Detailed information of oriT

oriT

The information of the oriT region


oriTDB ID   104715
Name   oriT_6H|unnamed1 in_silico
Organism   Salmonella enterica subsp. enterica serovar Heidelberg strain 6H
Sequence Completeness      -
NCBI accession of oriT (coordinates [strand])   NZ_JAGFJR010000036 (60397..60547 [+], 151 nt)
oriT length   151 nt
IRs (inverted repeats)      93..98, 106..111  (TGGCCT..AGGCCA)
 12..17, 24..29  (AACCCT..AGGGTT)
Location of nic site      _
Conserved sequence flanking the
  nic site    		  _
Note   Predicted by oriTfinder 2.0

  oriT sequence  


Download         Length: 151 nt

>oriT_6H|unnamed1
TGGTCGATGTGAACCCTTTCGACAGGGTTATGAATGAATTGAAAAGTCGTGGCCGCAAGAACGCTCACATCCTGAGCATCCTCCAATTCGACTGGCCTGCATCGGAGGCCATCATCGAGAAGCTGAGCTGCTACATCACAGACGGGATTAA

Visualization of oriT structure

  oriT secondary structure

Predicted by RNAfold.

Download structure file


Relaxase

ID   3371 GenBank   WP_001326173
Name   mobH_J1Y86_RS23555_6H|unnamed1 insolico UniProt ID   F5BPR1
Length   990 a.a. PDB ID   
Note   Predicted by oriTfinder 2.0

  Relaxase protein sequence


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

>WP_001326173.1 MULTISPECIES: MobH family relaxase [Gammaproteobacteria]
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 F5BPR1


T4CP

ID   3307 GenBank   WP_000178857
Name   traD_J1Y86_RS23560_6H|unnamed1 insolico UniProt ID   _
Length   621 a.a. PDB ID   _
Note   Predicted by oriTfinder 2.0

  T4CP protein sequence


Download         Length: 621 a.a.        Molecular weight: 69225.71 Da        Isoelectric Point: 6.9403

>WP_000178857.1 MULTISPECIES: conjugative transfer system coupling protein TraD [Gammaproteobacteria]
MTMSYDPLAYEMPWRPNYEKNAVAGWLAASGAALAVEQVSTMPPEPFYWMTGICGVMAMARLPKAIKLHL
LQKHLKGRDLEFISIAELQKYIKDTPDDMWLGSGFLWENRHAQRVFEILKRDWTSIVGRESTVKKVVRKI
QGKKKELPIGQPWIHGVEPKEEKLMQPLKHTEGHSLIVGTTGSGKTRMFDILISQAILRGEAVIIIDPKG
DKEMRDNARRACEAMGQPERFVSFHPAFPEESVRIDPLRNFTRVTEIASRLAALIPSEAGADPFKSFGWQ
ALNNIAQGLVITHDRPNLTKLRRFLEGGAAGLVIKAVQAYSERVMPDWEAEAAAYLEKVKNGSREKIAFA
LMKFYYDIIQPEHPNSDLEGLLSMFQHDQTHFSKMVANLLPIMNMLTSGELGPLLSPDSSDLSDERQITD
SAKIINNAQVAYLGLDSLTDNMVGSAMGSIFLSDLTAVAGDRYNYGVNNRPVNIFVDEAAEVINDPFIQL
LNKGRGAKLRLFVATQTFADFAARLGSKDKALQVLGNINNTFALRIVDGETQEYIADNLPKTRLKYVMRT
QGQNSDGKEPIMHGGNQGERLMEEEADLFPAQLLGMLPNLEYIAKISGGTIVKGRLPILTQ

  Protein domains


Predicted by InterproScan.

Type IV secretion-system coupling protein DNA-binding domain (TrwB_AAD_bind)

(170-299)

TraM recognition site of TraD and TraG (TraG-D_C)

(471-598)

  Protein structure



No available structure.



ID   3308 GenBank   WP_020833628
Name   traC_J1Y86_RS23635_6H|unnamed1 insolico UniProt ID   _
Length   815 a.a. PDB ID   _
Note   Predicted by oriTfinder 2.0

  T4CP protein sequence


Download         Length: 815 a.a.        Molecular weight: 92590.83 Da        Isoelectric Point: 5.9216

>WP_020833628.1 MULTISPECIES: type IV secretion system protein TraC [Gammaproteobacteria]
MIVTIKKKLEETLIPEHLRAAGIIPVLAYDEDDHVFLMDDHSAGFGFMCEPLCGADEKVQERMNGFLNQE
FPSKTTLQFVLFRSPDINQEMYRMMGLRDGFRHELLTSVIKERINFLQHHTTDRIFAKTNKGIYDNGLIQ
DLKLFVTCKVPIKNNNPTESELQQLAQLRTKVESSLQTVGLRPRTMTAVNYIRIMSTILNWGPDASWRHD
SVDWEMDKPICEQIFDYGTDVEVSKNGIRLGDYHAKVMSAKKLPDVFYFGDALTYAGDLSGGNSSIKENY
MVVTNVFFPEAESTKNTLERKRQFTVNQAYGPMLKFVPVLADKKESFDTLYESMKEGAKPVKITYSVVLF
GPTKERVEAAAMAARNIWRESRFELMEDKFVALPMFLNCLPFCTDRDAVRDLFRYKTMTTEQAAVVLPVF
GEWKGTGTYHAALISRNGQLMSLSLHDSNTNKNLVIAAESGSGKSFLTNELIFSYLSEGAQVWVIDAGKS
YQKLSEMLNGDFVHFEEGTHVCLNPFELIQNYEDEEDAIVSLVCAMASAKGLLDEWQISALKQVLSRLWE
EKGKEMKVDDIAERCLEEENDQRLKDIGQQLYAFTSQGSYGKYFSRKNNVSFQNQFTVLELDELQGRKHL
RQVVLLQLIYQIQQEVFLGERNRKKVVIVDEAWDLLKEGEVSVFMEHAYRKFRKYGGSVVIATQSINDLY
ENAVGRAIAENSASMYLLGQTEETVESVKRSGRLTLSEGGFHTLKTVHTIQGVYSEIFIKSKSGMGVGRL
IVGDFQKLLYSTDPVDVNAIDQFVKQGMSIPEAIKAVMRSRRQAA

  Protein domains


Predicted by InterproScan.

TraC protein (TraC_F_IV)

(21-255)

Family of unknown function (DUF5934) (DUF5934)

(284-434)

TraG P-loop domain (P-loop_TraG)

(449-809)

  Protein structure



No available structure.




T4SS

T4SS were predicted by using oriTfinder2.

Region 1: 58481..83624

Locus tag Coordinates Strand Size (bp) Protein ID Product Description
J1Y86_RS23545 (J1Y86_23415) 54512..54745 - 234 WP_001191890 hypothetical protein -
J1Y86_RS23550 (J1Y86_23420) 54727..55344 - 618 WP_001249395 hypothetical protein -
J1Y86_RS23555 (J1Y86_23425) 55512..58484 + 2973 WP_001326173 MobH family relaxase -
J1Y86_RS23560 (J1Y86_23430) 58481..60346 + 1866 WP_000178857 conjugative transfer system coupling protein TraD virb4
J1Y86_RS23565 (J1Y86_23435) 60396..60941 + 546 WP_000228720 hypothetical protein -
J1Y86_RS23570 (J1Y86_23440) 60898..61527 + 630 WP_000743449 DUF4400 domain-containing protein tfc7
J1Y86_RS23575 (J1Y86_23445) 61537..61983 + 447 WP_000122507 hypothetical protein -
J1Y86_RS23580 (J1Y86_23450) 61993..62370 + 378 WP_000869297 hypothetical protein -
J1Y86_RS23585 (J1Y86_23455) 62370..63032 + 663 WP_001231464 hypothetical protein -
J1Y86_RS23590 (J1Y86_23465) 63368..63733 + 366 WP_001052531 hypothetical protein -
J1Y86_RS23595 (J1Y86_23470) 63878..64159 + 282 WP_000805625 type IV conjugative transfer system protein TraL traL
J1Y86_RS23600 (J1Y86_23475) 64156..64782 + 627 WP_001049717 TraE/TraK family type IV conjugative transfer system protein traE
J1Y86_RS23605 (J1Y86_23480) 64766..65683 + 918 WP_000794249 type-F conjugative transfer system secretin TraK traK
J1Y86_RS23610 (J1Y86_23485) 65683..66996 + 1314 WP_024131605 TraB/VirB10 family protein traB
J1Y86_RS23615 (J1Y86_23490) 66993..67571 + 579 WP_000793435 type IV conjugative transfer system lipoprotein TraV traV
J1Y86_RS23620 (J1Y86_23495) 67575..67967 + 393 WP_000479535 TraA family conjugative transfer protein -
J1Y86_RS23625 (J1Y86_23500) 68168..73654 + 5487 WP_000606835 Ig-like domain-containing protein -
J1Y86_RS23630 (J1Y86_23505) 73803..74510 + 708 WP_001259346 DsbC family protein -
J1Y86_RS23635 (J1Y86_23510) 74507..76954 + 2448 WP_020833628 type IV secretion system protein TraC virb4
J1Y86_RS23640 (J1Y86_23515) 76969..77286 + 318 WP_000351984 hypothetical protein -
J1Y86_RS23645 (J1Y86_23520) 77283..77813 + 531 WP_001010740 S26 family signal peptidase -
J1Y86_RS23650 (J1Y86_23525) 77776..79041 + 1266 WP_001447719 TrbC family F-type conjugative pilus assembly protein traW
J1Y86_RS23655 (J1Y86_23530) 79038..79709 + 672 WP_000575345 EAL domain-containing protein -
J1Y86_RS23660 (J1Y86_23535) 79709..80713 + 1005 WP_005507569 TraU family protein traU
J1Y86_RS23665 (J1Y86_23540) 80829..83624 + 2796 WP_020833629 conjugal transfer mating pair stabilization protein TraN traN
J1Y86_RS23670 (J1Y86_23545) 83663..84523 - 861 WP_020833630 hypothetical protein -
J1Y86_RS23675 (J1Y86_23550) 84923..85564 - 642 WP_000134999 MBL fold metallo-hydrolase -
J1Y86_RS23680 (J1Y86_23555) 85804..87066 - 1263 WP_000608644 IS1380-like element ISEcp1 family transposase -
J1Y86_RS23685 (J1Y86_23560) 87262..87579 - 318 Protein_113 IS6-like element IS26 family transposase -

Host bacterium

ID   5154 GenBank   NZ_JAGFJR010000036
Plasmid name   6H|unnamed1 Incompatibility group   -
Plasmid size   143668 bp Coordinate of oriT [Strand]   60397..60547 [+]
Host baterium   Salmonella enterica subsp. enterica serovar Heidelberg strain 6H

Cargo genes

Drug resistance gene   tet(A), sul2
Virulence gene   fyuA, ybtE, ybtT, ybtU, irp1, irp2, ybtA, ybtP, ybtQ, ybtX, ybtS
Metal resistance gene   merR, merT, merP
Degradation gene   -
Symbiosis gene   -
Anti-CRISPR   -