Detailed information of oriT

oriT

The information of the oriT region


oriTDB ID   100696
Name   oriT_p6409-202.186kb in_silico
Organism   Escherichia coli strain 6409
Sequence Completeness      intact
NCBI accession of oriT (coordinates [strand])   NZ_CP010373 (79536..80086 [-], 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_p6409-202.186kb
TGTAAAGAGGCTGTGAAAGAATAAGAGCATCAAGATTCCAGATAGATAGAGGGAAATTTGACAAATTCCAAAGATGGGTTAGCCTAGTGACAGAACTAGATTCCAGTATTGGAATAATCAGCTTTAAATTCCAGATAGATAGTTATGTGGATAGGAATTGGATAGGAATTGGGAGGGTATTGAGG

Visualization of oriT structure

  oriT secondary structure

Predicted by RNAfold.

Download structure file


Relaxase

ID   768 GenBank   WP_001337757
Name   TraI_p6409-202.186kb insolico UniProt ID   _
Length   992 a.a. PDB ID   
Note   putative relaxase

  Relaxase protein sequence


Download         Length: 992 a.a.        Molecular weight: 109581.85 Da        Isoelectric Point: 4.8956

>WP_001337757.1 MULTISPECIES: MobH family relaxase [Gammaproteobacteria]
MLKALNKLFGGRSGVIETAPSARVLPLKDVEDEEIPRYPPFAKGLPVAPLDKILATQAELIEKVRNSLGF
TVDDFNRLVLPVIQRYAAFVHLLPASESHHHRGAGGLFRHGLEVAFWAAQASESVIFSIEGTPRERRDNE
PRWRLASCFSGLLHDVGKPLSDVSITDKDGSITWNPYSESLHDWAHRHEIDRYFIRWRDKRHKRHEQFSL
LAVDRIIPAETREFLSKSGPSIMEAMLEAISGTSVNQPVTKLMLRADQESVSRDLRQSRLDVDEFSYGVP
VERYVFDAIRRLVKTGKWKVNEPGAKVWHLNQGVFIAWKQLGDLYDLISHDKIPGIPRDPDTLADILIER
GFAVPNTVQEKGERAYYRYWEVLPEMLQEAAGSVKILMLRLESNDLVFTTEPPAAVAAEVVGDVEDAEIE
FVDPEEADDGDDQEEGEAALNDDMLAAEQEAEKALAGLGFGDAMEMLKSTSDAVEEKPEQKDAGPTESSK
PDAGKKGKPQSKPGKAKPKSDTEKQPHKPEAKEDLSPQDIAKNAPPLANDNPLQALKDVGGGLGDIDFPF
DAFNASAETTSTDATNSEIPDVAMPGKQEEQPKQDFVPQEQNSLQGDDFPMFGGSDEPPSWAIEPLPMLT
DAPEQPTHTPEMPHTDNVNQHEKDAKTLLVEMLSGYGEASALLEQAIMPVLEGKTTLGEVLCLMKGQAVI
LYPDGARSLGAPSEVLSKLSHANAIVPDPIMPGRKVRDFSGVKAIVLAEQLSDAVVAAIKDAEASMGGYQ
DAFELVSPPGLDASKNKSAPKQQSRKKAQQQKPEVNAGKASPEQKAKGKDSQPQPKEKKVDVTSPVEEQQ
RKPVQEKQNVARLPKREAQPVAPEPKVEREKELGHVEVREREDPEVREFEPPKAKTNPKDINAEDFLPSG
VTPQKALQMLKDMIQKRSGRWLVTPVLEEDGCLVTSDKAFDMIAGENIGISKHILCGMLSRAQRRPLLKK
RQGKLYLEVNET

  Protein domains


Predicted by InterproScan.

Putative helicase (TraI_2)

(51-357)


  Protein structure



No available structure.




T4SS

T4SS were predicted by using oriTfinder2.

Region 1: 56767..81952

Locus tag Coordinates Strand Size (bp) Protein ID Product Description
RR31_RS24800 (RR31_24855) 51894..52802 - 909 WP_000739139 hypothetical protein -
RR31_RS24805 (RR31_24860) 52813..53781 - 969 WP_000085162 AAA family ATPase -
RR31_RS24810 (RR31_24865) 54001..54186 - 186 WP_001186917 hypothetical protein -
RR31_RS24815 (RR31_24870) 54490..54810 - 321 WP_000547566 hypothetical protein -
RR31_RS24820 (RR31_24875) 55104..55745 + 642 WP_000796664 hypothetical protein -
RR31_RS24825 (RR31_24880) 55868..56728 + 861 WP_000709517 hypothetical protein -
RR31_RS24830 (RR31_24885) 56767..59565 - 2799 WP_040110399 conjugal transfer mating pair stabilization protein TraN traN
RR31_RS24835 (RR31_24890) 59681..60685 - 1005 WP_043940352 TraU family protein traU
RR31_RS24840 (RR31_24895) 60685..61356 - 672 WP_001337754 EAL domain-containing protein -
RR31_RS24845 (RR31_24900) 61353..62618 - 1266 WP_000621288 TrbC family F-type conjugative pilus assembly protein traW
RR31_RS24850 (RR31_24905) 62581..63111 - 531 WP_001010738 S26 family signal peptidase -
RR31_RS24855 (RR31_24910) 63108..63425 - 318 WP_000351984 hypothetical protein -
RR31_RS24860 (RR31_24915) 63440..65887 - 2448 WP_000637386 type IV secretion system protein TraC virb4
RR31_RS24865 (RR31_24920) 65884..66591 - 708 WP_001259347 DsbC family protein -
RR31_RS24870 (RR31_24925) 66740..72271 - 5532 WP_000606833 Ig-like domain-containing protein -
RR31_RS24875 (RR31_24930) 72472..72864 - 393 WP_000479535 TraA family conjugative transfer protein -
RR31_RS24880 (RR31_24935) 72868..73446 - 579 WP_000793435 type IV conjugative transfer system lipoprotein TraV traV
RR31_RS24885 (RR31_24940) 73443..74756 - 1314 WP_024131605 TraB/VirB10 family protein traB
RR31_RS24890 (RR31_24945) 74756..75673 - 918 WP_000794249 type-F conjugative transfer system secretin TraK traK
RR31_RS24895 (RR31_24950) 75657..76283 - 627 WP_001049716 TraE/TraK family type IV conjugative transfer system protein traE
RR31_RS24900 (RR31_24955) 76280..76561 - 282 WP_000805625 type IV conjugative transfer system protein TraL traL
RR31_RS24905 (RR31_24960) 76706..77071 - 366 WP_001052531 hypothetical protein -
RR31_RS24910 (RR31_24965) 77401..78063 - 663 WP_001231463 hypothetical protein -
RR31_RS24915 (RR31_24970) 78063..78440 - 378 WP_000869261 hypothetical protein -
RR31_RS24920 (RR31_24975) 78450..78896 - 447 WP_000122506 hypothetical protein -
RR31_RS24925 (RR31_24980) 78906..79535 - 630 WP_000743450 DUF4400 domain-containing protein tfc7
RR31_RS24930 (RR31_24985) 79492..80037 - 546 WP_000228720 hypothetical protein -
RR31_RS24935 (RR31_24990) 80087..81952 - 1866 WP_000178856 conjugative transfer system coupling protein TraD virb4
RR31_RS25670 (RR31_24995) 81949..84927 - 2979 WP_001337757 MobH family relaxase -
RR31_RS24945 (RR31_25000) 85095..85712 + 618 WP_001249396 hypothetical protein -
RR31_RS24950 (RR31_25005) 85694..85927 + 234 WP_001191892 hypothetical protein -

Host bacterium

ID   1156 GenBank   NZ_CP010373
Plasmid name   p6409-202.186kb Incompatibility group   IncA/C2
Plasmid size   193908 bp Coordinate of oriT [Strand]   79536..80086 [-]
Host baterium   Escherichia coli strain 6409

Cargo genes

Drug resistance gene   blaNDM-1, aph(3'')-Ib, aph(6)-Id, aac(6')-Ian, tet(B), sul1, qacE, aadA10, dfrA1, catA1
Virulence gene   htpB
Metal resistance gene   merE, merD, merA, merP, merT, merR
Degradation gene   -
Symbiosis gene   -
Anti-CRISPR   -