Detailed information of oriT

oriT

The information of the oriT region


oriTDB ID   105417
Name   oriT_p35189-1 in_silico
Organism   Salmonella enterica subsp. enterica serovar Reading strain CVM 35189
Sequence Completeness      -
NCBI accession of oriT (coordinates [strand])   NZ_CP051308 (107517..107667 [+], 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_p35189-1
TGGTCGATGTGAACCCTTTCGACAGGGTTATGAATGAATTGAAAAGTCGTGGCCGCAAGAACGCTCACATCCTGAGCATCCTCCAATTCGACTGGCCTGCATCGGAGGCCATCATCGAGAAGCTGAGCTGCTACATCACAGACGGGATTAA

Visualization of oriT structure

  oriT secondary structure

Predicted by RNAfold.

Download structure file


Relaxase

ID   3695 GenBank   WP_001326173
Name   mobH_HFU35_RS24415_p35189-1 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   3680 GenBank   WP_000178857
Name   traD_HFU35_RS24420_p35189-1 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   3681 GenBank   WP_000637384
Name   traC_HFU35_RS24515_p35189-1 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: 92604.86 Da        Isoelectric Point: 5.9216

>WP_000637384.1 MULTISPECIES: type IV secretion system protein TraC [Gammaproteobacteria]
MIVTIKKKLEETLIPEHLRAAGIIPVLAYDEDDHVFLMDDHSAGFGFMCEPLCGADEKVQERMNGFLNQE
FPSKTTLQFVLFRSPDINQEMYRMMGLRDGFRHELLTSVIKERINFLQHHTTDRIFAKTNKGIYDNGLIQ
DLKLFVTCKVPIKNNNPTESELQQLAQLRTKVESSLQTVGLRPRTMTAVNYIRIMSTILNWGPDASWRHD
SVDWEMDKPICEQIFDYGTDVEVSKNGIRLGDYHAKVMSAKKLPDVFYFGDALTYAGDLSGGNSSIKENY
MVVTNVFFPEAESTKNTLERKRQFTVNQAYGPMLKFVPVLADKKESFDTLYESMKEGAKPVKITYSVVLF
APTKERVEAAAMAARNIWRESRFELMEDKFVALPMFLNCLPFCTDRDAVRDLFRYKTMTTEQAAVVLPVF
GEWKGTGTYHAALISRNGQLMSLSLHDSNTNKNLVIAAESGSGKSFLTNELIFSYLSEGAQVWVIDAGKS
YQKLSEMLNGDFVHFEEGTHVCLNPFELIQNYEDEEDAIVSLVCAMASAKGLLDEWQISALKQVLSRLWE
EKGKEMKVDDIAERCLEEENDQRLKDIGQQLYAFTSQGSYGKYFSRKNNVSFQNQFTVLELDELQGRKHL
RQVVLLQLIYQIQQEVFLGERNRKKVVIVDEAWDLLKEGEVSVFMEHAYRKFRKYGGSVVIATQSINDLY
ENAVGRAIAENSASMYLLGQTEETVESVKRSGRLTLSEGGFHTLKTVHTIQGVYSEIFIKSKSGMGVGRL
IVGDFQKLLYSTDPVDVNAIDQFVKQGMSIPEAIKAVMRSRRQAA

  Protein domains


Predicted by InterproScan.

Family of unknown function (DUF5934) (DUF5934)

(284-434)

TraC protein (TraC_F_IV)

(21-255)

TraG P-loop domain (P-loop_TraG)

(449-809)

  Protein structure



No available structure.




T4SS

T4SS were predicted by using oriTfinder2.

Region 1: 105601..114691

Locus tag Coordinates Strand Size (bp) Protein ID Product Description
HFU35_RS24405 (HFU35_24445) 101632..101865 - 234 WP_001191890 hypothetical protein -
HFU35_RS24410 (HFU35_24450) 101847..102464 - 618 WP_001249395 hypothetical protein -
HFU35_RS24415 (HFU35_24455) 102632..105604 + 2973 WP_001326173 MobH family relaxase -
HFU35_RS24420 (HFU35_24460) 105601..107466 + 1866 WP_000178857 conjugative transfer system coupling protein TraD virb4
HFU35_RS24425 (HFU35_24465) 107516..108061 + 546 WP_000228720 hypothetical protein -
HFU35_RS24430 (HFU35_24470) 108018..108647 + 630 WP_000743449 DUF4400 domain-containing protein tfc7
HFU35_RS24435 (HFU35_24475) 108657..109103 + 447 WP_000122507 hypothetical protein -
HFU35_RS24440 (HFU35_24480) 109113..109490 + 378 WP_000869297 hypothetical protein -
HFU35_RS24445 (HFU35_24485) 109490..110152 + 663 WP_001231464 hypothetical protein -
HFU35_RS24450 (HFU35_24490) 110488..110853 + 366 WP_001052530 hypothetical protein -
HFU35_RS24455 (HFU35_24495) 110998..111279 + 282 WP_000805625 type IV conjugative transfer system protein TraL traL
HFU35_RS24460 (HFU35_24500) 111276..111902 + 627 WP_001049717 TraE/TraK family type IV conjugative transfer system protein traE
HFU35_RS24465 (HFU35_24505) 111886..112803 + 918 WP_000794249 type-F conjugative transfer system secretin TraK traK
HFU35_RS24470 (HFU35_24510) 112803..114116 + 1314 WP_024131605 TraB/VirB10 family protein traB
HFU35_RS24475 (HFU35_24515) 114113..114691 + 579 WP_000793435 type IV conjugative transfer system lipoprotein TraV traV
HFU35_RS24480 (HFU35_24520) 114695..115087 + 393 WP_000479535 TraA family conjugative transfer protein -
HFU35_RS24485 (HFU35_24525) 115372..116634 + 1263 WP_000608644 IS1380-like element ISEcp1 family transposase -
HFU35_RS24490 (HFU35_24530) 116958..118103 + 1146 WP_000976514 extended-spectrum class C beta-lactamase CMY-2 -
HFU35_RS24495 (HFU35_24535) 118197..118730 + 534 WP_001221666 lipocalin family protein -
HFU35_RS24500 (HFU35_24540) 118727..119044 - 318 WP_000118520 quaternary ammonium compound efflux SMR transporter SugE -
HFU35_RS25345 (HFU35_24545) 119301..119666 + 366 Protein_143 LuxR family transcriptional regulator -

Host bacterium

ID   5855 GenBank   NZ_CP051308
Plasmid name   p35189-1 Incompatibility group   IncA/C2
Plasmid size   154276 bp Coordinate of oriT [Strand]   107517..107667 [+]
Host baterium   Salmonella enterica subsp. enterica serovar Reading strain CVM 35189

Cargo genes

Drug resistance gene   ant(3'')-Ia, aac(3)-VIa, qacE, sul1, blaTEM-1B, aph(3')-Ia, floR, tet(A), aph(6)-Id, aph(3'')-Ib, sul2, blaCMY-2
Virulence gene   htpB
Metal resistance gene   merD, merE
Degradation gene   -
Symbiosis gene   -
Anti-CRISPR   -