Detailed information of oriT

oriT

The information of the oriT region


oriTDB ID   101486
Name   oriT_MRSN 12115|unnamed in_silico
Organism   Citrobacter freundii strain MRSN 12115
Sequence Completeness      -
NCBI accession of oriT (coordinates [strand])   NZ_JYFZ02000004 (60491..60641 [-], 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_MRSN 12115|unnamed
TGGTCGATGTGAACCCTTTCGACAGGGTTATGAATGAATTGAAAAGTCGTGGCCGCAAGAACGCTCACATCCTGAGCATCCTCCAATTCGACTGGCCTGCATCGGAGGCCATCATCGAGAAGCTGAGCTGCTACATCACAGACGGGATTAA

Visualization of oriT structure

  oriT secondary structure

Predicted by RNAfold.

Download structure file


Relaxase

ID   1328 GenBank   WP_001326173
Name   mobH_TO64_RS27100_MRSN 12115|unnamed insolico UniProt ID   F5BPR1
Length   990 a.a. PDB ID   
Note   Predicted by oriTfinder 2.0

  Relaxase protein sequence


Download         Length: 990 a.a.        Molecular weight: 109356.90 Da        Isoelectric Point: 4.9395

>WP_001326173.1 MULTISPECIES: MobH family relaxase [Gammaproteobacteria]
MLKALNKLFGGRSGVIETAPSVRVLPLKDVEDEEIPRYPPFAKGLPVAPLDKILATQAELIEKVRNSLGF
TVDDFNRLVLPVIQRYAAFVHLLPASESHHHRGAGGLFRHGLEVAFWAAQASESVIFSIEGTPRERRDNE
PRWRLASCFSGLLHDVGKPLSDVSITDKDGSITWNPYSESLHDWAHRHEIDRYFIRWRDKRHKRHEQFSL
LAVDRIIPAETREFLSKSGPSIMEAMLEAISGTSVNQPVTKLMLRADQESVSRDLRQSRLDVDEFSYGVP
VERYVFDAIRRLVKTGKWKVNEPGAKVWHLNQGVFIAWKQLGDLYDLISHDKIPGIPRDPDTLADILIER
GFAVPNTVQEKGERAYYRYWEVLPEMLQEAAGSVKILMLRLESNDLVFTTEPPAAVAAEVVGDVEDAEIE
FVDPEEVDDDQEEDVSALNDDMLAAEQEAEKALAGLGFGDAMEMLKSTSDAVEEKPEQKDAGSTESSKPD
AGKKGKPQSKPGKAKPKSDTEKQPHKPEAKEDLSPQDIAKNAPPLANDNPLQALKDVGGGLGDIDFPFDA
FSASAETASTDATNSEIPDVAMPGKQEKQPKQDFVPQEQNSLQGDDFPMFGSSDEPPSWAIEPLPMLTDA
PEQTTPAPAMPPTDKPNLHEKDAKTLLVEMLAGYGEASALLEQAIMPVLEGKTTLGEVLCLMKGQAVILY
PDGARSLGAPSEVLSKLSHANAIVPDPIMPGRKVRDFSGVKAIVLAEQLSDAVVAAIKDAEASMGGYQDA
FELVSPPGLDASKNKSAPKQQSRKKAQQQKPEVNAGKPSPEQKAKGKDSQPQQKEKKVDVTSPVEEPQRQ
PVQEKQNVARLPKREVQPVAPEPKVEREKELGHVEVREREEPEVREFEPPKAKTNPKDINAEDFLPSGVT
PQKALQMLKDMIQKRSGRWLVTPVLEEDGCLVTSDKAFDMIAGENIGISKHILCGMLSRAQRRPLLKKRQ
GKLYLEVNET

  Protein domains


Predicted by InterproScan.

Putative helicase (TraI_2)

(51-357)


  Protein structure


Source ID Structure
AlphaFold DB F5BPR1


T4CP

ID   948 GenBank   WP_000637384
Name   traC_TO64_RS27020_MRSN 12115|unnamed 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: 92604.86 Da        Isoelectric Point: 5.9216

>WP_000637384.1 MULTISPECIES: type IV secretion system protein TraC [Gammaproteobacteria]
MIVTIKKKLEETLIPEHLRAAGIIPVLAYDEDDHVFLMDDHSAGFGFMCEPLCGADEKVQERMNGFLNQE
FPSKTTLQFVLFRSPDINQEMYRMMGLRDGFRHELLTSVIKERINFLQHHTTDRIFAKTNKGIYDNGLIQ
DLKLFVTCKVPIKNNNPTESELQQLAQLRTKVESSLQTVGLRPRTMTAVNYIRIMSTILNWGPDASWRHD
SVDWEMDKPICEQIFDYGTDVEVSKNGIRLGDYHAKVMSAKKLPDVFYFGDALTYAGDLSGGNSSIKENY
MVVTNVFFPEAESTKNTLERKRQFTVNQAYGPMLKFVPVLADKKESFDTLYESMKEGAKPVKITYSVVLF
APTKERVEAAAMAARNIWRESRFELMEDKFVALPMFLNCLPFCTDRDAVRDLFRYKTMTTEQAAVVLPVF
GEWKGTGTYHAALISRNGQLMSLSLHDSNTNKNLVIAAESGSGKSFLTNELIFSYLSEGAQVWVIDAGKS
YQKLSEMLNGDFVHFEEGTHVCLNPFELIQNYEDEEDAIVSLVCAMASAKGLLDEWQISALKQVLSRLWE
EKGKEMKVDDIAERCLEEENDQRLKDIGQQLYAFTSQGSYGKYFSRKNNVSFQNQFTVLELDELQGRKHL
RQVVLLQLIYQIQQEVFLGERNRKKVVIVDEAWDLLKEGEVSVFMEHAYRKFRKYGGSVVIATQSINDLY
ENAVGRAIAENSASMYLLGQTEETVESVKRSGRLTLSEGGFHTLKTVHTIQGVYSEIFIKSKSGMGVGRL
IVGDFQKLLYSTDPVDVNAIDQFVKQGMSIPEAIKAVMRSRRQAA

  Protein domains


Predicted by InterproScan.

Family of unknown function (DUF5934) (DUF5934)

(284-434)

TraC protein (TraC_F_IV)

(21-255)

TraG P-loop domain (P-loop_TraG)

(449-809)

  Protein structure



No available structure.



ID   949 GenBank   WP_000178857
Name   traD_TO64_RS27095_MRSN 12115|unnamed 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: 69225.71 Da        Isoelectric Point: 6.9403

>WP_000178857.1 MULTISPECIES: conjugative transfer system coupling protein TraD [Gammaproteobacteria]
MTMSYDPLAYEMPWRPNYEKNAVAGWLAASGAALAVEQVSTMPPEPFYWMTGICGVMAMARLPKAIKLHL
LQKHLKGRDLEFISIAELQKYIKDTPDDMWLGSGFLWENRHAQRVFEILKRDWTSIVGRESTVKKVVRKI
QGKKKELPIGQPWIHGVEPKEEKLMQPLKHTEGHSLIVGTTGSGKTRMFDILISQAILRGEAVIIIDPKG
DKEMRDNARRACEAMGQPERFVSFHPAFPEESVRIDPLRNFTRVTEIASRLAALIPSEAGADPFKSFGWQ
ALNNIAQGLVITHDRPNLTKLRRFLEGGAAGLVIKAVQAYSERVMPDWEAEAAAYLEKVKNGSREKIAFA
LMKFYYDIIQPEHPNSDLEGLLSMFQHDQTHFSKMVANLLPIMNMLTSGELGPLLSPDSSDLSDERQITD
SAKIINNAQVAYLGLDSLTDNMVGSAMGSIFLSDLTAVAGDRYNYGVNNRPVNIFVDEAAEVINDPFIQL
LNKGRGAKLRLFVATQTFADFAARLGSKDKALQVLGNINNTFALRIVDGETQEYIADNLPKTRLKYVMRT
QGQNSDGKEPIMHGGNQGERLMEEEADLFPAQLLGMLPNLEYIAKISGGTIVKGRLPILTQ

  Protein domains


Predicted by InterproScan.

Type IV secretion-system coupling protein DNA-binding domain (TrwB_AAD_bind)

(170-299)

TraM recognition site of TraD and TraG (TraG-D_C)

(471-598)

  Protein structure



No available structure.




T4SS

T4SS were predicted by using oriTfinder2.

Region 1: 37414..62557

Locus tag Coordinates Strand Size (bp) Protein ID Product Description
TO64_RS26960 (TO64_24755) 32540..33448 - 909 WP_000739139 hypothetical protein -
TO64_RS26965 (TO64_24760) 33459..34427 - 969 WP_000085160 AAA family ATPase -
TO64_RS26970 (TO64_24765) 34647..34832 - 186 WP_001186917 hypothetical protein -
TO64_RS26975 (TO64_24770) 35136..35456 - 321 WP_000547566 hypothetical protein -
TO64_RS26980 (TO64_24775) 35751..36392 + 642 WP_000796664 hypothetical protein -
TO64_RS26985 (TO64_24780) 36515..37375 + 861 WP_000709517 hypothetical protein -
TO64_RS26990 (TO64_24785) 37414..40209 - 2796 WP_001256484 conjugal transfer mating pair stabilization protein TraN traN
TO64_RS26995 (TO64_24790) 40325..41329 - 1005 WP_005507569 TraU family protein traU
TO64_RS27000 (TO64_24795) 41329..42000 - 672 WP_000575345 EAL domain-containing protein -
TO64_RS27005 (TO64_24800) 41997..43262 - 1266 WP_001447719 TrbC family F-type conjugative pilus assembly protein traW
TO64_RS27010 (TO64_24805) 43225..43755 - 531 WP_001010740 S26 family signal peptidase -
TO64_RS27015 (TO64_24810) 43752..44069 - 318 WP_000351984 hypothetical protein -
TO64_RS27020 (TO64_24815) 44084..46531 - 2448 WP_000637384 type IV secretion system protein TraC virb4
TO64_RS27025 (TO64_24820) 46528..47235 - 708 WP_001259346 DsbC family protein -
TO64_RS27030 (TO64_24825) 47384..52870 - 5487 WP_044714863 Ig-like domain-containing protein -
TO64_RS27035 (TO64_24830) 53071..53463 - 393 WP_000479535 TraA family conjugative transfer protein -
TO64_RS27040 (TO64_24835) 53467..54045 - 579 WP_000793435 type IV conjugative transfer system lipoprotein TraV traV
TO64_RS27045 (TO64_24840) 54042..55355 - 1314 WP_024131605 TraB/VirB10 family protein traB
TO64_RS27050 (TO64_24845) 55355..56272 - 918 WP_000794249 type-F conjugative transfer system secretin TraK traK
TO64_RS27055 (TO64_24850) 56256..56882 - 627 WP_001049717 TraE/TraK family type IV conjugative transfer system protein traE
TO64_RS27060 (TO64_24855) 56879..57160 - 282 WP_000805625 type IV conjugative transfer system protein TraL traL
TO64_RS27065 (TO64_24860) 57305..57670 - 366 WP_001052530 hypothetical protein -
TO64_RS31295 57682..57825 - 144 WP_001275801 hypothetical protein -
TO64_RS27070 (TO64_24865) 58006..58668 - 663 WP_001231464 hypothetical protein -
TO64_RS27075 (TO64_24870) 58668..59045 - 378 WP_000869297 hypothetical protein -
TO64_RS27080 (TO64_24875) 59055..59501 - 447 WP_000122507 hypothetical protein -
TO64_RS27085 (TO64_24880) 59511..60140 - 630 WP_000743449 DUF4400 domain-containing protein tfc7
TO64_RS27090 (TO64_24885) 60097..60642 - 546 WP_000228720 hypothetical protein -
TO64_RS27095 (TO64_24890) 60692..62557 - 1866 WP_000178857 conjugative transfer system coupling protein TraD virb4
TO64_RS27100 (TO64_24895) 62554..65526 - 2973 WP_001326173 MobH family relaxase -
TO64_RS27105 (TO64_24900) 65694..66311 + 618 WP_001249395 hypothetical protein -
TO64_RS27110 (TO64_24905) 66293..66526 + 234 WP_001191890 hypothetical protein -

Host bacterium

ID   1930 GenBank   NZ_JYFZ02000004
Plasmid name   MRSN 12115|unnamed Incompatibility group   -
Plasmid size   75166 bp Coordinate of oriT [Strand]   60491..60641 [-]
Host baterium   Citrobacter freundii strain MRSN 12115

Cargo genes

Drug resistance gene   -
Virulence gene   -
Metal resistance gene   -
Degradation gene   -
Symbiosis gene   -
Anti-CRISPR   -