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Protein

REP-associated tyrosine transposase

Gene

rayT

Organism
Escherichia coli (strain K12)
Status
Reviewed-Annotation score: Annotation score: 4 out of 5-Experimental evidence at protein leveli

Functioni

Transposase that is always flanked by repeated extragenic palindrome (REP) sequences, which are clustered in structures called bacterial interspersed mosaic elements (BIMEs). RayT catalyzes cleavage and recombination of BIMEs. Binds REP sequences and cleaves BIMEs both upstream and downstream of the REP sequence. Could be important in the creation of BIME variability and amplification.3 Publications

Enzyme regulationi

Cleavage occurs in the presence of magnesium, but is much more pronounced with manganese.1 Publication

GO - Molecular functioni

  • sequence-specific DNA binding Source: EcoCyc
  • structure-specific DNA binding Source: EcoCyc
  • transposase activity Source: InterPro

GO - Biological processi

  • DNA recombination Source: EcoCyc
  • transposition, DNA-mediated Source: InterPro
Complete GO annotation...

Keywords - Biological processi

Transposition

Keywords - Ligandi

DNA-binding, Manganese

Enzyme and pathway databases

BioCyciEcoCyc:G6112-MONOMER.
ECOL316407:JW0218-MONOMER.

Names & Taxonomyi

Protein namesi
Recommended name:
REP-associated tyrosine transposase
Gene namesi
Name:rayT1 Publication
Synonyms:TnpAREP1 Publication, yafM
Ordered Locus Names:b0228, JW0218
OrganismiEscherichia coli (strain K12)
Taxonomic identifieri83333 [NCBI]
Taxonomic lineageiBacteriaProteobacteriaGammaproteobacteriaEnterobacterialesEnterobacteriaceaeEscherichia
Proteomesi
  • UP000000318 Componenti: Chromosome
  • UP000000625 Componenti: Chromosome

Organism-specific databases

EcoGeneiEG13150. rayT.

PTM / Processingi

Molecule processing

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Chaini1 – 165165REP-associated tyrosine transposasePRO_0000168536Add
BLAST

Proteomic databases

PaxDbiQ47152.
PRIDEiQ47152.

Interactioni

Subunit structurei

Monomer.1 Publication

Protein-protein interaction databases

BioGridi4259773. 31 interactions.
DIPiDIP-11217N.
IntActiQ47152. 1 interaction.
STRINGi511145.b0228.

Structurei

Secondary structure

1
165
Legend: HelixTurnBeta strand
Show more details
Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Beta strandi13 – 219Combined sources
Helixi27 – 304Combined sources
Helixi32 – 4514Combined sources
Beta strandi49 – 557Combined sources
Beta strandi57 – 659Combined sources
Helixi73 – 8715Combined sources
Beta strandi99 – 1024Combined sources
Helixi106 – 12217Combined sources
Helixi129 – 1313Combined sources
Beta strandi134 – 1363Combined sources
Helixi137 – 1426Combined sources

3D structure databases

Select the link destinations:
PDBei
RCSB PDBi
PDBji
Links Updated
EntryMethodResolution (Å)ChainPositionsPDBsum
4ER8X-ray2.60A1-165[»]
ProteinModelPortaliQ47152.
SMRiQ47152. Positions 1-165.
ModBaseiSearch...
MobiDBiSearch...

Family & Domainsi

Sequence similaritiesi

Belongs to the transposase 17 family. RAYT subfamily.Curated

Phylogenomic databases

eggNOGiENOG4108UK5. Bacteria.
COG1943. LUCA.
HOGENOMiHOG000117045.
InParanoidiQ47152.
KOiK07491.
OMAiYRRHVDY.
OrthoDBiEOG65XN2G.
PhylomeDBiQ47152.

Family and domain databases

Gene3Di3.30.70.1290. 1 hit.
InterProiIPR002686. Transposase_17.
[Graphical view]
SMARTiSM01321. Y1_Tnp. 1 hit.
[Graphical view]
SUPFAMiSSF143422. SSF143422. 1 hit.

Sequencei

Sequence statusi: Complete.

Q47152-1 [UniParc]FASTAAdd to basket

« Hide

        10         20         30         40         50
MSEYRRYYIK GGTWFFTVNL RNRRSQLLTT QYQMLRHAII KVKRDRPFEI
60 70 80 90 100
NAWVVLPEHM HCIWTLPEGD DDFSSRWREI KKQFTHACGL KNIWQPRFWE
110 120 130 140 150
HAIRNTKDYR HHVDYIYINP VKHGWVKQVS DWPFSTFHRD VARGLYPIDW
160
AGDVTDFSAG ERIIS
Length:165
Mass (Da):20,042
Last modified:November 1, 1997 - v1
Checksum:i970463B76841B864
GO

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
D38582 Genomic DNA. Translation: BAA07590.1.
U70214 Genomic DNA. Translation: AAB08648.1.
U00096 Genomic DNA. Translation: AAC73332.1.
AP009048 Genomic DNA. Translation: BAA77898.1.
PIRiE64747.
RefSeqiNP_414763.1. NC_000913.3.
WP_000006255.1. NZ_LN832404.1.

Genome annotation databases

EnsemblBacteriaiAAC73332; AAC73332; b0228.
BAA77898; BAA77898; BAA77898.
GeneIDi944913.
KEGGiecj:JW0218.
eco:b0228.
PATRICi32115571. VBIEscCol129921_0230.

Cross-referencesi

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
D38582 Genomic DNA. Translation: BAA07590.1.
U70214 Genomic DNA. Translation: AAB08648.1.
U00096 Genomic DNA. Translation: AAC73332.1.
AP009048 Genomic DNA. Translation: BAA77898.1.
PIRiE64747.
RefSeqiNP_414763.1. NC_000913.3.
WP_000006255.1. NZ_LN832404.1.

3D structure databases

Select the link destinations:
PDBei
RCSB PDBi
PDBji
Links Updated
EntryMethodResolution (Å)ChainPositionsPDBsum
4ER8X-ray2.60A1-165[»]
ProteinModelPortaliQ47152.
SMRiQ47152. Positions 1-165.
ModBaseiSearch...
MobiDBiSearch...

Protein-protein interaction databases

BioGridi4259773. 31 interactions.
DIPiDIP-11217N.
IntActiQ47152. 1 interaction.
STRINGi511145.b0228.

Proteomic databases

PaxDbiQ47152.
PRIDEiQ47152.

Protocols and materials databases

Structural Biology KnowledgebaseSearch...

Genome annotation databases

EnsemblBacteriaiAAC73332; AAC73332; b0228.
BAA77898; BAA77898; BAA77898.
GeneIDi944913.
KEGGiecj:JW0218.
eco:b0228.
PATRICi32115571. VBIEscCol129921_0230.

Organism-specific databases

EchoBASEiEB2944.
EcoGeneiEG13150. rayT.

Phylogenomic databases

eggNOGiENOG4108UK5. Bacteria.
COG1943. LUCA.
HOGENOMiHOG000117045.
InParanoidiQ47152.
KOiK07491.
OMAiYRRHVDY.
OrthoDBiEOG65XN2G.
PhylomeDBiQ47152.

Enzyme and pathway databases

BioCyciEcoCyc:G6112-MONOMER.
ECOL316407:JW0218-MONOMER.

Miscellaneous databases

PROiQ47152.

Family and domain databases

Gene3Di3.30.70.1290. 1 hit.
InterProiIPR002686. Transposase_17.
[Graphical view]
SMARTiSM01321. Y1_Tnp. 1 hit.
[Graphical view]
SUPFAMiSSF143422. SSF143422. 1 hit.
ProtoNetiSearch...

Publicationsi

« Hide 'large scale' publications
  1. "dinP, a new gene in Escherichia coli, whose product shows similarities to UmuC and its homologues."
    Ohmori H., Hatada E., Qiao Y., Tsuji M., Fukuda R.
    Mutat. Res. 347:1-7(1995) [PubMed] [Europe PMC] [Abstract]
    Cited for: NUCLEOTIDE SEQUENCE [GENOMIC DNA].
    Strain: K12 / W3110 / ATCC 27325 / DSM 5911.
  2. "Systematic sequencing of the Escherichia coli genome: analysis of the 4.0 - 6.0 min (189,987 - 281,416bp) region."
    Takemoto K., Mori H., Murayama N., Kataoka K., Yano M., Itoh T., Yamamoto Y., Inokuchi H., Miki T., Hatada E., Fukuda R., Ichihara S., Mizuno T., Makino K., Nakata A., Yura T., Sampei G., Mizobuchi K.
    Submitted (FEB-1996) to the EMBL/GenBank/DDBJ databases
    Cited for: NUCLEOTIDE SEQUENCE [LARGE SCALE GENOMIC DNA].
    Strain: K12 / W3110 / ATCC 27325 / DSM 5911.
  3. "Sequence of minutes 4-25 of Escherichia coli."
    Chung E., Allen E., Araujo R., Aparicio A.M., Davis K., Duncan M., Federspiel N., Hyman R., Kalman S., Komp C., Kurdi O., Lew H., Lin D., Namath A., Oefner P., Roberts D., Schramm S., Davis R.W.
    Submitted (JAN-1997) to the EMBL/GenBank/DDBJ databases
    Cited for: NUCLEOTIDE SEQUENCE [LARGE SCALE GENOMIC DNA].
    Strain: K12 / MG1655 / ATCC 47076.
  4. Cited for: NUCLEOTIDE SEQUENCE [LARGE SCALE GENOMIC DNA].
    Strain: K12 / MG1655 / ATCC 47076.
  5. "Highly accurate genome sequences of Escherichia coli K-12 strains MG1655 and W3110."
    Hayashi K., Morooka N., Yamamoto Y., Fujita K., Isono K., Choi S., Ohtsubo E., Baba T., Wanner B.L., Mori H., Horiuchi T.
    Mol. Syst. Biol. 2:E1-E5(2006) [PubMed] [Europe PMC] [Abstract]
    Cited for: NUCLEOTIDE SEQUENCE [LARGE SCALE GENOMIC DNA].
    Strain: K12 / W3110 / ATCC 27325 / DSM 5911.
  6. "Identification and characterization of repetitive extragenic palindromes (REP)-associated tyrosine transposases: implications for REP evolution and dynamics in bacterial genomes."
    Nunvar J., Huckova T., Licha I.
    BMC Genomics 11:44-44(2010) [PubMed] [Europe PMC] [Abstract]
    Cited for: FUNCTION, GENE NAME.
  7. "Structuring the bacterial genome: Y1-transposases associated with REP-BIME sequences."
    Ton-Hoang B., Siguier P., Quentin Y., Onillon S., Marty B., Fichant G., Chandler M.
    Nucleic Acids Res. 40:3596-3609(2012) [PubMed] [Europe PMC] [Abstract]
    Cited for: FUNCTION, ENZYME REGULATION.
  8. "The processing of repetitive extragenic palindromes: the structure of a repetitive extragenic palindrome bound to its associated nuclease."
    Messing S.A., Ton-Hoang B., Hickman A.B., McCubbin A.J., Peaslee G.F., Ghirlando R., Chandler M., Dyda F.
    Nucleic Acids Res. 40:9964-9979(2012) [PubMed] [Europe PMC] [Abstract]
    Cited for: X-RAY CRYSTALLOGRAPHY (2.60 ANGSTROMS), FUNCTION, DNA-BINDING, SUBUNIT.

Entry informationi

Entry nameiRAYT_ECOLI
AccessioniPrimary (citable) accession number: Q47152
Entry historyi
Integrated into UniProtKB/Swiss-Prot: November 1, 1997
Last sequence update: November 1, 1997
Last modified: May 11, 2016
This is version 103 of the entry and version 1 of the sequence. [Complete history]
Entry statusiReviewed (UniProtKB/Swiss-Prot)
Annotation programProkaryotic Protein Annotation Program

Miscellaneousi

Keywords - Technical termi

3D-structure, Complete proteome, Reference proteome, Transposable element

Documents

  1. Escherichia coli
    Escherichia coli (strain K12): entries and cross-references to EcoGene
  2. PDB cross-references
    Index of Protein Data Bank (PDB) cross-references
  3. SIMILARITY comments
    Index of protein domains and families

Similar proteinsi

Links to similar proteins from the UniProt Reference Clusters (UniRef) at 100%, 90% and 50% sequence identity:
100%UniRef100 combines identical sequences and sub-fragments with 11 or more residues from any organism into one UniRef entry.
90%UniRef90 is built by clustering UniRef100 sequences that have at least 90% sequence identity to, and 80% overlap with, the longest sequence (a.k.a seed sequence).
50%UniRef50 is built by clustering UniRef90 seed sequences that have at least 50% sequence identity to, and 80% overlap with, the longest sequence in the cluster.