Detailed information of oriT

oriT

The information of the oriT region


oriTDB ID   100324
Name   oriT_pAR060302 in_silico
Organism   Escherichia coli
Sequence Completeness      intact
NCBI accession of oriT (coordinates [strand])   NC_012692 (52932..53482 [+], 551 nt)
oriT length   551 nt
IRs (inverted repeats)      IR1: 62..70, 71..79  (AACCCTTTC..GACAGGGTT)
  IR2: 143..150, 154..161  (TGGCCTGC..GGAGGCCA)
Location of nic site      _
Conserved sequence flanking the
  nic site    		  _
Note   predicted by the oriTfinder

  oriT sequence  


Download         Length: 551 nt

>oriT_pAR060302
TGTAAAGAGGCTGTGAAAGAATAAGAGCATCAAGATTCCAGATAGATAGAGGGAAATTTGACAAATTCCAAAGATGGGTTAGCCTAGTGACAGAACTAGATTCCAGTATTGGAATAATCAGCTTTAAATTCCAGATAGATAGTTATGTGGATAGGAATTGGATAGGAATTGGGAGGGTATTGAGG

Visualization of oriT structure

  oriT secondary structure

Predicted by RNAfold.

Download structure file


Relaxase

ID   395 GenBank   YP_002894415
Name   TraI_pAR060302 insolico UniProt ID   C4NVS7
Length   990 a.a. PDB ID   
Note   putative relaxase

  Relaxase protein sequence


Download         Length: 990 a.a.        Molecular weight: 109356.90 Da        Isoelectric Point: 4.9395

>YP_002894415.1 TraI (plasmid) [Escherichia coli]
MLKALNKLFGGRSGVIETAPSVRVLPLKDVEDEEIPRYPPFAKGLPVAPLDKILATQAELIEKVRNSLGF
TVDDFNRLVLPVIQRYAAFVHLLPASESHHHRGAGGLFRHGLEVAFWAAQASESVIFSIEGTPRERRDNE
PRWRLASCFSGLLHDVGKPLSDVSITDKDGSITWNPYSESLHDWAHRHEIDRYFIRWRDKRHKRHEQFSL
LAVDRIIPAETREFLSKSGPSIMEAMLEAISGTSVNQPVTKLMLRADQESVSRDLRQSRLDVDEFSYGVP
VERYVFDAIRRLVKTGKWKVNEPGAKVWHLNQGVFIAWKQLGDLYDLISHDKIPGIPRDPDTLADILIER
GFAVPNTVQEKGERAYYRYWEVLPEMLQEAAGSVKILMLRLESNDLVFTTEPPAAVAAEVVGDVEDAEIE
FVDPEEVDDDQEEDVSALNDDMLAAEQEAEKALAGLGFGDAMEMLKSTSDAVEEKPEQKDAGSTESSKPD
AGKKGKPQSKPGKAKPKSDTEKQPHKPEAKEDLSPQDIAKNAPPLANDNPLQALKDVGGGLGDIDFPFDA
FSASAETASTDATNSEIPDVAMPGKQEKQPKQDFVPQEQNSLQGDDFPMFGSSDEPPSWAIEPLPMLTDA
PEQTTPAPAMPPTDKPNLHEKDAKTLLVEMLAGYGEASALLEQAIMPVLEGKTTLGEVLCLMKGQAVILY
PDGARSLGAPSEVLSKLSHANAIVPDPIMPGRKVRDFSGVKAIVLAEQLSDAVVAAIKDAEASMGGYQDA
FELVSPPGLDASKNKSAPKQQSRKKAQQQKPEVNAGKPSPEQKAKGKDSQPQQKEKKVDVTSPVEEPQRQ
PVQEKQNVARLPKREVQPVAPEPKVEREKELGHVEVREREEPEVREFEPPKAKTNPKDINAEDFLPSGVT
PQKALQMLKDMIQKRSGRWLVTPVLEEDGCLVTSDKAFDMIAGENIGISKHILCGMLSRAQRRPLLKKRQ
GKLYLEVNET

  Protein domains


Predicted by InterproScan.

Putative helicase (TraI_2)

(51-357)


  Protein structure


Source ID Structure
AlphaFold DB C4NVS7


T4SS

T4SS were predicted by using oriTfinder2.

Region 1: 51066..60156

Locus tag Coordinates Strand Size (bp) Protein ID Product Description
HS646_RS00360 (pAR060302_0067) 47097..47330 - 234 WP_001191890 hypothetical protein -
HS646_RS00365 (pAR060302_0068) 47312..47929 - 618 WP_001249395 hypothetical protein -
HS646_RS00370 (pAR060302_0069) 48097..51069 + 2973 WP_001326173 MobH family relaxase -
HS646_RS00375 (pAR060302_0070) 51066..52931 + 1866 WP_000178857 conjugative transfer system coupling protein TraD virb4
HS646_RS00380 (pAR060302_0071) 52942..53526 + 585 WP_000332868 hypothetical protein -
HS646_RS00385 (pAR060302_0072) 53483..54112 + 630 WP_000743449 DUF4400 domain-containing protein tfc7
HS646_RS00390 (pAR060302_0073) 54122..54568 + 447 WP_000122507 hypothetical protein -
HS646_RS00395 (pAR060302_0074) 54578..54955 + 378 WP_000869297 hypothetical protein -
HS646_RS00400 (pAR060302_0075) 54955..55617 + 663 WP_001231464 hypothetical protein -
HS646_RS00405 55798..55941 + 144 WP_001275801 hypothetical protein -
HS646_RS00410 (pAR060302_0076) 55953..56318 + 366 WP_001052530 hypothetical protein -
HS646_RS00415 (pAR060302_0077) 56463..56744 + 282 WP_000805625 type IV conjugative transfer system protein TraL traL
HS646_RS00420 (pAR060302_0078) 56741..57367 + 627 WP_001049717 TraE/TraK family type IV conjugative transfer system protein traE
HS646_RS00425 (pAR060302_0079) 57351..58268 + 918 WP_000794249 type-F conjugative transfer system secretin TraK traK
HS646_RS00430 (pAR060302_0080) 58268..59581 + 1314 WP_024131605 TraB/VirB10 family protein traB
HS646_RS00435 (pAR060302_0081) 59578..60156 + 579 WP_000793435 type IV conjugative transfer system lipoprotein TraV traV
HS646_RS00440 (pAR060302_0082) 60160..60552 + 393 WP_000479535 TraA family conjugative transfer protein -
HS646_RS00445 (pAR060302_0083) 60837..62099 + 1263 WP_000608644 IS1380-like element ISEcp1 family transposase -
HS646_RS00450 (pAR060302_0084) 62423..63568 + 1146 WP_000976514 extended-spectrum class C beta-lactamase CMY-2 -
HS646_RS00455 (pAR060302_0085) 63662..64195 + 534 WP_001221666 lipocalin family protein -
HS646_RS00460 (pAR060302_0086) 64192..64509 - 318 WP_000118520 quaternary ammonium compound efflux SMR transporter SugE -

Host bacterium

ID   785 GenBank   NC_012692
Plasmid name   pAR060302 Incompatibility group   IncA/C2
Plasmid size   166530 bp Coordinate of oriT [Strand]   52932..53482 [+]
Host baterium   Escherichia coli

Cargo genes

Drug resistance gene   floR, tet(A), aph(6)-Id, aph(3'')-Ib, sul2, blaCMY-2, ant(3'')-Ia, aac(3)-VIa, qacE, sul1
Virulence gene   -
Metal resistance gene   merE, merD, merB, merA, merP, merT, merR
Degradation gene   -
Symbiosis gene   -
Anti-CRISPR   -