Detailed information of oriT

oriT

The information of the oriT region


oriTDB ID   110017
Name   oriT_p2017-45-163_2 in_silico
Organism   Citrobacter portucalensis strain 2017-45-163
Sequence Completeness      -
NCBI accession of oriT (coordinates [strand])   NZ_CP109746 (82548..82698 [+], 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_p2017-45-163_2
TGGTCGATGTGAACCCTTTCGACAGGGTTATGAATGAATTGAAAAGTCGTGGCCGCAAGAACGCTCACATCCTGAGCATCCTCCAATTCGACTGGCCTGCATCGGAGGCCATCATCGAGAAGCTGAGCTGCTACATCACAGACGGGATTAA

Visualization of oriT structure

  oriT secondary structure

Predicted by RNAfold.

Download structure file


Relaxase

ID   6612 GenBank   WP_001326173
Name   mobH_OI981_RS27020_p2017-45-163_2 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   7311 GenBank   WP_000178857
Name   traD_OI981_RS27025_p2017-45-163_2 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   7312 GenBank   WP_000637384
Name   traC_OI981_RS27105_p2017-45-163_2 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: 80632..105774

Locus tag Coordinates Strand Size (bp) Protein ID Product Description
OI981_RS27010 (OI981_27005) 76663..76896 - 234 WP_001191890 hypothetical protein -
OI981_RS27015 (OI981_27010) 76878..77495 - 618 WP_001249395 hypothetical protein -
OI981_RS27020 (OI981_27015) 77663..80635 + 2973 WP_001326173 MobH family relaxase -
OI981_RS27025 (OI981_27020) 80632..82497 + 1866 WP_000178857 conjugative transfer system coupling protein TraD virb4
OI981_RS27030 (OI981_27025) 82547..83092 + 546 WP_000228720 hypothetical protein -
OI981_RS27035 (OI981_27030) 83049..83678 + 630 WP_000743449 DUF4400 domain-containing protein tfc7
OI981_RS27040 (OI981_27035) 83688..84134 + 447 WP_000122507 hypothetical protein -
OI981_RS27045 (OI981_27040) 84144..84521 + 378 WP_000869297 hypothetical protein -
OI981_RS27050 (OI981_27045) 84521..85183 + 663 WP_001231464 hypothetical protein -
OI981_RS27055 (OI981_27050) 85364..85507 + 144 WP_001275801 hypothetical protein -
OI981_RS27060 (OI981_27055) 85519..85884 + 366 WP_001052530 hypothetical protein -
OI981_RS27065 (OI981_27060) 86029..86309 + 281 Protein_109 type IV conjugative transfer system protein TraL -
OI981_RS27070 (OI981_27065) 86306..86932 + 627 WP_001049717 TraE/TraK family type IV conjugative transfer system protein traE
OI981_RS27075 (OI981_27070) 86916..87833 + 918 WP_000794249 type-F conjugative transfer system secretin TraK traK
OI981_RS27080 (OI981_27075) 87833..89146 + 1314 WP_024131605 TraB/VirB10 family protein traB
OI981_RS27085 (OI981_27080) 89143..89721 + 579 WP_000793435 type IV conjugative transfer system lipoprotein TraV traV
OI981_RS27090 (OI981_27085) 89725..90117 + 393 WP_000479535 TraA family conjugative transfer protein -
OI981_RS27095 (OI981_27090) 90318..95804 + 5487 WP_000606835 Ig-like domain-containing protein -
OI981_RS27100 (OI981_27095) 95953..96660 + 708 WP_001259346 DsbC family protein -
OI981_RS27105 (OI981_27100) 96657..99104 + 2448 WP_000637384 type IV secretion system protein TraC virb4
OI981_RS27110 (OI981_27105) 99119..99436 + 318 WP_000351984 hypothetical protein -
OI981_RS27115 (OI981_27110) 99433..99963 + 531 WP_001010740 S26 family signal peptidase -
OI981_RS27120 (OI981_27115) 99926..101191 + 1266 WP_001447719 TrbC family F-type conjugative pilus assembly protein traW
OI981_RS27125 (OI981_27120) 101188..101859 + 672 WP_000575345 EAL domain-containing protein -
OI981_RS27130 (OI981_27125) 101859..102863 + 1005 WP_005507569 TraU family protein traU
OI981_RS27135 (OI981_27130) 102979..105774 + 2796 WP_001256484 conjugal transfer mating pair stabilization protein TraN traN
OI981_RS27140 (OI981_27135) 105813..106673 - 861 WP_000709517 hypothetical protein -
OI981_RS27145 (OI981_27140) 106796..107437 - 642 WP_000796664 hypothetical protein -
OI981_RS27150 (OI981_27145) 107732..108052 + 321 WP_000547566 hypothetical protein -
OI981_RS27155 (OI981_27150) 108356..108541 + 186 WP_001186917 hypothetical protein -
OI981_RS27160 (OI981_27155) 108761..109729 + 969 WP_000085160 AAA family ATPase -
OI981_RS27165 (OI981_27160) 109740..110648 + 909 WP_000739139 hypothetical protein -

Host bacterium

ID   10452 GenBank   NZ_CP109746
Plasmid name   p2017-45-163_2 Incompatibility group   IncA/C2
Plasmid size   136816 bp Coordinate of oriT [Strand]   82548..82698 [+]
Host baterium   Citrobacter portucalensis strain 2017-45-163

Cargo genes

Drug resistance gene   dfrA14, ARR-3, blaOXA-10, ant(3'')-Ia, qacE, sul1, mph(E), msr(E)
Virulence gene   -
Metal resistance gene   merE, merD, merA, merP, merR
Degradation gene   -
Symbiosis gene   -
Anti-CRISPR   -