Mobile element type:
Transposon
Name:
TnSod9
Synonyms:
Tn7199
Accession:
TnSod9-NC_004349
Family:
Tn3
Group:
Tn21
First isolate:
Yes
Partial:
ND
Evidence of transposition:
Yes
Host Organism:
Shewanella oneidensis MR-1
Date of Isolation:
2002
Country:
Molecular Source:
MR-1 megaplasmid
| Name | Coordinates | Direction | Length | Sequence |
|---|---|---|---|---|
| IRL | 1-39 | + | 39 | GGGGTCGCCT CAGAAAACGG AAAAAATCGT ACGCTAAGC |
| IRR | 4374-4412 | - | 39 | GGGGTCGCCT CAGAAAACGG AAAAAATCGT ACGCTAAGC |
ORF Summary
| Name | Associated TE | Coordinates | Orientation | Class | Subclass |
|---|---|---|---|---|---|
| tnpR | TnSod9 | 34-591 | - | Accessory Gene | Resolvase |
| HEPN | TnSod9 | 585-962 | - | Passenger Gene | Toxin |
| mnt | TnSod9 | 959-1249 | - | Passenger Gene | Antitoxin |
| tnpA | TnSod9 | 1413-4379 | + | Transposase |
ORF Details
| Gene Name | Protein Name | Associated TE | Gene Length | Coordinates | Strand | tnpR | TnpR | TnSod9 | 185 | 34-591 | - |
|---|
| Class: | Accessory Gene | ||||||||||
| Subclass: | Resolvase | ||||||||||
| Sequence Family: | Serine Site-Specific Recombinase | ||||||||||
| Transposase Chemistry: | Serine | ||||||||||
| Protein Sequence: | MLIGYARVST QDQHLELQRE ALLKAGCEKV FEDTISGTRA DRLGLSKALE ILREGDTLVV WKLDRLGRSV KQLVELVSDL HKQNVQFKSL TDSIDTGTPS GRFFFHVMAS LAEMERDLIV ERTRAGLDVA RQLGRKGGRK PKMTDSKIES AKKLLASGVP PKDVAKNLGV SVPTLYRWLP ASAHA |
||||||||||
| Gene Name | Protein Name | Associated TE | Gene Length | Coordinates | Strand | HEPN | HEPN | TnSod9 | 125 | 585-962 | - |
|---|
| Class: | Passenger Gene | ||||||||||
| Subclass: | Toxin | ||||||||||
| Function: | antitoxin | ||||||||||
| Sequence Family: | HEPN (PDB:5YEP) | ||||||||||
| Target: | RNA | ||||||||||
| Protein Sequence: | MKVNRLPDYL DHMHQAASDA CYFVEGLDKD EFLVDKRTQQ AVIMSLIVIG EASTKVMDGY SEFVIAHSDV PWRSMRGMRN RIAHGYFDIN LDVVWDTVQT ALPTLLSQLA AVRYDVDKNE GHDLC |
||||||||||
| Gene Name | Protein Name | Associated TE | Gene Length | Coordinates | Strand | mnt | Mnt | TnSod9 | 96 | 959-1249 | - |
|---|
| Class: | Passenger Gene | ||||||||||
| Subclass: | Antitoxin | ||||||||||
| Function: | toxin | ||||||||||
| Sequence Family: | mnt (PDB:5YEP_A) | ||||||||||
| Protein Sequence: | MRPSAVLALK RSVIRETASR FRVTNPRVFG SVLDGTDLDG SDLDLLVDAL PGATLFDLGG LQDELESLLG LQVDLLTPGD LPPKFRAQVL AEARPV |
||||||||||
| Gene Name | Protein Name | Associated TE | Gene Length | Coordinates | Strand | tnpA | TnpA | TnSod9 | 988 | 1413-4379 | + |
|---|
| Class: | Transposase | ||||||||||
| Transposase Chemistry: | DDE | ||||||||||
| Protein Sequence: | MPRRSILSAA ERDSLLVLPD TQDELIRHYT FSEPDLSLIR QRRGDANRLG IAVQLCLLRF PGQGLLPDAT VPMPLLQWIG QQLQLDPVCW PQYAEREETR REHLLELRVY LGMEPFSQVH HRQAVHTTTE LALQTDKGIV LANSVVETLR HKHIILPTLD VVERVCAEAL TRANRRIYDT LTEPLSGSHR HRLDDLLKLR DNNKTTTLAW LRLSPVKPNS RHMLEHIERL KVWQALDLPI GVDRLIHQNR LLKIAREGGQ MTPADLAKFE PQRRYATLVA LAIEGMATVT DEIIDLHDRI MGKLFNDAKK RHQKQFQASG KAINAKVRLF GRIGQVLIDA KQAGDDPFAA IEGVISWEAF AKSVTEAQSL AQPEEFDFLY RLGESYATLR RYAPTFLTAL KLRAAPAAKG VLEAIEVLRS MNNDNARKVP ADAPIDFIKP RWQKLVITDT GIDRRYYELC ALSEMRNALR SGDIWVQGSR QFKDFEDYLV PPAKFVSLKQ TNQLPLAVAT DCEQYLNERL TQLETQLATV NSMAQANELP DAIITASGLK ITPLDAVVPD TAQRLIDQAA RILPHVKITE LLLEVDEWTG FTRHFAHLKS GVLAKDKNLL LTTILADAIN LGLTKMAESC PGTTYAKLAW LQAWHIRDET YGAALSELVN AQYRHPFAEH WGDGSTSSSD GQNFRTGNKA ESTGHINPKY GSSPGRTFYT HISDQYAPFH TKVVNVGVRD STYVLDGLLY HESDLRIEEH YTDTAGFTDH VFALMHLLGF RFAPRIRDLG ETKLYIPKRD VTYEGLKSMI GGTLNIKLIR THWDEILRLA TSIKQGTVTA SLMLRKLGSY PRQNGLAVAL RELGRIERTL FILDWLQSVE LRRRVHAGLN KGEARNALAR AVFFNRLGEI RDRSFEQQRY RASGLNLVTA AIVLWNTVYL ERVAHGLRAK GHAVDEELLQ YLSPLGWEHI NLTGDYLWRS SAKIGSGKFR PLRPLSPA |
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1. Heidelberg JF, Paulsen IT, Nelson KE, Gaidos EJ, Nelson WC, Read TD, Eisen JA, Seshadri R, Ward N, Methe B, Clayton RA, Meyer T, Tsapin A, Scott J, Beanan M, Brinkac L, Daugherty S, DeBoy RT, Dodson RJ, Durkin AS, Haft DH, Kolonay JF, Madupu R, Peterson JD, Umayam LA, White O, Wolf AM, Vamathevan J, Weidman J, Impraim M, Lee K, Berry K, Lee C, Mueller J, Khouri H, Gill J, Utterback TR, McDonald LA, Feldblyum TV, Smith HO, Venter JC, Nealson KH, Fraser CM.
Genome sequence of the dissimilatory metal ion-reducing bacterium Shewanella oneidensis.. Nat Biotechnol. 2002 Nov;20(11):1118-23. doi: 10.1038/nbt749. Epub 2002 Oct 7. PubMed ID:
12368813
.