Detailed information of oriT

oriT

The information of the oriT region


oriTDB ID   116771
Name   oriT_p3347685_1 in_silico
Organism   Providencia stuartii strain 3347685
Sequence Completeness      -
NCBI accession of oriT (coordinates [strand])   NZ_CP071069 (66599..66749 [+], 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_p3347685_1
TGGTCGATGTGAACCCTTTCGACAGGGTTATGAATGAATTGAAAAGTCGTGGCCGCAAGAACGCTCACATCCTGAGCATCCTCCAATTCGACTGGCCTGCATCGGAGGCCATCATCGAGAAGCTGAGCTGCTACATCACAGACGGGATTAA

Visualization of oriT structure

  oriT secondary structure

Predicted by RNAfold.

Download structure file


Relaxase

ID   10699 GenBank   WP_001326173
Name   mobH_JY390_RS21445_p3347685_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   12499 GenBank   WP_000178857
Name   traD_JY390_RS21450_p3347685_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   12500 GenBank   WP_000637384
Name   traC_JY390_RS21555_p3347685_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: 64683..73773

Locus tag Coordinates Strand Size (bp) Protein ID Product Description
JY390_RS21435 (JY390_21325) 60714..60947 - 234 WP_001191890 hypothetical protein -
JY390_RS21440 (JY390_21330) 60929..61546 - 618 WP_001249395 hypothetical protein -
JY390_RS21445 (JY390_21335) 61714..64686 + 2973 WP_001326173 MobH family relaxase -
JY390_RS21450 (JY390_21340) 64683..66548 + 1866 WP_000178857 conjugative transfer system coupling protein TraD virb4
JY390_RS21455 (JY390_21345) 66598..67143 + 546 WP_000228720 hypothetical protein -
JY390_RS21460 (JY390_21350) 67100..67729 + 630 WP_000743449 DUF4400 domain-containing protein tfc7
JY390_RS21465 (JY390_21355) 67777..67953 + 177 WP_169342285 hypothetical protein -
JY390_RS21470 (JY390_21360) 68195..68572 + 378 WP_000869297 hypothetical protein -
JY390_RS21475 (JY390_21365) 68572..69234 + 663 WP_001231464 hypothetical protein -
JY390_RS21480 (JY390_21370) 69415..69558 + 144 WP_001275801 hypothetical protein -
JY390_RS21485 (JY390_21375) 69570..69935 + 366 WP_001052530 hypothetical protein -
JY390_RS21490 (JY390_21380) 70080..70361 + 282 WP_000805625 type IV conjugative transfer system protein TraL traL
JY390_RS21495 (JY390_21385) 70358..70984 + 627 WP_001049717 TraE/TraK family type IV conjugative transfer system protein traE
JY390_RS21500 (JY390_21390) 70968..71885 + 918 WP_000794249 type-F conjugative transfer system secretin TraK traK
JY390_RS21505 (JY390_21395) 71885..73198 + 1314 WP_024131605 TraB/VirB10 family protein traB
JY390_RS21510 (JY390_21400) 73195..73773 + 579 WP_000793435 type IV conjugative transfer system lipoprotein TraV traV
JY390_RS21515 (JY390_21405) 73777..74169 + 393 WP_000479535 TraA family conjugative transfer protein -
JY390_RS21520 (JY390_21410) 74454..75716 + 1263 WP_000608644 IS1380-like element ISEcp1 family transposase -
JY390_RS21525 (JY390_21415) 76040..77185 + 1146 WP_014386387 class C beta-lactamase CMY-16 -
JY390_RS21530 (JY390_21420) 77279..77812 + 534 WP_001221666 lipocalin family protein -
JY390_RS21535 (JY390_21425) 77809..78126 - 318 WP_000118520 quaternary ammonium compound efflux SMR transporter SugE -
JY390_RS21540 78383..78748 + 366 Protein_109 LuxR family transcriptional regulator -

Host bacterium

ID   17204 GenBank   NZ_CP071069
Plasmid name   p3347685_1 Incompatibility group   IncA/C2
Plasmid size   188750 bp Coordinate of oriT [Strand]   66599..66749 [+]
Host baterium   Providencia stuartii strain 3347685

Cargo genes

Drug resistance gene   aac(6')-Ib-cr, blaOXA-1, tet(A), floR, dfrA14, blaCTX-M-15, blaTEM-1B, aph(6)-Id, aph(3'')-Ib, sul2, blaCMY-16, ARR-3, cmlA1, blaOXA-10, ant(3'')-Ia, qacE, sul1, armA, msr(E), mph(E), dfrA12, aadA2
Virulence gene   -
Metal resistance gene   merE, merD, merA, merP, merT
Degradation gene   -
Symbiosis gene   -
Anti-CRISPR   -