Detailed information of oriT

oriT

The information of the oriT region


oriTDB ID   114172
Name   oriT_pBL661 in_silico
Organism   Salmonella enterica subsp. enterica serovar 1412:i:- strain BL661
Sequence Completeness      -
NCBI accession of oriT (coordinates [strand])   NZ_CP126179 (153059..153209 [-], 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_pBL661
TGGTCGATGTGAACCCTTTCGACAGGGTTATGAATGAATTGAAAAGTCGTGGCCGCAAGAACGCTCACATCCTGAGCATCCTCCAATTCGACTGGCCTGCATCGGAGGCCATCATCGAGAAGCTGAGCTGCTACATCACAGACGGGATTAA

Visualization of oriT structure

  oriT secondary structure

Predicted by RNAfold.

Download structure file


Relaxase

ID   9099 GenBank   WP_025989290
Name   mobH_PGC29_RS24795_pBL661 insolico UniProt ID   A0A345JNN1
Length   992 a.a. PDB ID   
Note   Predicted by oriTfinder 2.0

  Relaxase protein sequence


Download         Length: 992 a.a.        Molecular weight: 109630.88 Da        Isoelectric Point: 4.8979

>WP_025989290.1 MULTISPECIES: MobH family relaxase [Gammaproteobacteria]
MLKALNKLFGGRSGVIETAPSARVLPLKDVEDEEIPRYPPFAKGLPVAPLDKILATQAELIEKVRNSLGF
TVDDFNRLVLPVIQRYAAFVHLLPASESHHHRGAGGLFRHGLEVAFWAAQASESVIFSIEGTPRERRDNE
PRWRLASCFSGLLHDVGKPLSDVSITDKDGSITWNPYSESLHDWAHRHEIDRYFIRWRDKRHKRHEQFSL
LAVDRIIPAETREFLSKSGPSIMEAMLEAISGTSVNQPVTKLMLRADQESVSRDLRQSRLDVDEFSYGVP
VERYVFDAIRRLVKTGKWKVNEPGAKVWHLNQGVFIAWKQLGDLYDLISHDKIPGIPRDPDTLADILIER
GFAVPNTVQEKGERAYYRYWEVLPEMLQEAAGSVKILMLRLESNDLVFTTEPPAAVAAEVVGDVEDAEIE
FVDPEEADDGDDQEEGEAALNDDMLAAEQEAEKALAGLGFGDAMEMLKSTSDAVEEKPEQKDAGPTESSK
PDAGKKGKPQSKPSKAKPKSDTEKQPHKPEAKEDLSPQDIAKNAPPLANDNPLQALKDVGGGLGDIDFPF
DAFNASAETASTDATNSEIPDVAMPGKQEEQPKQDFVPQEQNSLQGDDFPMFGGSDEPPSWAIEPLPMLT
DAPEQPTHTPEMPHTDNVNQHEKDAKTLLVEMLSGYGEASALLEQAIMPVLEGKTTLGEVLCLMKGQAVI
LYPDGARSLGAPSEVLSKLSHANAIVPDPIMPGRKVRDFSGVKAIVLAEQLSDAVVAAIKDAEASMGGYQ
EAFELVSPPGLDASKNKSAPKQQSRKKAQQQKSEVNAGKASPEQKAKGKDSQPQPKEKKVDVTSPVEEQQ
RKQVQEKQNVARLPKREAQPVAPEPKVEREKELGHVEVREREEPEVREFEPPKAKTNPKDINAEDFLPSG
VTPQKALQMLKDMIQKRSGRWLVTPVLEEDGCLVTSDKAFDMIAGENIGISKHILCGMLSRAQRRPLLKK
RQGKLYLEVNET

  Protein domains


Predicted by InterproScan.

Putative helicase (TraI_2)

(51-357)


  Protein structure


Source ID Structure
AlphaFold DB A0A345JNN1


T4CP

ID   10546 GenBank   WP_302510797
Name   traC_PGC29_RS24600_pBL661 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: 92562.82 Da        Isoelectric Point: 5.9210

>WP_302510797.1 type IV secretion system protein TraC [Salmonella enterica]
MIVTIKKKLEETLIPEHLRAAGIIPVLAYDEDDHVFLMDDHSAGFGFMCEPLCGADEKVQERMNGFLNQE
FPSKTTLQFVLFRSPDINQEMYRMMGLRDGFRHELLTSVIKERINFLQHHTTDRIFAKTNKGIYDNGLIQ
DLKLFVTCKVPIKNNNPTESELQQLAQLRTKVESSLQTVGLRPRTMTAVNYIRIMSTILNWGPDASWRHD
SVDWEMDKPICEQIFDYGTDVEVSKNGIRLGDYHAKVMSAKKLPDVFYFGDALTYAGDLSGGNSSIKENY
MVVTNVFFPEAESTKNTLERKRQFTVNQAYGPMLKFVPVLADKKESFDTLYESMKEGAKPVKITYSVVLF
APTKERVEAAAMAARNIWRESRFELMEDKFVALPMFLNCLPFCTDRDAVRDLFRYKTMTTEQAAVVLPVF
GEWKGTGTYHAALISRNGQLMSLSLHDSNTNKNLVIAAESGSGKSFLTNELIFSYLSEGAQVWVIDAGKS
YQKLSEMLNGDFVHFEEGTHVCLNPFELIQNYEDEEDAIVSLVCAMASAKGLLDEWQISALKQVLSRLWE
EKGKEMKVDDIAERCLEDENDQRLKDIGQQLYAFTSKGSYGKYFSRKNNVSFQNQFTVLELDELQGRKHL
RQVVLLQLIYQIQQEVFLGERNRKKVVIVDEAWDLLKEGEVSVFMEHAYRKFRKYGGSVVIATQSINDLY
ENAVGRAIAENSASMYLLGQTEETVESVKRSGRLTLSEGGFHTLKTVHTIQGVYSEIFIKSKSGMGVGRL
IVGDFQKLLYSTDPVDVNAIDQFVKQGMSIPEAIKAVMRSRQQAA

  Protein domains


Predicted by InterproScan.

Family of unknown function (DUF5934) (DUF5934)

(284-434)

TraG P-loop domain (P-loop_TraG)

(449-809)

TraC protein (TraC_F_IV)

(21-255)

  Protein structure



No available structure.



ID   10547 GenBank   WP_025989289
Name   traD_PGC29_RS24790_pBL661 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: 69223.69 Da        Isoelectric Point: 6.8944

>WP_025989289.1 MULTISPECIES: conjugative transfer system coupling protein TraD [Gammaproteobacteria]
MTMSYDPLAYEMPWRPNYEKNAVAGWLAASGAALAVEQVSTMPPEPFYWMTGICGVMAMARLPKAIKLHL
LQKHLKGRDLEFISIAELQKYIKDTPDDMWLGSGFLWENRHAQRVFEILKRDWTSIVGRESTVKKVVRKI
QGKKKELPIGQPWIHGVEPKEEKLMQPLKHTEGHSLIVGTTGSGKTRMFDILISQAILRGEAVIIIDPKG
DKEMRDNARRACEAMGQPERFVSFHPAFPEESVRIDPLRNFTRVTEIASRLAALIPSEAGADPFKSFGWQ
ALNNIAQGLVITHDRPNLTKLRRFLEGGAAGLVIKAVQAYSERVMPDWEAEAAAYLEKAKNGSREKIAFA
LMKFYYDIIQPEYPNSDLEGLLSMFQHDQTHFSKMVANLLPIMNMLTSGELGPLLSPDSSDLSDERQITD
SAKIINNAQVAYLGLDSLTDNMVGSAMGSIFLSDLTAVAGDRYNYGVNNRPVNIFVDEAAEVINDPFIQL
LNKGRGAKLRLFVATQTFADFAARLGSKDKALQVLGNINNTFALRIVDGETQEYIADNLPKTRLKYVMRT
QGQNSDGKEPIMHGGNQGERLMEEEADLFPAQLLGMLPNLEYIAKISGGTIVKGRLPILTQ

  Protein domains


Predicted by InterproScan.

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

(471-598)

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

(170-297)

  Protein structure



No available structure.




T4SS

T4SS were predicted by using oriTfinder2.

Region 1: 103991..131262

Locus tag Coordinates Strand Size (bp) Protein ID Product Description
PGC29_RS24510 (PGC29_24510) 99925..100413 + 489 WP_001135407 hypothetical protein -
PGC29_RS24515 (PGC29_24515) 101068..101808 + 741 WP_001541566 carbonic anhydrase -
PGC29_RS24520 (PGC29_24520) 102074..102778 + 705 WP_001067855 IS6-like element IS26 family transposase -
PGC29_RS24525 (PGC29_24525) 102831..103880 + 1050 Protein_126 UvrD-helicase domain-containing protein -
PGC29_RS24530 (PGC29_24530) 103991..105031 + 1041 WP_031222909 conjugal transfer protein TraF traF
PGC29_RS24535 (PGC29_24535) 105033..106466 + 1434 WP_058650168 conjugal transfer protein TraH traH
PGC29_RS24540 (PGC29_24540) 106479..107498 + 1020 Protein_129 conjugal transfer protein TraG N-terminal domain-containing protein -
PGC29_RS24545 (PGC29_24545) 107550..108254 - 705 WP_001067855 IS6-like element IS26 family transposase -
PGC29_RS24550 (PGC29_24550) 108304..108996 + 693 Protein_131 DUF4158 domain-containing protein -
PGC29_RS24555 (PGC29_24555) 109060..109764 + 705 WP_001067855 IS6-like element IS26 family transposase -
PGC29_RS24560 (PGC29_24560) 109833..110483 + 651 WP_161647215 hypothetical protein -
PGC29_RS24565 (PGC29_24565) 110606..111466 + 861 WP_302510792 hypothetical protein -
PGC29_RS24570 (PGC29_24570) 111505..114309 - 2805 WP_302510794 conjugal transfer mating pair stabilization protein TraN traN
PGC29_RS24575 (PGC29_24575) 114427..115410 - 984 WP_232074448 TraU family protein traU
PGC29_RS24580 (PGC29_24580) 115431..116102 - 672 WP_121926691 EAL domain-containing protein -
PGC29_RS24585 (PGC29_24585) 116099..117364 - 1266 WP_069142401 TrbC family F-type conjugative pilus assembly protein traW
PGC29_RS24590 (PGC29_24590) 117327..117857 - 531 WP_021293639 S26 family signal peptidase -
PGC29_RS24595 (PGC29_24595) 117854..118171 - 318 WP_011872858 hypothetical protein -
PGC29_RS24600 (PGC29_24600) 118186..120633 - 2448 WP_302510797 type IV secretion system protein TraC virb4
PGC29_RS24605 (PGC29_24605) 120630..121337 - 708 WP_021293638 DsbC family protein -
PGC29_RS24610 (PGC29_24610) 121486..126972 - 5487 WP_302510798 Ig-like domain-containing protein -
PGC29_RS24615 (PGC29_24615) 127173..127556 - 384 WP_050584476 TraA family conjugative transfer protein -
PGC29_RS24620 (PGC29_24620) 127569..128147 - 579 WP_025887070 type IV conjugative transfer system lipoprotein TraV traV
PGC29_RS24625 (PGC29_24625) 128144..129457 - 1314 WP_024131605 TraB/VirB10 family protein traB
PGC29_RS24630 (PGC29_24630) 129457..130374 - 918 WP_025989283 type-F conjugative transfer system secretin TraK traK
PGC29_RS24635 (PGC29_24635) 130358..130984 - 627 WP_025989284 TraE/TraK family type IV conjugative transfer system protein traE
PGC29_RS24640 (PGC29_24640) 130981..131262 - 282 WP_000805625 type IV conjugative transfer system protein TraL traL
PGC29_RS24645 (PGC29_24645) 131407..131772 - 366 WP_025989285 hypothetical protein -
PGC29_RS24650 (PGC29_24650) 131786..131929 - 144 WP_186295989 hypothetical protein -
PGC29_RS24655 (PGC29_24655) 132109..132771 - 663 WP_025989286 hypothetical protein -
PGC29_RS24660 (PGC29_24660) 132771..133148 - 378 WP_025989287 hypothetical protein -
PGC29_RS24665 (PGC29_24665) 133158..133604 - 447 WP_025989288 hypothetical protein -
PGC29_RS24670 (PGC29_24670) 133748..134452 + 705 WP_001067855 IS6-like element IS26 family transposase -

Host bacterium

ID   14607 GenBank   NZ_CP126179
Plasmid name   pBL661 Incompatibility group   IncA/C2
Plasmid size   189237 bp Coordinate of oriT [Strand]   153059..153209 [-]
Host baterium   Salmonella enterica subsp. enterica serovar 1412:i:- strain BL661

Cargo genes

Drug resistance gene   aac(3)-IVa, blaTEM-1B, aadA2, dfrA12, sul3, ant(3'')-Ia, cmlA1, tet(A), sul2, sul1, qacE
Virulence gene   -
Metal resistance gene   silE, silS, silR, silC, silF, silB, silA, silP, merR, merT, merP, merA, merD, merE, arsH
Degradation gene   -
Symbiosis gene   -
Anti-CRISPR   -