Detailed information of oriT

oriT

The information of the oriT region


oriTDB ID   122257
Name   oriT1_pIncA_P7697 in_silico
Organism   Citrobacter freundii strain P7697
Sequence Completeness      -
NCBI accession of oriT (coordinates [strand])   NZ_CP071837 (51827..51977 [-], 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

>oriT1_pIncA_P7697
TGGTCGATGTGAACCCGTTTGACCGGGTTATGAATGAGTTGAAAAGTCGTGGCCGCAAGAACGCTCATATCCTGAGCATCCTTCAATTCGACTGGCCCGCATCGGAGGTCATCATCGAGAAGCTGAGCTGTTACATCACAGATGGGATTAA

Visualization of oriT structure

  oriT secondary structure

Predicted by RNAfold.

Download structure file


Relaxase

ID   14036 GenBank   WP_058662807
Name   mobH_J3S87_RS26270_pIncA_P7697 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   16422 GenBank   WP_051479468
Name   traC_J3S87_RS26185_pIncA_P7697 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.



ID   16423 GenBank   WP_000178858
Name   traD_J3S87_RS26265_pIncA_P7697 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.




T4SS

T4SS were predicted by using oriTfinder2.

Region 1: 28789..53893

Locus tag Coordinates Strand Size (bp) Protein ID Product Description
J3S87_RS26125 (J3S87_25990) 23914..24819 - 906 WP_058662804 hypothetical protein -
J3S87_RS26130 (J3S87_25995) 24831..25799 - 969 WP_001553257 AAA family ATPase -
J3S87_RS26135 (J3S87_26000) 26020..26205 - 186 WP_001186892 hypothetical protein -
J3S87_RS26140 (J3S87_26005) 26516..26836 - 321 WP_012766334 hypothetical protein -
J3S87_RS26145 (J3S87_26010) 27128..27778 + 651 WP_000796641 hypothetical protein -
J3S87_RS26150 (J3S87_26015) 27890..28750 + 861 WP_000679674 hypothetical protein -
J3S87_RS26155 (J3S87_26020) 28789..31527 - 2739 WP_058662805 conjugal transfer mating pair stabilization protein TraN traN
J3S87_RS26160 (J3S87_26025) 31678..32682 - 1005 WP_000911304 TraU family protein traU
J3S87_RS26165 (J3S87_26030) 32676..33353 - 678 WP_039272402 EAL domain-containing protein -
J3S87_RS26170 (J3S87_26035) 33350..34618 - 1269 WP_039272404 TrbC family F-type conjugative pilus assembly protein traW
J3S87_RS26175 (J3S87_26040) 34581..35111 - 531 WP_000672456 S26 family signal peptidase -
J3S87_RS26180 (J3S87_26045) 35108..35425 - 318 WP_000364398 hypothetical protein -
J3S87_RS26185 (J3S87_26050) 35440..37887 - 2448 WP_051479468 type IV secretion system protein TraC virb4
J3S87_RS26190 (J3S87_26055) 37884..38591 - 708 WP_001259344 DsbC family protein -
J3S87_RS26195 (J3S87_26060) 38740..44226 - 5487 WP_039272407 Ig-like domain-containing protein -
J3S87_RS26200 (J3S87_26065) 44427..44819 - 393 WP_012766327 TraA family conjugative transfer protein -
J3S87_RS26205 (J3S87_26070) 44823..45401 - 579 WP_039272410 type IV conjugative transfer system lipoprotein TraV traV
J3S87_RS26210 (J3S87_26075) 45398..46714 - 1317 WP_039272412 TraB/VirB10 family protein traB
J3S87_RS26215 (J3S87_26080) 46711..47628 - 918 WP_012766326 type-F conjugative transfer system secretin TraK traK
J3S87_RS26220 (J3S87_26085) 47612..48238 - 627 WP_039272415 TraE/TraK family type IV conjugative transfer system protein traE
J3S87_RS26225 (J3S87_26090) 48235..48516 - 282 WP_000805626 type IV conjugative transfer system protein TraL traL
J3S87_RS26230 (J3S87_26095) 48659..49006 - 348 WP_039272417 hypothetical protein -
J3S87_RS26235 (J3S87_26100) 49019..49162 - 144 WP_168199038 hypothetical protein -
J3S87_RS26240 (J3S87_26105) 49341..50003 - 663 WP_039272419 hypothetical protein -
J3S87_RS26245 (J3S87_26110) 50003..50380 - 378 WP_000869260 hypothetical protein -
J3S87_RS26250 (J3S87_26115) 50390..50836 - 447 WP_039272421 hypothetical protein -
J3S87_RS26255 (J3S87_26120) 50847..51476 - 630 WP_000743448 DUF4400 domain-containing protein tfc7
J3S87_RS26260 (J3S87_26125) 51433..51978 - 546 WP_023356350 hypothetical protein -
J3S87_RS26265 (J3S87_26130) 52028..53893 - 1866 WP_000178858 conjugative transfer system coupling protein TraD virb4
J3S87_RS26270 (J3S87_26135) 53890..56853 - 2964 WP_058662807 MobH family relaxase -
J3S87_RS26275 (J3S87_26140) 57021..57638 + 618 WP_012766323 hypothetical protein -
J3S87_RS26280 (J3S87_26145) 57620..57853 + 234 WP_039272424 hypothetical protein -

Host bacterium

ID   22684 GenBank   NZ_CP071837
Plasmid name   pIncA_P7697 Incompatibility group   IncA/C
Plasmid size   113818 bp Coordinate of oriT [Strand]   51827..51977 [-]; 85963..86067 [-]
Host baterium   Citrobacter freundii strain P7697

Cargo genes

Drug resistance gene   -
Virulence gene   -
Metal resistance gene   merP, merT, merR
Degradation gene   -
Symbiosis gene   -
Anti-CRISPR   -