVLQAEC EASATARSEV ASRTTELAQL EERIAGLTAR LAEHQSHARS LEQKHDHARE ALEHYRTSVK DQREQEQRRH EHQVQELQVA LRQANEALTA KNHDLMQLNR ENGQWLERHT RLERELTQTR QRADAQQRER DALRLAAAEH QGLQARWTKD VQALEGVRAE LAAVRTDLIE ERQRREHAEA DTLRATVRLS TLEQLLAQLR PPRPVGEQVT SGKDETSPDA NSQLL |
||||||||||
| Gene Name | Protein Name | Associated TE | Gene Length | Coordinates | Strand | tnpS | TnpS | TnXca1 | 322 | 2635-3603 | + |
|---|
| Class: | Accessory Gene | ||||||||||
| Subclass: | Resolvase | ||||||||||
| Sequence Family: | TyrosineSite-Specific Recombinase | ||||||||||
| Transposase Chemistry: | Tyrosine | ||||||||||
| Protein Sequence: | MISVGQYLEA ATRPNTQRAY AAATRHFEVE WGGHLPATAE QVARYLAAYA GQLALNTLRH RLAALAQ*HQ AHGFADPTRA PVVRKVLKGI QTVHPSQEKR ATPLQLTQLG QVVDWLDGAA TAAGTRDDAA GRLRHLRDRA FVLLGFWRGF RGDELVRLQV QDLELVAGEG MTCFLPHSKS DRQHAGTTYK VPALSRWCPV AATMTWVAAA ALHEGPLFRA VNQWGGIAAA PLHPNSLVPL LRRIFREAGL SSPDDYSGHS LRRGFAGWAN ANGWDVKALM EYVGWRDVHS AMRYLDGADP FARRRIEASL PEAPALPRPA TT |
||||||||||
| Gene Name | Protein Name | Associated TE | Gene Length | Coordinates | Strand | tnpA | TnpA | TnXca1 | 987 | 3612-6575 | + |
|---|
| Class: | Transposase | ||||||||||
| Transposase Chemistry: | DDE | ||||||||||
| Protein Sequence: | MASIERTAYP QFKRNPVVRE LVAAYTPTDA EVAFVAEYTR QPAHRLTLTI LLKTFQRLGY FPVLDEVPPA VVRHIRSALK LRVQVKPANL ANASRYRYYR RIRQFLQVRA YSDGGLKIAA RAVYEAAAVM DNPADLINVA IEQLVRDRVE LPAFSTLDRL TRRIRSLVNG HYFAQIEARL TIDEKQRLEG LLHVEQGRQK SPLHAIKRLP KRSSLQHFQE LIDHIAELGE LVGSEVHLAG IREVKRKHFA AEARALDASE LRKFRPGKRY AVLVCLIHRA RVQTRDDLAE MFIKRMGNIH NRGREELERL RARYREKTEA IVATMSDVVR VLDHHRGDTE AGREIRRLVN AHGGVQTLQA DCNAIAAHSG DNHLPLLWPF YKSHRSTILR MVRRLDLAST TEDRSLIDAI ELILTQERSR SHWLDEAVDL AFTTQLWRKT IVHRTEVGGE ERIHRRLFEV CVFSSLANEL KSGDVAVRGS ETYADYREQL LPWEQCEPLL EDYCKQVGLP ATAVGFVNAL QSRLTQVAEL TDQGYLENGQ VVIGEDGIPV LKRSKAKEMS CGARALETAV LDRMRERSVI EILCDVAHWT RWPRHFGPLS GSDAKIEQPT ERYVLTAFTY GCNLGPAQAA RHLRGAVSAH MLSFVNRRHV DANKLAAACR DIINSYAGLQ LPKCWGDGKS AAADGTKYDL YDQNLLASYH IRYGGYGGIA YHHVSDTYVA LFSHFIPCGV WEAVYIIDGL LKNTSDIQPD TVHADTQGQS LPVFGLSHLL GIQLMPRIRN WCEYKFFRPD EDIRYEYIDA LFRDTVDWDL IETHWKDLMQ VVLSIKTGKI AASTLMRKLG NYSRKNRLYQ AFKALGSAVR TLFLLQYISN RELREQITAS TNKVEAYNGF AKYFFFGGEG VIADNDPVEQ EKAVQYNDLV SNAVIFYNVV EQTRIMKSLM RQGWKITRED VAFLSPYVTS HVKRFGDYLI DVEEVPEPYE TELALAG |
||||||||||
| Gene Name | Protein Name | Associated TE | Gene Length | Coordinates | Strand | repA | RepA | TnXca1 | 408 | 6906-8132 | - |
|---|
| Class: | Passenger Gene | ||||||||||
| Subclass: | Other | ||||||||||
| Protein Sequence: | MKKISELTAQ PTSAEMLQWR DGYRHHLESK GIPPESAADL AAKVSYRADL YPTDLAATRP LFQVEPPTAP GEQATDAKVP PLKDSRPDKA KPTKAAKLKR VEPAALERKP KTTTATAREE RLIKTAAEIA GERPDDDDRA YMHSIMCQVG LPRSKVDGTS FERHSGGAAL LVEAGKLWDG KQFVQQPIPY GAMPRLMLAW MNTYAVRFNS PEIPVGDSAS EFLRMLGQKN ITGGERGTFT NFRKQVQALS ACRMTLGFNA NGRAHTYEGK PIKHFEAWIN LEEKQRALWP GSVTFSQDYY LTLKDHAVPL DLRAFMELKG SALDLDVYAW LAQRLHRIEG RPVVLYWTNL RDQFGQEYQG KEADKDFKKK FLPSLRRVLA VYPDAKVKQV TGGIMLMASP PPIPYKGS |
||||||||||
| Gene Name | Protein Name | Associated TE | Gene Length | Coordinates | Strand | zeta | Zeta | TnXca1 | 395 | 8412-9599 | - |
|---|
| Class: | Passenger Gene | ||||||||||
| Subclass: | Toxin | ||||||||||
| Sequence Family: | UDP-N-acetylglucosamine kinase (Pfam:PF06414) | ||||||||||
| Target: | murA cell wall synthesis | ||||||||||
| Comment: | UDP-N-acetylglucosamine kinase | ||||||||||
| Protein Sequence: | MDEKRFQLST RKHTAAYEKI ERHHFKDTAP ADQPQAIILG GQPGAGKSGL LEASKQGFAD RNVVTINGDE LRYYHPQYRD IQKADERRFA ELTDPHARPW TKQLFDRTIE TRRNVVFEGT MREAGPITET MRRLKEAGYY VVARVIAANE RDSMAGIHRR YEEQKAAKGF GRWSNVQAHD DAYKGMPATL EYIEHNKLAD RVQVYDRKGN VLYDNELQGN EWKRQPAAKT AIEAERERPP TPEERRQQEA EWATILAMMT ARRADEREIE RVRDVARQYG GQQYPEHKPA EYERQDYGRQ QPELRAPETG KTYQGPIVSA DDKHVIQSVR EAGRELHIQH ERLVLNSDRR ELLNAGTNVE IRYPYNRVGI VKEWGAKEIQ GPASKGIEPK DFGKR |
||||||||||
| Gene Name | Protein Name | Associated TE | Gene Length | Coordinates | Strand | epsilon | Epsilon | TnXca1 | 87 | 9606-9869 | - |
|---|
| Class: | Passenger Gene | ||||||||||
| Subclass: | Antitoxin | ||||||||||
| Sequence Family: | Epsilon_antitox (Pfam:PF08998) | ||||||||||
| Protein Sequence: | MNTPLSPIAK TARLEAATET LAEYIGYLNS EIDAEQDKAE PNAGRIEALE HELEIVVDER RAITPDNLSL INRALYVYAP LLKPMHG |
||||||||||
| Gene Name | Protein Name | Associated TE | Gene Length | Coordinates | Strand | PIN | PIN | TnXca1 | 136 | 9894-10304 | - |
|---|
| Class: | Passenger Gene | ||||||||||
| Subclass: | Toxin | ||||||||||
| Sequence Family: | PIN (Pfam:PF01850) | ||||||||||
| Target: | single stranded RNA | ||||||||||
| Comment: | tRNA(fMet)-specific endonuclease | ||||||||||
| Protein Sequence: | MARMKRYMLD TNTVSHLVKS HPAVSRRVIE VPMTALCMSA ITGGELMFGL AKVPDAKRLQ QAVMELLRRV DVLPWDGAVM ERYGSVRADL EKQGKALGSL DMLIAAHALE TDSVLVTNDA AFSRVVGLTV EDWTRS |
||||||||||
| Gene Name | Protein Name | Associated TE | Gene Length | Coordinates | Strand | abrB | AbrB | TnXca1 | 86 | 10292-10552 | - |
|---|
| Class: | Passenger Gene | ||||||||||
| Subclass: | Antitoxin | ||||||||||
| Sequence Family: | abrB/mazE (PDB:2MRN,Pfam:PF04014) | ||||||||||
| Comment: | MazE/SpoVT family DNA-bindingdomain-containing protein | ||||||||||
| Protein Sequence: | VSQVAKLFIN GRSQAVRLPA AYRFTEKEVF IRQDPETGDV ILSRKPATWE DFFIALKSAD VPANFLDAAE RNQGTQDRDP FAGWRE |
||||||||||
| Gene Name | Protein Name | Associated TE | Gene Length | Coordinates | Strand | tnpR TnPsy42 like | TnpR TnPsy42 like | TnXca1 | 188 | 10742-11308 | + |
|---|
| Class: | Accessory Gene | ||||||||||
| Subclass: | Resolvase | ||||||||||
| Sequence Family: | Serine Site-Specific Recombinase | ||||||||||
| Transposase Chemistry: | Serine | ||||||||||
| Comment: | 94% identity | ||||||||||
| Protein Sequence: | MVLIGYARVS TAEQDTALQT DALRKAGCAR VFEDTASGAK ADRPGLADAL AYLRAGDVLA VWRLDRLGRS MQHLIETIAA LEARGVGFRS LTESIDTTTP GGRLIFHVFG ALGQFERDLI RERTKAGLTA AAARGRKGGR KPVVTADKLQ RAREHIANGL NAREAATRLK VSKTALYAAL QSTSAADS |
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1. Thieme F, Koebnik R, Bekel T, Berger C, Boch J, Buttner D, Caldana C, Gaigalat L, Goesmann A, Kay S, Kirchner O, Lanz C, Linke B, McHardy AC, Meyer F, Mittenhuber G, Nies DH, Niesbach-Klosgen U, Patschkowski T, Ruckert C, Rupp O, Schneiker S, Schuster SC, Vorholter FJ, Weber E, Puhler A, Bonas U, Bartels D, Kaiser O.
Insights into genome plasticity and pathogenicity of the plant pathogenic bacterium Xanthomonas campestris pv. vesicatoria revealed by the complete genome sequence.. J Bacteriol. 2005 Nov;187(21):7254-66. doi: 10.1128/JB.187.21.7254-7266.2005. PubMed ID:
16237009
.