Detailed information of oriT

oriT

The information of the oriT region


oriTDB ID   103320
Name   oriT_pIBAC_IncA/C in_silico
Organism   Citrobacter freundii strain AA535
Sequence Completeness      -
NCBI accession of oriT (coordinates [strand])   NZ_MH594477 (60015..60165 [+], 151 nt)
oriT length   151 nt
IRs (inverted repeats)      12..17, 24..29  (AACCCG..CGGGTT)
Location of nic site      _
Conserved sequence flanking the
  nic site    		  _
Note   Predicted by oriTfinder 2.0

  oriT sequence  


Download         Length: 151 nt

>oriT_pIBAC_IncA/C
TGGTCGATGTGAACCCGTTTGACCGGGTTATGAATGAGTTGAAAAGTCGTGGCCGCAAGAACGCTCATATCCTGAGCATCCTTCAATTCGACTGGCCCGCATCGGAGGTCATCATCGAGAAGCTGAGCTGTTACATCACAGATGGGATTAA

Visualization of oriT structure



Relaxase

ID   2478 GenBank   WP_058662807
Name   TraI_2_HTT91_RS00350_pIBAC_IncA/C insolico UniProt ID   A0A221KLA3
Length   987 a.a. PDB ID   
Note   Predicted by oriTfinder 2.0

  Relaxase protein sequence


Download         Length: 987 a.a.        Molecular weight: 109306.91 Da        Isoelectric Point: 4.9372

>WP_058662807.1 MULTISPECIES: MobH family relaxase [Gammaproteobacteria]
MLKALHKLFGGRSGAIETAPSARVLPLKDVEDEEIPRYPPFAKGLPVAPLDKILATQAELIEKVRNSLGF
TVDDFNRLVLPVIQRYAAFVHLLPASESHHHRGAGGLFRHGLEVAFWATQASESVIFSIEGTPRERRDNE
PRWRLASCFSGLLHDVGKPLSDVSITDKDGSITWNPYSESLHDWAYRHGIDRYFIRWRDKRHKRHEQFSL
LAWHRIIPAETQEFLSKSGPSIIEAMLEAISGTSVNQPVTKLMLRADQESVSRDLRQSRLDVNEFSYGVP
VERYVFDAIRRLVKTGKWKVNEPGAKVWHLNQGVFIAWKQLGDLYDLISQDKIPGIPRDPDTLADILIER
GFAVPNTVQEKGERAYYRYWEVLPEMLQEAAGPVKILMLRLESNDLVFTTEPPAAVTGEVVGDVEDAEIE
FVDPEEADEDQAEGDAGLNNDMLAAELEAEKALAGLGFGDAMAMLKSTSDIAEEKPEQEDTESTELPKPD
ASKKGKQQSKPGKARAEKQPQKPEVKEDLSPQDIAKNAPPLANDDPLQALKDVGGGLGDIDFPFDVFNAS
AETACTDATNLAIPDITEPVKQEEQPKPDFVPQEQNSLQNGDFPIFSDSDEPPSWAIEPLPMLTDTPEQT
IPAPDMQHAGKPKELEKDAKTLLSEMLAGYGEASTLLEQAIMPVLEGKTTLGEVLCLMKGQAVILYPEGA
RSLGAPSEVLSKLSHANAIVPDPIMPGRKVRDFSGVKAIVLVDQLSDAVVAAIKDAEASMGGYQEAFELV
SPPGSGVSKNKSAPKQQSRKKTQQQKPEVDAGAGSEQKTKDKSLQQQPKEKQGNVASLVEEQKRKPVQDQ
EKQNVARLPKREAQPVASKPKVEHERELGHVEVRERDEPEVREFEPPKAKTNPKDINEEDFLPSGVTPEK
ALLMLKDMIQKRSGRWLVTPVLEEDGCLVTSVKAFDMIAGENVGISKHILYGLLSRAQRRPLLKKRQGKL
YLEVDKA

  Protein domains


Predicted by InterproScan.

Putative helicase (TraI_2)

(51-357)


  Protein structure


Source ID Structure
AlphaFold DB A0A221KLA3


T4CP

ID   2262 GenBank   WP_000178858
Name   traD_HTT91_RS00355_pIBAC_IncA/C 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: 69248.76 Da        Isoelectric Point: 7.1093

>WP_000178858.1 MULTISPECIES: conjugative transfer system coupling protein TraD [Gammaproteobacteria]
MTMSYDPLAYEMPWRPNYEKNAVAGWMAASCAALAVEQVSTMPSEPFYWMTGICGVMAMARLPKAIKLHL
LQKHLKGRDLEFISIAELQKYIKDTPEDMWLGSGFLWENRHAQRVFEILKRDWTSIVGKESTVKKVVRKI
QGKKKELPIGQPWIHGVEPKEEKLMQPLKHTEGHSLIVGTTGSGKTRMFDILISQAILRGEAVIIIDPKG
DKEMRDNARRACEAMGQPERFVSFHPAFPEESVRIDPLRNFTRVTEIASRLAALIPSEAGADPFKSFGWQ
ALNNIAQGLVLTHDRPNLTKLRRFLEGGAAGLVIKAVQAYSERVKPDWEAEAAAYLEKAKNGSREKIAFA
LMKFYYDIIQPEHPNSDLEGLLSMFQHDQTHFSKMVANLLPIMNMLTSGELGPLLSPDSSDLSDERQITD
SAKIINNAQVAYLGLDSLTDNMVGSAMGSIFLSDLTAVAGDRYNYGVNNRPVNIFVDEAAEVINDPFIQL
LNKGRGAKLRLFVATQTFADFAARLGSKDKALQVLGNINNTFALRIVDGETQEYIADNLPKTRLKYVMRT
QGQNTDGKEPIMHGGNQGERLMEEEADLFPAQLLGMLPNLEYIAKISGGTIVKGRLPILTQ

  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   2263 GenBank   WP_051479468
Name   traC_HTT91_RS00435_pIBAC_IncA/C 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: 92523.78 Da        Isoelectric Point: 5.9204

>WP_051479468.1 MULTISPECIES: type IV secretion system protein TraC [Gammaproteobacteria]
MIITIKKKLEETLIPEHLRAAGIIPVLAYDEDDHVFLMDDQSVGFGFMCEPLCGADEKVQERMNGFLNQE
FPSKTSLQFVLFRSPDINQEMYRMMGLRDGFRHELLTSVIKERINFLQHHTTDRIFAKTSKGIYDNGLIQ
DLKLFVTCKVPIKNNNPTESELQHLAQIRTKVESSLQTVGLRPRTMTAVNYIRIMSTILNWGPDASWRHD
SVDWEMDKPICEQIFDYGTDVEVSKNGIRLGDYHAKVMSAKKLPDVFYFGDALTYAGDLSGGNSSIKENY
MVVTNVFFPEAESTKNTLERKRQFTVNQAYGPMLKFVPVLADKKESFDTLYESMKEGAKPVKITYSVVLF
APTKERVEAAAMAARNIWRESRFELMEDKFVALPMFLNCLPFCTDRDAVRDLFRYKTMTTEQAAVVLPVF
GEWKGTGTYHAALISRNGQLMSLSLHDSNTNKNLVIAAESGSGKSFLTNELIFSYLSEGAQVWVIDAGKS
YQKLSEMLNGDFVHFEEGTHVCLNPFELIQNYDDEEDAIVSLVCAMASAKGLLDEWQISALKQVLSRLWE
EKGKEMKVDDIAERCLEEENDQRLKDIGQQLYAFTSKGSYGKYFSQKNNVSFQNQFTVLELDELQGRKHL
RQVVLLQLIYQIQQEVFLGERNRKKVVIVDEAWDLLKEGEVSTFMEHAYRKFRKYGGSVVIATQSINDLY
ENAVGRAIAENSASMYLLGQTEETVESVKRSGRLTLSDGGFHTLKTVHTIQGVYSEIFIKSKSGMGVGRL
IVGDFQKLLYSTDPVDVNAIDQFVKQGMSIPEAIKAVMRSRKQAA

  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: 58099..84435

Locus tag Coordinates Strand Size (bp) Protein ID Product Description
HTT91_RS00340 54139..54372 - 234 WP_039272424 hypothetical protein -
HTT91_RS00345 54354..54971 - 618 WP_012766323 hypothetical protein -
HTT91_RS00350 55139..58102 + 2964 WP_058662807 MobH family relaxase -
HTT91_RS00355 58099..59964 + 1866 WP_000178858 conjugative transfer system coupling protein TraD virb4
HTT91_RS00360 59975..60559 + 585 WP_000332867 hypothetical protein -
HTT91_RS00365 60516..61145 + 630 WP_000743448 DUF4400 domain-containing protein tfc7
HTT91_RS00370 61156..61602 + 447 WP_039272421 hypothetical protein -
HTT91_RS00375 61612..61989 + 378 WP_000869260 hypothetical protein -
HTT91_RS00380 61989..62651 + 663 WP_039272419 hypothetical protein -
HTT91_RS00385 62830..62973 + 144 WP_168199038 hypothetical protein -
HTT91_RS00390 62986..63333 + 348 WP_039272417 hypothetical protein -
HTT91_RS00395 63476..63757 + 282 WP_000805626 type IV conjugative transfer system protein TraL traL
HTT91_RS00400 63754..64380 + 627 WP_039272415 TraE/TraK family type IV conjugative transfer system protein traE
HTT91_RS00405 64364..65281 + 918 WP_012766326 type-F conjugative transfer system secretin TraK traK
HTT91_RS00410 65278..66594 + 1317 WP_039272412 TraB/VirB10 family protein traB
HTT91_RS00415 66591..67169 + 579 WP_039272410 type IV conjugative transfer system lipoprotein TraV traV
HTT91_RS00420 67173..67565 + 393 WP_012766327 TraA family conjugative transfer protein -
HTT91_RS00425 67766..73252 + 5487 WP_039272407 Ig-like domain-containing protein -
HTT91_RS00430 73401..74108 + 708 WP_001259344 DsbC family protein -
HTT91_RS00435 74105..76552 + 2448 WP_051479468 type IV secretion system protein TraC virb4
HTT91_RS00440 76567..76884 + 318 WP_000364398 hypothetical protein -
HTT91_RS00445 76881..77411 + 531 WP_000672456 S26 family signal peptidase -
HTT91_RS00450 77374..78642 + 1269 WP_039272404 TrbC family F-type conjugative pilus assembly protein traW
HTT91_RS00455 78639..79091 + 453 WP_236874016 EAL domain-containing protein -
HTT91_RS00460 79152..80299 + 1148 WP_087770335 IS3 family transposase -
HTT91_RS00465 80542..81546 + 1005 WP_000911304 TraU family protein traU
HTT91_RS00470 81685..84435 + 2751 WP_236874015 conjugal transfer mating pair stabilization protein TraN traN
HTT91_RS00475 84474..85334 - 861 WP_000679674 hypothetical protein -
HTT91_RS00480 85446..86096 - 651 WP_000796641 hypothetical protein -
HTT91_RS00485 86388..86708 + 321 WP_012766334 hypothetical protein -
HTT91_RS00490 87019..87204 + 186 WP_001186892 hypothetical protein -
HTT91_RS00495 87425..88393 + 969 WP_001553257 AAA family ATPase -
HTT91_RS00500 88405..89310 + 906 WP_058662804 hypothetical protein -

Host bacterium

ID   3763 GenBank   NZ_MH594477
Plasmid name   pIBAC_IncA/C Incompatibility group   IncA/C
Plasmid size   145294 bp Coordinate of oriT [Strand]   60015..60165 [+]
Host baterium   Citrobacter freundii strain AA535

Cargo genes

Drug resistance gene   aac(6')-Ib-cr, blaOXA-1, catB3, ARR-3, qacE, sul1
Virulence gene   -
Metal resistance gene   merA, merP, merT, merR
Degradation gene   -
Symbiosis gene   -
Anti-CRISPR   -