Detailed information of oriT

oriT

The information of the oriT region


oriTDB ID   107516
Name   oriT_p11663 in_silico
Organism   Serratia marcescens strain 11663
Sequence Completeness      -
NCBI accession of oriT (coordinates [strand])   NZ_AP014611 (71747..71897 [+], 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_p11663
TGGTCGATGTGAACCCTTTCGACAGGGTTATGAATGAATTGAAAAGTCGTGGCCGCAAGAACGCTCACATCCTGAGCATCCTCCAATTCGACTGGCCTGCATCGGAGGCCATCATCGAGAAGCTGAGCTGCTACATCACAGACGGGATTAA

Visualization of oriT structure

  oriT secondary structure

Predicted by RNAfold.

Download structure file


Relaxase

ID   5040 GenBank   WP_001337757
Name   mobH_HXG05_RS00480_p11663 insolico UniProt ID   A0A709FRI2
Length   992 a.a. PDB ID   
Note   Predicted by oriTfinder 2.0

  Relaxase protein sequence


Download         Length: 992 a.a.        Molecular weight: 109581.85 Da        Isoelectric Point: 4.8956

>WP_001337757.1 MULTISPECIES: MobH family relaxase [Gammaproteobacteria]
MLKALNKLFGGRSGVIETAPSARVLPLKDVEDEEIPRYPPFAKGLPVAPLDKILATQAELIEKVRNSLGF
TVDDFNRLVLPVIQRYAAFVHLLPASESHHHRGAGGLFRHGLEVAFWAAQASESVIFSIEGTPRERRDNE
PRWRLASCFSGLLHDVGKPLSDVSITDKDGSITWNPYSESLHDWAHRHEIDRYFIRWRDKRHKRHEQFSL
LAVDRIIPAETREFLSKSGPSIMEAMLEAISGTSVNQPVTKLMLRADQESVSRDLRQSRLDVDEFSYGVP
VERYVFDAIRRLVKTGKWKVNEPGAKVWHLNQGVFIAWKQLGDLYDLISHDKIPGIPRDPDTLADILIER
GFAVPNTVQEKGERAYYRYWEVLPEMLQEAAGSVKILMLRLESNDLVFTTEPPAAVAAEVVGDVEDAEIE
FVDPEEADDGDDQEEGEAALNDDMLAAEQEAEKALAGLGFGDAMEMLKSTSDAVEEKPEQKDAGPTESSK
PDAGKKGKPQSKPGKAKPKSDTEKQPHKPEAKEDLSPQDIAKNAPPLANDNPLQALKDVGGGLGDIDFPF
DAFNASAETTSTDATNSEIPDVAMPGKQEEQPKQDFVPQEQNSLQGDDFPMFGGSDEPPSWAIEPLPMLT
DAPEQPTHTPEMPHTDNVNQHEKDAKTLLVEMLSGYGEASALLEQAIMPVLEGKTTLGEVLCLMKGQAVI
LYPDGARSLGAPSEVLSKLSHANAIVPDPIMPGRKVRDFSGVKAIVLAEQLSDAVVAAIKDAEASMGGYQ
DAFELVSPPGLDASKNKSAPKQQSRKKAQQQKPEVNAGKASPEQKAKGKDSQPQPKEKKVDVTSPVEEQQ
RKPVQEKQNVARLPKREAQPVAPEPKVEREKELGHVEVREREDPEVREFEPPKAKTNPKDINAEDFLPSG
VTPQKALQMLKDMIQKRSGRWLVTPVLEEDGCLVTSDKAFDMIAGENIGISKHILCGMLSRAQRRPLLKK
RQGKLYLEVNET

  Protein domains


Predicted by InterproScan.

Putative helicase (TraI_2)

(51-357)


  Protein structure


Source ID Structure
AlphaFold DB A0A709FRI2


T4CP

ID   5253 GenBank   WP_000178856
Name   traD_HXG05_RS00485_p11663 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   5254 GenBank   WP_000637386
Name   traC_HXG05_RS00570_p11663 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: 69831..96952

Locus tag Coordinates Strand Size (bp) Protein ID Product Description
HXG05_RS00470 65856..66089 - 234 WP_001191892 hypothetical protein -
HXG05_RS00475 66071..66688 - 618 WP_001249396 hypothetical protein -
HXG05_RS00480 66856..69834 + 2979 WP_001337757 MobH family relaxase -
HXG05_RS00485 69831..71696 + 1866 WP_000178856 conjugative transfer system coupling protein TraD virb4
HXG05_RS00490 71707..72291 + 585 WP_000332866 hypothetical protein -
HXG05_RS00495 72248..72877 + 630 WP_000743450 DUF4400 domain-containing protein tfc7
HXG05_RS00500 72887..73333 + 447 WP_000122506 hypothetical protein -
HXG05_RS00505 73343..73720 + 378 WP_000869261 hypothetical protein -
HXG05_RS00510 73720..74382 + 663 WP_001231463 hypothetical protein -
HXG05_RS00515 74563..74706 + 144 WP_001275801 hypothetical protein -
HXG05_RS00520 74706..75083 + 378 WP_000509509 hypothetical protein -
HXG05_RS00525 75228..75509 + 282 WP_000805625 type IV conjugative transfer system protein TraL traL
HXG05_RS00530 75506..76132 + 627 WP_001049716 TraE/TraK family type IV conjugative transfer system protein traE
HXG05_RS00535 76116..77033 + 918 WP_000794249 type-F conjugative transfer system secretin TraK traK
HXG05_RS00540 77033..78346 + 1314 WP_024131605 TraB/VirB10 family protein traB
HXG05_RS00545 78343..78921 + 579 WP_000793435 type IV conjugative transfer system lipoprotein TraV traV
HXG05_RS00550 78925..79317 + 393 WP_000479535 TraA family conjugative transfer protein -
HXG05_RS00555 79518..85049 + 5532 WP_000606833 Ig-like domain-containing protein -
HXG05_RS00560 85548..86954 + 1407 WP_082261857 group II intron reverse transcriptase/maturase -
HXG05_RS00565 87128..87835 + 708 WP_001259347 DsbC family protein -
HXG05_RS00570 87832..90279 + 2448 WP_000637386 type IV secretion system protein TraC virb4
HXG05_RS00575 90294..90611 + 318 WP_000351984 hypothetical protein -
HXG05_RS00580 90608..91138 + 531 WP_001010738 S26 family signal peptidase -
HXG05_RS00585 91101..92366 + 1266 WP_000621288 TrbC family F-type conjugative pilus assembly protein traW
HXG05_RS00590 92363..93034 + 672 WP_001337754 EAL domain-containing protein -
HXG05_RS00595 93034..94038 + 1005 WP_043940352 TraU family protein traU
HXG05_RS00600 94142..96952 + 2811 WP_001909286 conjugal transfer mating pair stabilization protein TraN traN
HXG05_RS00605 96991..97851 - 861 WP_000709517 hypothetical protein -
HXG05_RS00610 97974..98615 - 642 WP_000796664 hypothetical protein -
HXG05_RS00615 98909..99229 + 321 WP_000547566 hypothetical protein -
HXG05_RS00620 99533..99718 + 186 WP_001186917 hypothetical protein -
HXG05_RS00625 99938..100906 + 969 WP_000085162 AAA family ATPase -
HXG05_RS00630 100917..101825 + 909 WP_000739139 hypothetical protein -

Host bacterium

ID   7951 GenBank   NZ_AP014611
Plasmid name   p11663 Incompatibility group   IncA/C2
Plasmid size   169829 bp Coordinate of oriT [Strand]   71747..71897 [+]
Host baterium   Serratia marcescens strain 11663

Cargo genes

Drug resistance gene   aac(6')-Ian, sul2, aac(3)-IIa, blaTEM-1B, blaSCO-1, ant(3'')-Ia, qacE, sul1, blaTLA-1
Virulence gene   -
Metal resistance gene   -
Degradation gene   -
Symbiosis gene   -
Anti-CRISPR   -