Mobile element type:
Transposon
Name:
Tn1000
Synonyms:
gamma-delta
Accession:
Tn1000-X60200.1
Family:
Tn3
Group:
Tn3
First isolate:
Yes
Partial:
ND
Evidence of transposition:
Yes
Host Organism:
Escherichia coli
Date of Isolation:
1974
Country:
England, usa
Molecular Source:
plasmid F
| Name | Coordinates | Direction | Length | Sequence |
|---|---|---|---|---|
| IRL | 1-35 | + | 35 | GGGGTTTGAG GGCCAATGGA ACGAAAACGT ACGTT |
| IRR | 5947-5981 | - | 35 | GGGGTTTGAG GGCCAATGGA ACGAAAACGT ACGTT |
| Name | Associated TE | Coordinates | Orientation | Length | Sequence |
|---|---|---|---|---|---|
| res | Tn1000 | 2774-2905 | + | 132 | CATAAAAATG TATCCTAAAT CAAATATCGG ACAAGCAGTG TCTGTTATAA CAAAAAATCG ATTTAATAGA CACATTAACA GCACTGTTTT TATGTGTGCG ATAATTTATA ATATTTCGGA CGGTTGCAAA AT |
| res_site_III | Tn1000 | 2782-2806 | + | 25 | TGTATCCTAA ATCAAATATC GGACA |
| res_site_II | Tn1000 | 2812-2845 | + | 34 | TGTCTGTTAT AACAAAAAAT CGATTTAATA GACA |
| res_site_I | Tn1000 | 2868-2895 | + | 28 | TGTGCGATAA TTTATAATAT TTCGGACG |
ORF Summary
| Name | Associated TE | Coordinates | Orientation | Class | Subclass |
|---|---|---|---|---|---|
| hypX | Tn1000 | 113-2209 | - | Passenger Gene | Other |
| tnpR | Tn1000 | 2225-2776 | - | Accessory Gene | Resolvase |
| tnpA | Tn1000 | 2940-5948 | + | Transposase |
ORF Details
| Gene Name | Protein Name | Associated TE | Gene Length | Coordinates | Strand | hypX | HypX | Tn1000 | 698 | 113-2209 | - |
|---|
| Class: | Passenger Gene | ||||||||||
| Subclass: | Other | ||||||||||
| Function: | unknown | ||||||||||
| Protein Sequence: | MELNITSKSN PFGDTTAEND KKMLSNAFIE TADFRTLIET DDRTIVVGRR GTGKSALFIQ LNEHWKKDKK ILILSFSPDD SQIIGFRSML KPFTGSFNLA RAATRLLWRY AMLMEIASYI SSHYKLSSQI SSETLLNEHL KKWNSAQGDI LRKCRLVAKE YLDENNPEES IGDLQFNLNI SEIENNIVSL LERSDRKVVI LMDKLDEAYE PDNIGIGIIA GLAYASIELN QKAKCIRPII FLRDNIFRSL SKEDPDYSRN IEGQVIRLHW DWAQLLMLSA KRMKVAFKLD IEKDQRVWDR CTADDLKGRN GFKRCLQFTL YRPRDLLSLL NEAFFSAFRE NRETIINTDL EYAAKSISMA RLEDLWKEYQ KIFPSIQVIT SAFRSIEPEL TVYTCLKKIE ASFELIEENG DPKITSEIQL LKASGILQSL YSVGFVGIRD KNTSSYSFCH DGRTPDKGFE SNEKLLIHPC YWLGLNLNRN ALAPEEAEEI NDEYDINIIS DNSAIRNKTI GQITTHLDQI PIGNEGATEF EQWCLDALRI VFASHLTDIK SHPNGNAVQR RDIIGTNGGK SDFWKRVLED YKTRQVVFDA KNFEELGPSE YRQLQSYLTG PYGKLGFIIN RDESEVLKSG KDLDWTKEMY QSHNSLIIKL PAKYISKLLQ KLRNPEKHDA IDRQMGKLLT LYETSYMAIK STQKKRRK |
||||||||||
| Gene Name | Protein Name | Associated TE | Gene Length | Coordinates | Strand | tnpR | TnpR | Tn1000 | 183 | 2225-2776 | - |
|---|
| Class: | Accessory Gene | ||||||||||
| Subclass: | Resolvase | ||||||||||
| Function: | resolvase | ||||||||||
| Sequence Family: | Serine Site-Specific Recombinase | ||||||||||
| Transposase Chemistry: | Serine | ||||||||||
| Protein Sequence: | MRLFGYARVS TSQQSLDIQV RALKDAGVKA NRIFTDKASG SSSDRKGLDL LRMKVEEGDV ILVKKLDRLG RDTADMIQLI KEFDAQGVSI RFIDDGISTD GEMGKMVVTI LSAVAQAERQ RILERTNEGR QEAMAKGVVF GRKRKIDRDA VLNMWQQGLG ASHISKTMNI ARSTVYKVIN ESN |
||||||||||
| Gene Name | Protein Name | Associated TE | Gene Length | Coordinates | Strand | tnpA | TnpA | Tn1000 | 1002 | 2940-5948 | + |
|---|
| Class: | Transposase | ||||||||||
| Function: | transposase | ||||||||||
| Transposase Chemistry: | DDE | ||||||||||
| Protein Sequence: | MPVDFLTSDQ KQNYGCYAAE PNDVQLARYF HLDERDLAFI NQRRGKHNRL GIALQLTTAR FLGTFLTDLT QVLPGVQHFV AVQLNIHRPE VLSRYAERDT TLREHTALIK EYYGYHEFGD FPWSFRLKRL LYTRAWLSNE RPGLMFDFAT AWLLQNKVLL PGATTLVRLI SEIRERANQR LWKKLAALPN KWQAAQVMEL LVIPEGQRVS ALEQLKKGPV TVSGPAFNEA LERYIRLRSL EFSRLNFSGL PAIQLRNLAR YAGMASVKYI ARMPQQRKLA VLTAFVKAQE ITALDDAVDV LDMLILDIIR EAKKTGQKKR LRTLKDLDQA ALLLARACAL LLDDNTDVPD LRQVIFKCVP KNRLAESVSK VNELARPQNN NFHDEMVEQY GRVKRFLPAV LRDLHFRAAP AGEHVLAAIH YLAELNGSKK RILDDAPEHI ITGPWKRLVY DAEGRIQRAG YSLCLLERLQ DALRRRDIWL ENSDRWGDPR EKLLQGEEWQ TQRIPVCRAL GHPVDGRKGV QQLAIQLDET WKAVASRFEK NAEVHICNEG KYPSLTISCL EKQEEPPSLL RLNNRIKQLL PPVDLTELLL EIDAQTGFTH EFAHVSESGA RAQDLHISLC AVLMAEACNI GLEPLIKHNI PALTRHRLSW VKQNYLRAET LVSANARLVD FQSTLELAGR WGGGEVASAD GMRFVTPVKT INSGSNRKYF GSGRGITWYN FVSDQYSGFH GIVVPGTLRD SIFVLEGLLE QQTGLNPVEI MTDTAGSSDI IFGLFWLLGY QFSPRLADAG EAVFWRVNKS ANYGVLDKLA RGYADLSKAE SQWDEMMRTA GSLKLGTIHA SELIRSLLKS SRPSGLAQAI MEVGRVNKTL YLLNYIDDED YRRRILTQLN RGEGRHAVAR AICYGQRGEI RKRYREGQED QLGALGLVTN AVVLWNTLYM EEALSWMRRN GEEIIDEDIA RLSPLMHGHI NMLGHYTFTL PEDILKGELR ALNLNINNEL SP |
||||||||||
1. Lee HJ, Otsubo E, Deonier RC, Davidson N.
Electron microscope heteroduplex studies of sequence relations among plasmids of Escherichia coli. V. ilv+ Deletion mutants of F14.. J Mol Biol. 1974 Nov 15;89(4):585-97. doi: 10.1016/0022-2836(74)90037-0. PubMed ID:
4615160
.
2. Guyer MS. The gamma delta sequence of F is an insertion sequence.. J Mol Biol. 1978 Dec 15;126(3):347-65. doi: 10.1016/0022-2836(78)90045-1. PubMed ID: 745233 .
3. Reed RR, Young RA, Steitz JA, Grindley ND, Guyer MS. Transposition of the Escherichia coli insertion element gamma generates a five-base-pair repeat.. Proc Natl Acad Sci U S A. 1979 Oct;76(10):4882-6. doi: 10.1073/pnas.76.10.4882. PubMed ID: 388421 .
4. Wiater LA, Grindley ND. Gamma delta transposase and integration host factor bind cooperatively at both ends of gamma delta.. EMBO J. 1988 Jun;7(6):1907-11. doi: 10.1002/j.1460-2075.1988.tb03024.x. PubMed ID: 2844529 .
5. Broom JE, Hill DF, Hughes G, Jones WA, McNaughton JC, Stockwell PA, Petersen GB. Sequence of a transposon identified as Tn1000 (gamma delta).. DNA Seq. 1995;5(3):185-9. doi: 10.3109/10425179509029361. PubMed ID: 7612932 .
6. Wiater LA, Grindley ND. Uncoupling of transpositional immunity from gamma delta transposition by a mutation at the end of gamma delta.. J Bacteriol. 1990 Sep;172(9):4959-63. doi: 10.1128/jb.172.9.4959-4963.1990. PubMed ID: 2168371 .
7. Wiater LA, Grindley ND. Integration host factor increases the transpositional immunity conferred by gamma delta ends.. J Bacteriol. 1990 Sep;172(9):4951-8. doi: 10.1128/jb.172.9.4951-4958.1990. PubMed ID: 2168370 .
8. Salvo JJ, Grindley ND. The gamma delta resolvase bends the res site into a recombinogenic complex.. EMBO J. 1988 Nov;7(11):3609-16. doi: 10.1002/j.1460-2075.1988.tb03239.x. PubMed ID: 2850169 .
9. Wiater LA, Grindley ND. Gamma delta transposase. Purification and analysis of its interaction with a transposon end.. J Biol Chem. 1991 Jan 25;266(3):1841-9. PubMed ID: 1846366 .
10. Reed RR, Grindley ND. Transposon-mediated site-specific recombination in vitro: DNA cleavage and protein-DNA linkage at the recombination site.. Cell. 1981 Sep;25(3):721-8. doi: 10.1016/0092-8674(81)90179-3. PubMed ID: 6269756 .
11. Wells RG, Grindley ND. Analysis of the gamma delta res site. Sites required for site-specific recombination and gene expression.. J Mol Biol. 1984 Nov 15;179(4):667-87. doi: 10.1016/0022-2836(84)90161-x. PubMed ID: 6094833 .
2. Guyer MS. The gamma delta sequence of F is an insertion sequence.. J Mol Biol. 1978 Dec 15;126(3):347-65. doi: 10.1016/0022-2836(78)90045-1. PubMed ID: 745233 .
3. Reed RR, Young RA, Steitz JA, Grindley ND, Guyer MS. Transposition of the Escherichia coli insertion element gamma generates a five-base-pair repeat.. Proc Natl Acad Sci U S A. 1979 Oct;76(10):4882-6. doi: 10.1073/pnas.76.10.4882. PubMed ID: 388421 .
4. Wiater LA, Grindley ND. Gamma delta transposase and integration host factor bind cooperatively at both ends of gamma delta.. EMBO J. 1988 Jun;7(6):1907-11. doi: 10.1002/j.1460-2075.1988.tb03024.x. PubMed ID: 2844529 .
5. Broom JE, Hill DF, Hughes G, Jones WA, McNaughton JC, Stockwell PA, Petersen GB. Sequence of a transposon identified as Tn1000 (gamma delta).. DNA Seq. 1995;5(3):185-9. doi: 10.3109/10425179509029361. PubMed ID: 7612932 .
6. Wiater LA, Grindley ND. Uncoupling of transpositional immunity from gamma delta transposition by a mutation at the end of gamma delta.. J Bacteriol. 1990 Sep;172(9):4959-63. doi: 10.1128/jb.172.9.4959-4963.1990. PubMed ID: 2168371 .
7. Wiater LA, Grindley ND. Integration host factor increases the transpositional immunity conferred by gamma delta ends.. J Bacteriol. 1990 Sep;172(9):4951-8. doi: 10.1128/jb.172.9.4951-4958.1990. PubMed ID: 2168370 .
8. Salvo JJ, Grindley ND. The gamma delta resolvase bends the res site into a recombinogenic complex.. EMBO J. 1988 Nov;7(11):3609-16. doi: 10.1002/j.1460-2075.1988.tb03239.x. PubMed ID: 2850169 .
9. Wiater LA, Grindley ND. Gamma delta transposase. Purification and analysis of its interaction with a transposon end.. J Biol Chem. 1991 Jan 25;266(3):1841-9. PubMed ID: 1846366 .
10. Reed RR, Grindley ND. Transposon-mediated site-specific recombination in vitro: DNA cleavage and protein-DNA linkage at the recombination site.. Cell. 1981 Sep;25(3):721-8. doi: 10.1016/0092-8674(81)90179-3. PubMed ID: 6269756 .
11. Wells RG, Grindley ND. Analysis of the gamma delta res site. Sites required for site-specific recombination and gene expression.. J Mol Biol. 1984 Nov 15;179(4):667-87. doi: 10.1016/0022-2836(84)90161-x. PubMed ID: 6094833 .