Detailed information of oriT

oriT

The information of the oriT region


oriTDB ID   103936
Name   oriT_pCFSAN007428_01 in_silico
Organism   Salmonella enterica subsp. enterica serovar Kentucky strain CFSAN007428 isolate N11150
Sequence Completeness      -
NCBI accession of oriT (coordinates [strand])   NZ_CP009414 (53005..53155 [+], 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_pCFSAN007428_01
TGGTCGATGTGAACCCTTTCGACAGGGTTATGAATGAATTGAAAAGTCGTGGCCGCAAGAACGCTCACATCCTGAGCATCCTCCAATTCGACTGGCCTGCATCGGAGGCCATCATCGAGAAGCTGAGCTGCTACATCACAGACGGGATTAA

Visualization of oriT structure

  oriT secondary structure

Predicted by RNAfold.

Download structure file


Relaxase

ID   2928 GenBank   WP_001326173
Name   mobH_JV41_RS00405_pCFSAN007428_01 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   2781 GenBank   WP_000178857
Name   traD_JV41_RS00410_pCFSAN007428_01 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   2782 GenBank   WP_000637384
Name   traC_JV41_RS00525_pCFSAN007428_01 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: 51089..60179

Locus tag Coordinates Strand Size (bp) Protein ID Product Description
JV41_RS00395 (JV41_00370) 47120..47353 - 234 WP_001191890 hypothetical protein -
JV41_RS00400 (JV41_00375) 47335..47952 - 618 WP_001249395 hypothetical protein -
JV41_RS00405 (JV41_00380) 48120..51092 + 2973 WP_001326173 MobH family relaxase -
JV41_RS00410 (JV41_00385) 51089..52954 + 1866 WP_000178857 conjugative transfer system coupling protein TraD virb4
JV41_RS00415 (JV41_00390) 52965..53549 + 585 WP_000332868 hypothetical protein -
JV41_RS00420 (JV41_00395) 53506..54135 + 630 WP_000743449 DUF4400 domain-containing protein tfc7
JV41_RS00425 (JV41_00400) 54145..54591 + 447 WP_000122507 hypothetical protein -
JV41_RS00430 (JV41_00405) 54601..54978 + 378 WP_000869297 hypothetical protein -
JV41_RS00435 (JV41_00410) 54978..55640 + 663 WP_001231464 hypothetical protein -
JV41_RS00440 55821..55964 + 144 WP_001275801 hypothetical protein -
JV41_RS00445 (JV41_00415) 55976..56341 + 366 WP_001052530 hypothetical protein -
JV41_RS00450 (JV41_00420) 56486..56767 + 282 WP_000805625 type IV conjugative transfer system protein TraL traL
JV41_RS00455 (JV41_00425) 56764..57390 + 627 WP_001049717 TraE/TraK family type IV conjugative transfer system protein traE
JV41_RS00460 (JV41_00430) 57374..58291 + 918 WP_000794249 type-F conjugative transfer system secretin TraK traK
JV41_RS00465 (JV41_00435) 58291..59604 + 1314 WP_024131605 TraB/VirB10 family protein traB
JV41_RS00470 (JV41_00440) 59601..60179 + 579 WP_000793435 type IV conjugative transfer system lipoprotein TraV traV
JV41_RS00475 (JV41_00445) 60183..60575 + 393 WP_000479535 TraA family conjugative transfer protein -
JV41_RS00480 (JV41_00450) 60860..62122 + 1263 WP_000608644 IS1380-like element ISEcp1 family transposase -
JV41_RS00485 (JV41_00455) 62446..63591 + 1146 WP_000976514 extended-spectrum class C beta-lactamase CMY-2 -
JV41_RS00490 (JV41_00460) 63685..64218 + 534 WP_001221666 lipocalin family protein -
JV41_RS00495 (JV41_00465) 64215..64532 - 318 WP_000118520 quaternary ammonium compound efflux SMR transporter SugE -
JV41_RS01075 (JV41_00470) 64789..65154 + 366 Protein_93 LuxR family transcriptional regulator -

Host bacterium

ID   4376 GenBank   NZ_CP009414
Plasmid name   pCFSAN007428_01 Incompatibility group   IncA/C2
Plasmid size   164924 bp Coordinate of oriT [Strand]   53005..53155 [+]
Host baterium   Salmonella enterica subsp. enterica serovar Kentucky strain CFSAN007428 isolate N11150

Cargo genes

Drug resistance gene   floR, tet(A), aph(6)-Id, aph(3'')-Ib, sul2, blaCMY-2, ant(2'')-Ia, cmlA1, qacE, blaTEM-1B, aph(3')-Ia
Virulence gene   -
Metal resistance gene   merD, merE, merB, merA, merP, merT, merR
Degradation gene   -
Symbiosis gene   -
Anti-CRISPR   -