Detailed information of oriT

oriT

The information of the oriT region


oriTDB ID   120316
Name   oriT_pCW-CTX-M-15B in_silico
Organism   Citrobacter werkmanii isolate BB1459
Sequence Completeness      -
NCBI accession of oriT (coordinates [strand])   NZ_LR822057 (306820..306970 [+], 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_pCW-CTX-M-15B
TGGTCGATGTGAACCCTTTCGACAGGGTTATGAATGAATTGAAAAGTCGTGGCCGCAAGAACGCTCACATCCTGAGCATCCTCCAATTCGACTGGCCTGCATCGGAGGCCATCATCGAGAAGCTGAGCTGCTACATCACAGACGGGATTAA

Visualization of oriT structure

  oriT secondary structure

Predicted by RNAfold.

Download structure file


Relaxase

ID   12780 GenBank   WP_001326173
Name   mobH_L1W57_RS01955_pCW-CTX-M-15B 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   15001 GenBank   WP_000178857
Name   traD_L1W57_RS01960_pCW-CTX-M-15B 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   15002 GenBank   WP_000637384
Name   traC_L1W57_RS02040_pCW-CTX-M-15B 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: 304904..330047

Locus tag Coordinates Strand Size (bp) Protein ID Product Description
L1W57_RS01945 (TML_465) 300935..301168 - 234 WP_001191890 hypothetical protein -
L1W57_RS01950 (TML_303) 301150..301767 - 618 WP_001249395 hypothetical protein -
L1W57_RS01955 (TML_45) 301935..304907 + 2973 WP_001326173 MobH family relaxase -
L1W57_RS01960 (TML_48) 304904..306769 + 1866 WP_000178857 conjugative transfer system coupling protein TraD virb4
L1W57_RS01965 (TML_70) 306819..307364 + 546 WP_000228720 hypothetical protein -
L1W57_RS01970 (TML_68) 307321..307950 + 630 WP_000743449 DUF4400 domain-containing protein tfc7
L1W57_RS01975 (TML_353) 307960..308406 + 447 WP_000122507 hypothetical protein -
L1W57_RS01980 (TML_389) 308416..308793 + 378 WP_000869297 hypothetical protein -
L1W57_RS01985 (TML_298) 308793..309455 + 663 WP_001231464 hypothetical protein -
L1W57_RS01990 (TML_499) 309636..309779 + 144 WP_001275801 hypothetical protein -
L1W57_RS01995 (TML_390) 309791..310156 + 366 WP_001052530 hypothetical protein -
L1W57_RS02000 (TML_76) 310301..310582 + 282 WP_000805625 type IV conjugative transfer system protein TraL traL
L1W57_RS02005 (TML_69) 310579..311205 + 627 WP_001049717 TraE/TraK family type IV conjugative transfer system protein traE
L1W57_RS02010 (TML_64) 311189..312106 + 918 WP_000794249 type-F conjugative transfer system secretin TraK traK
L1W57_RS02015 (TML_51) 312106..313419 + 1314 WP_024131605 TraB/VirB10 family protein traB
L1W57_RS02020 (TML_71) 313416..313994 + 579 WP_000793435 type IV conjugative transfer system lipoprotein TraV traV
L1W57_RS02025 (TML_73) 313998..314390 + 393 WP_000479535 TraA family conjugative transfer protein -
L1W57_RS02030 (TML_43) 314591..320077 + 5487 WP_000606835 Ig-like domain-containing protein -
L1W57_RS02035 (TML_201) 320226..320933 + 708 WP_001259346 DsbC family protein -
L1W57_RS02040 (TML_47) 320930..323377 + 2448 WP_000637384 type IV secretion system protein TraC virb4
L1W57_RS02045 (TML_74) 323392..323709 + 318 WP_000351984 hypothetical protein -
L1W57_RS02050 (TML_72) 323706..324236 + 531 WP_001010740 S26 family signal peptidase -
L1W57_RS02055 (TML_52) 324199..325464 + 1266 WP_001447719 TrbC family F-type conjugative pilus assembly protein traW
L1W57_RS02060 (TML_203) 325461..326132 + 672 WP_000575345 EAL domain-containing protein -
L1W57_RS02065 (TML_59) 326132..327136 + 1005 WP_005507569 TraU family protein traU
L1W57_RS02070 (TML_46) 327240..330047 + 2808 WP_001447718 conjugal transfer mating pair stabilization protein TraN traN
L1W57_RS02075 (TML_281) 330086..330946 - 861 WP_000709517 hypothetical protein -
L1W57_RS02080 (TML_301) 331069..331710 - 642 WP_000796664 hypothetical protein -
L1W57_RS02085 (TML_413) 332005..332325 + 321 WP_000547566 hypothetical protein -
L1W57_RS02090 (TML_487) 332629..332814 + 186 WP_001186917 hypothetical protein -
L1W57_RS02095 (TML_9) 333034..334002 + 969 WP_000085160 AAA family ATPase -
L1W57_RS02100 (TML_275) 334013..334921 + 909 WP_000739139 hypothetical protein -

Host bacterium

ID   20745 GenBank   NZ_LR822057
Plasmid name   pCW-CTX-M-15B Incompatibility group   -
Plasmid size   399467 bp Coordinate of oriT [Strand]   306820..306970 [+]
Host baterium   Citrobacter werkmanii isolate BB1459

Cargo genes

Drug resistance gene   sul1, qacE, ere(A), cmlA1, aadA2, dfrA19, blaTEM-1B, tet(D), catA2, sul2, blaCTX-M-15, dfrA12, armA, msr(E), mph(E), aac(3)-IIa, blaOXA-1, aac(6')-Ib-cr
Virulence gene   -
Metal resistance gene   merR, merT, merP, merC, merA, merD, merE, yqjH
Degradation gene   -
Symbiosis gene   -
Anti-CRISPR   AcrIIA7