Detailed information of oriT

oriT

The information of the oriT region


oriTDB ID   122540
Name   oriT1_pIncA_P7699 in_silico
Organism   Citrobacter freundii strain P7699
Sequence Completeness      -
NCBI accession of oriT (coordinates [strand])   NZ_CP071911 (117610..117714 [+], 105 nt)
oriT length   105 nt
IRs (inverted repeats)      56..61, 74..79  (TGGAAT..ATTCCA)
 46..51, 56..61  (ATTCCA..TGGAAT)
Location of nic site      _
Conserved sequence flanking the
  nic site    		  _
Note   Predicted by oriTfinder 2.0

  oriT sequence  


Download         Length: 105 nt

>oriT1_pIncA_P7699
AAATTGACAAATTCCAAACATGGGTTAGCCTAGTGACAAAGCTAGATTCCAATAGTGGAATAATTGGGTTTAGATTCCAGATAGATAGTTATGTGGATAGGAATT

Visualization of oriT structure

  oriT secondary structure

Predicted by RNAfold.

Download structure file


Relaxase

ID   14208 GenBank   WP_058662807
Name   mobH_J3S88_RS27090_pIncA_P7699 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   16485 GenBank   WP_000178858
Name   traD_J3S88_RS27095_pIncA_P7699 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   16486 GenBank   WP_051479468
Name   traC_J3S88_RS27175_pIncA_P7699 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: 149784..174888

Locus tag Coordinates Strand Size (bp) Protein ID Product Description
J3S88_RS27080 (J3S88_26950) 145824..146057 - 234 WP_039272424 hypothetical protein -
J3S88_RS27085 (J3S88_26955) 146039..146656 - 618 WP_012766323 hypothetical protein -
J3S88_RS27090 (J3S88_26960) 146824..149787 + 2964 WP_058662807 MobH family relaxase -
J3S88_RS27095 (J3S88_26965) 149784..151649 + 1866 WP_000178858 conjugative transfer system coupling protein TraD virb4
J3S88_RS27100 (J3S88_26970) 151699..152244 + 546 WP_023356350 hypothetical protein -
J3S88_RS27105 (J3S88_26975) 152201..152830 + 630 WP_000743448 DUF4400 domain-containing protein tfc7
J3S88_RS27110 (J3S88_26980) 152841..153287 + 447 WP_039272421 hypothetical protein -
J3S88_RS27115 (J3S88_26985) 153297..153674 + 378 WP_000869260 hypothetical protein -
J3S88_RS27120 (J3S88_26990) 153674..154336 + 663 WP_039272419 hypothetical protein -
J3S88_RS27125 (J3S88_26995) 154515..154658 + 144 WP_168199038 hypothetical protein -
J3S88_RS27130 (J3S88_27000) 154671..155018 + 348 WP_039272417 hypothetical protein -
J3S88_RS27135 (J3S88_27005) 155161..155442 + 282 WP_000805626 type IV conjugative transfer system protein TraL traL
J3S88_RS27140 (J3S88_27010) 155439..156065 + 627 WP_039272415 TraE/TraK family type IV conjugative transfer system protein traE
J3S88_RS27145 (J3S88_27015) 156049..156966 + 918 WP_012766326 type-F conjugative transfer system secretin TraK traK
J3S88_RS27150 (J3S88_27020) 156963..158279 + 1317 WP_039272412 TraB/VirB10 family protein traB
J3S88_RS27155 (J3S88_27025) 158276..158854 + 579 WP_039272410 type IV conjugative transfer system lipoprotein TraV traV
J3S88_RS27160 (J3S88_27030) 158858..159250 + 393 WP_012766327 TraA family conjugative transfer protein -
J3S88_RS27165 (J3S88_27035) 159451..164937 + 5487 WP_039272407 Ig-like domain-containing protein -
J3S88_RS27170 (J3S88_27040) 165086..165793 + 708 WP_001259344 DsbC family protein -
J3S88_RS27175 (J3S88_27045) 165790..168237 + 2448 WP_051479468 type IV secretion system protein TraC virb4
J3S88_RS27180 (J3S88_27050) 168252..168569 + 318 WP_000364398 hypothetical protein -
J3S88_RS27185 (J3S88_27055) 168566..169096 + 531 WP_000672456 S26 family signal peptidase -
J3S88_RS27190 (J3S88_27060) 169059..170327 + 1269 WP_039272404 TrbC family F-type conjugative pilus assembly protein traW
J3S88_RS27195 (J3S88_27065) 170324..171001 + 678 WP_039272402 EAL domain-containing protein -
J3S88_RS27200 (J3S88_27070) 170995..171999 + 1005 WP_000911304 TraU family protein traU
J3S88_RS27205 (J3S88_27075) 172150..174888 + 2739 WP_058662805 conjugal transfer mating pair stabilization protein TraN traN
J3S88_RS27210 (J3S88_27080) 174927..175787 - 861 WP_000679674 hypothetical protein -
J3S88_RS27215 (J3S88_27085) 175899..176549 - 651 WP_000796641 hypothetical protein -
J3S88_RS27220 (J3S88_27090) 176841..177161 + 321 WP_012766334 hypothetical protein -
J3S88_RS27225 (J3S88_27095) 177472..177657 + 186 WP_001186892 hypothetical protein -
J3S88_RS27230 (J3S88_27100) 177878..178846 + 969 WP_001553257 AAA family ATPase -
J3S88_RS27235 (J3S88_27105) 178858..179763 + 906 WP_058662804 hypothetical protein -

Host bacterium

ID   22966 GenBank   NZ_CP071911
Plasmid name   pIncA_P7699 Incompatibility group   IncA/C
Plasmid size   219493 bp Coordinate of oriT [Strand]   117610..117714 [+]; 151700..151850 [+]
Host baterium   Citrobacter freundii strain P7699

Cargo genes

Drug resistance gene   ant(3'')-Ia, catB2, qacE, sul1
Virulence gene   -
Metal resistance gene   merR, merT, merP, merC, merA, merD, merE
Degradation gene   -
Symbiosis gene   -
Anti-CRISPR   -