Detailed information of oriT

oriT

The information of the oriT region


oriTDB ID   120985
Name   oriT_2953647|unnamed2 in_silico
Organism   Citrobacter freundii strain 2953647
Sequence Completeness      -
NCBI accession of oriT (coordinates [strand])   NZ_CP114566 (62140..62290 [+], 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_2953647|unnamed2
TGGTCGATGTGAACCCTTTCGACAGGGTTATGAATGAATTGAAAAGTCGTGGCCGCAAGAACGCTCACATCCTGAGCATCCTCCAATTCGACTGGCCTGCATCGGAGGCCATCATCGAGAAGCTGAGCTGCTACATCACAGACGGGATTAA

Visualization of oriT structure

  oriT secondary structure

Predicted by RNAfold.

Download structure file


Relaxase

ID   13240 GenBank   WP_261588778
Name   mobH_O4000_RS26610_2953647|unnamed2 insolico UniProt ID   _
Length   992 a.a. PDB ID   
Note   Predicted by oriTfinder 2.0

  Relaxase protein sequence


Download         Length: 992 a.a.        Molecular weight: 109567.83 Da        Isoelectric Point: 4.8944

>WP_261588778.1 MULTISPECIES: MobH family relaxase [Enterobacteriaceae]
MLKALNKLFGGRSGVIETAPSARVLPLKDVEDEEIPRYPPFAKGLPVAPLDKILATQAELIEKVRNSLGF
TVDDFNRLVLPVIQRYAAFVHLLPASESHHHRGAGGLFRHGLEVAFWAAQASESVIFSIEGTPRERRDNE
PRWRLASCFSGLLHDVGKPLSDVSITDKDGSITWNPYSESLHDWAHRHEIDRYFIRWRDKRHKRHEQFSL
LAVDRIIPAETREFLSKSGPSIMEAMLEAISGTSVNQPVTKLMLRADQESVSRDLRQSRLDVDEFSYGVP
VERYVFDAIRRLVKTGKWKVNEPGAKVWHLNQGVFIAWKQLGDLYDLISHDKIPGIPRDPDTLADILIER
GFAVPNTVQEKGERAYYRYWEVLPEMLQEAAGSVKILMLRLESNDLVFTTEPPAAVAAEVVGDVEDAEIE
FVDPEEADDGDDQEEGEAALNDDMLAAEQEAEKALAGLGFGDAMDMLKSTSDAVEEKPEQKDAGPTESSK
PDAGKKGKPQSKPGKAKPKSDTEKQPHKPEAKEDLSPQDIAKNAPPLANDNPLQALKDVGGGLGDIDFPF
DAFNASAETTSTDATNSEIPDVAMPGKQEEQPKQDFVPQEQNSLQGDDFPMFGGSDEPPSWAIEPLPMLT
DAPEQPTHTPEMPHTDNVNQHEKDAKTLLVEMLSGYGEASALLEQAIMPVLEGKTTLGEVLCLMKGQAVI
LYPDGARSLGAPSEVLSKLSHANAIVPDPIMPGRKVRDFSGVKAIVLAEQLSDAVVAAIKDAEASMGGYQ
DAFELVSPPGLDASKNKSAPKQQSRKKAQQQKPEVNAGKASPEQKAKGKDSQPQPKEKKVDVTSPVEEQQ
RKPVQEKQNVARLPKREAQPVAPEPKVEREKELGHVEVREREDPEVREFEPPKAKTNPKDINAEDFLPSG
VTPQKALQMLKDMIQKRSGRWLVTPVLEEDGCLVTSDKAFDMIAGENIGISKHILCGMLSRAQRRPLLKK
RQGKLYLEVNET

  Protein domains


Predicted by InterproScan.

Putative helicase (TraI_2)

(51-357)


  Protein structure



No available structure.




T4CP

ID   15518 GenBank   WP_104457263
Name   t4cp2_O4000_RS26475_2953647|unnamed2 insolico UniProt ID   _
Length   701 a.a. PDB ID   _
Note   Predicted by oriTfinder 2.0

  T4CP protein sequence


Download         Length: 701 a.a.        Molecular weight: 77343.46 Da        Isoelectric Point: 10.0162

>WP_104457263.1 MULTISPECIES: conjugal transfer protein TraG [Enterobacterales]
MRGGRILWGQIAVVITIVLVMTWAATQWVAFRLGFQPQLGAPWFDLAGLPVYYPPAFFWWWFSFDAYAPA
IFVEGGIIAVSGGFIAIAAAILMSIIRAREARNIATYGSARWAEDKEIRAAGLLGPDGVVLGRHTQDYLR
HDGPEHVLCFAPTRSGKGVGLVVPTLLTWPASAIVHDIKGENWTLTAGFRAKHGRVLLFDPTNAGSSAYN
PLLEVRRGEWEVRDVQNIADILVDPEGSLDKRNHWEKTSHSLLVGAILHVLYAERDKTLAGVANFLSDPR
RPVEATLRAMMDTPHLGEAGVHPVIASSARELLNKSENERSGVLSTAMSFLGLYRDPVVARVTARCDWRI
ADLVGSRRPVTLYLVVPPSDINRTKPLIRLILNQIGRRLTEELTTSGKRHRLLLMLDEFPALGRLDFFES
ALAFMAGYGIKGFLIAQSLNQIERAYGPNNAILDNCHVRVSFATNDERTAKRVSDALGAATELRDSTNYA
GHRLAPWLGHLMVSRQETARPLLTPGEIMQLPPTDEIVMVAGTPPIRATKARYFEDARFQERILTPPKLV
AAPLTSSPLDFIARLAALVPKPRVNLTRFHGVFAPNSRHRALVTPAKRGRGNKVRVADEPATPAQRRASM
TWAQRLKRVFNIDIETCSGCGGAMKVIACIEDPIVIKQILDHLKHKAETSGTRALPESRAPPAELLLGLF
D

  Protein domains


Predicted by InterproScan.

Type IV secretory system Conjugative DNA transfer (T4SS-DNA_transf)

(111-557)

Putative transposase (Y2_Tnp)

(561-597)

  Protein structure



No available structure.



ID   15519 GenBank   WP_000178856
Name   traD_O4000_RS26615_2953647|unnamed2 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: 69197.66 Da        Isoelectric Point: 6.9403

>WP_000178856.1 MULTISPECIES: conjugative transfer system coupling protein TraD [Gammaproteobacteria]
MTMSYDPLAYEMPWRPNYEKNAVAGWLAASGAALAVEQVSTMPPEPFYWMTGICGVMAMARLPKAIKLHL
LQKHLKGRDLEFISIAELQKYIKDTPDDMWLGSGFLWENRHAQRVFEILKRDWTSIVGRESTVKKVVRKI
QGKKKELPIGQPWIHGVEPKEEKLMQPLKHTEGHSLIVGTTGSGKTRMFDILISQAILRGEAVIIIDPKG
DKEMRDNARRACEAMGQPERFVSFHPAFPEESVRIDPLRNFTRVTEIASRLAALIPSEAGADPFKSFGWQ
ALNNIAQGLVITHDRPNLTKLRRFLEGGAAGLVIKAVQAYSERVMPDWEAEAAAYLEKAKNGSREKIAFA
LMKFYYDIIQPEHPNSDLEGLLSMFQHDQTHFSKMVANLLPIMNMLTSGELGPLLSPDSSDLSDERQITD
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.



ID   15520 GenBank   WP_000637386
Name   traC_O4000_RS26695_2953647|unnamed2 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: 92590.87 Da        Isoelectric Point: 5.9222

>WP_000637386.1 MULTISPECIES: type IV secretion system protein TraC [Gammaproteobacteria]
MIVTIKKKLEETLIPEHLRAAGIIPVLAYDEDDHVFLMDDHSAGFGFMCEPLCGADEKVQERMNGFLNQE
FPSKTTLQFVLFRSPDINQEMYRMMGLRDGFRHELLTSVIKERINFLQHHTTERIFAKTNKGIYDNGLIQ
DLKLFVTCKVPIKNNNPTESELQQLAQLRTKVESSLQTVGLRPRTMTAVNYIRIMSTILNWGPDASWRHD
SVDWEMDKPICEQIFDYGTDVEVSKNGIRLGDYHAKVMSAKKLPDVFYFGDALTYAGDLSGGNSSIKENY
MVVTNVFFPEAESTKNTLERKRQFTVNQAYGPMLKFVPVLADKKESFDTLYESMKEGAKPVKITYSVVLF
APTKERVEAAAMAARNIWRESRFELMEDKFVALPMFLNCLPFCTDRDAVRDLFRYKTMTTEQAAVVLPVF
GEWKGTGTYHAALISRNGQLMSLSLHDSNTNKNLVIAAESGSGKSFLTNELIFSYLSEGAQVWVIDAGKS
YQKLSEMLNGDFVHFEEGTHVCLNPFELIQNYEDEEDAIVSLVCAMASAKGLLDEWQISALKQVLSRLWE
EKGKEMKVDDIAERCLEEENDQRLKDIGQQLYAFTSKGSYGKYFSRKNNVSFQNQFTVLELDELQGRKHL
RQVVLLQLIYQIQQEVFLGERNRKKVVIVDEAWDLLKEGEVSVFMEHAYRKFRKYGGSVVIATQSINDLY
ENAVGRAIAENSASMYLLGQTEETVESVKRSGRLTLSEGGFHTLKTVHTIQGVYSEIFIKSKSGMGVGRL
IVGDFQKLLYSTDPVDVNAIDQFVKQGMSIPEAIKAVMRSRQQAA

  Protein domains


Predicted by InterproScan.

TraG P-loop domain (P-loop_TraG)

(449-809)

Family of unknown function (DUF5934) (DUF5934)

(284-434)

TraC protein (TraC_F_IV)

(21-255)

  Protein structure



No available structure.




T4SS

T4SS were predicted by using oriTfinder2.

Region 1: 60224..85415

Locus tag Coordinates Strand Size (bp) Protein ID Product Description
O4000_RS26600 (O4000_26600) 56249..56482 - 234 WP_001191892 hypothetical protein -
O4000_RS26605 (O4000_26605) 56464..57081 - 618 WP_001249396 hypothetical protein -
O4000_RS26610 (O4000_26610) 57249..60227 + 2979 WP_261588778 MobH family relaxase -
O4000_RS26615 (O4000_26615) 60224..62089 + 1866 WP_000178856 conjugative transfer system coupling protein TraD virb4
O4000_RS26620 (O4000_26620) 62139..62684 + 546 WP_000228720 hypothetical protein -
O4000_RS26625 (O4000_26625) 62641..63270 + 630 WP_000743450 DUF4400 domain-containing protein tfc7
O4000_RS26630 (O4000_26630) 63280..63726 + 447 WP_000122506 hypothetical protein -
O4000_RS26635 (O4000_26635) 63736..64113 + 378 WP_000869261 hypothetical protein -
O4000_RS26640 (O4000_26640) 64113..64775 + 663 WP_001231463 hypothetical protein -
O4000_RS26645 (O4000_26645) 64956..65099 + 144 WP_001275801 hypothetical protein -
O4000_RS26650 (O4000_26650) 65111..65476 + 366 WP_001052531 hypothetical protein -
O4000_RS26655 (O4000_26655) 65621..65902 + 282 WP_000805625 type IV conjugative transfer system protein TraL traL
O4000_RS26660 (O4000_26660) 65899..66525 + 627 WP_001049716 TraE/TraK family type IV conjugative transfer system protein traE
O4000_RS26665 (O4000_26665) 66509..67426 + 918 WP_000794249 type-F conjugative transfer system secretin TraK traK
O4000_RS26670 (O4000_26670) 67426..68739 + 1314 WP_024131605 TraB/VirB10 family protein traB
O4000_RS26675 (O4000_26675) 68736..69314 + 579 WP_000793435 type IV conjugative transfer system lipoprotein TraV traV
O4000_RS26680 (O4000_26680) 69318..69710 + 393 WP_000479535 TraA family conjugative transfer protein -
O4000_RS26685 (O4000_26685) 69911..75442 + 5532 WP_000606833 Ig-like domain-containing protein -
O4000_RS26690 (O4000_26690) 75591..76298 + 708 WP_001259347 DsbC family protein -
O4000_RS26695 (O4000_26695) 76295..78742 + 2448 WP_000637386 type IV secretion system protein TraC virb4
O4000_RS26700 (O4000_26700) 78757..79074 + 318 WP_000351984 hypothetical protein -
O4000_RS26705 (O4000_26705) 79071..79601 + 531 WP_001010738 S26 family signal peptidase -
O4000_RS26710 (O4000_26710) 79564..80829 + 1266 WP_000621288 TrbC family F-type conjugative pilus assembly protein traW
O4000_RS26715 (O4000_26715) 80826..81497 + 672 WP_001337754 EAL domain-containing protein -
O4000_RS26720 (O4000_26720) 81497..82501 + 1005 WP_043940352 TraU family protein traU
O4000_RS26725 (O4000_26725) 82617..85415 + 2799 WP_001256487 conjugal transfer mating pair stabilization protein TraN traN
O4000_RS26730 (O4000_26730) 85454..86314 - 861 WP_000709517 hypothetical protein -
O4000_RS26735 (O4000_26735) 86437..87078 - 642 WP_000796664 hypothetical protein -
O4000_RS26740 (O4000_26740) 87372..87692 + 321 WP_000547566 hypothetical protein -
O4000_RS26745 (O4000_26745) 87996..88181 + 186 WP_001186917 hypothetical protein -
O4000_RS26750 (O4000_26750) 88401..89369 + 969 WP_000085162 AAA family ATPase -
O4000_RS26755 (O4000_26755) 89380..90288 + 909 WP_000739139 hypothetical protein -

Host bacterium

ID   21414 GenBank   NZ_CP114566
Plasmid name   2953647|unnamed2 Incompatibility group   IncA/C2
Plasmid size   210045 bp Coordinate of oriT [Strand]   62140..62290 [+]
Host baterium   Citrobacter freundii strain 2953647

Cargo genes

Drug resistance gene   floR, sul2, blaTEM-1D, ant(2'')-Ia, aac(6')-33, qacE, sul1, blaKPC-2
Virulence gene   -
Metal resistance gene   merR, merT, merP, merC, merA, merD, merE
Degradation gene   -
Symbiosis gene   -
Anti-CRISPR   -