Detailed information of oriT

oriT

The information of the oriT region


oriTDB ID   113382
Name   oriT_p15758C_98 in_silico
Organism   Providencia rettgeri strain PreM15758
Sequence Completeness      -
NCBI accession of oriT (coordinates [strand])   NZ_CP123370 (66413..66563 [-], 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_p15758C_98
TGGTCGATGTGAACCCTTTCGACAGGGTTATGAATGAATTGAAAAGTCGTGGCCGCAAGAACGCTCACATCCTGAGCATCCTCCAATTCGACTGGCCTGCATCGGAGGCCATCATCGAGAAGCTGAGCTGCTACATCACAGACGGGATTAA

Visualization of oriT structure

  oriT secondary structure

Predicted by RNAfold.

Download structure file


Relaxase

ID   8579 GenBank   WP_282555309
Name   mobH_KOL64_RS21445_p15758C_98 insolico UniProt ID   _
Length   1014 a.a. PDB ID   
Note   Predicted by oriTfinder 2.0

  Relaxase protein sequence


Download         Length: 1014 a.a.        Molecular weight: 112215.06 Da        Isoelectric Point: 5.0337

>WP_282555309.1 MULTISPECIES: MobH family relaxase [Providencia]
MLKALNKLFGGRSGVIETAPSARVLPLKDVEDEEIPRYPPFAKGLPVAPLDKILATQAELIEKVRNSLGF
TVDDFNRLVLPVIQRYAAFVHLLPASESHHHRGAGGLFRHGLEVAFWAAQASESVIFSIEGTPRERRDNE
PRWRLASCFSGLLHDVGKPLSDVSITDKDGSITWNPYSESLHDWAHRHEIDRYFIRWRDKRHKRHEQFSL
LAVDRIIPAETREFLSKSGPSIMEAMLEAISGTSVNQPVTKLMLRADQESVSRDLRQSRLDVDEFSYGVP
VERYVFDAIRRLVKTGKWKVNEPGAKVWHLNQGVFIAWKQLGDLYDLISHDKIPGIPRDPDTLADILIER
GFAVPNTVQEKGERAYYRYWEVLPEMLQEAAGSVKILMLRLESNDLVFTTEPPAAVAAEVVGDVEDAEIE
FVDPEEADDGDDQEEGEAALNDDMLAAEQEAEKALAGLGFGDAMEMLKSTSDAVEEKPEQKDAGPTESSK
PDAGKKGKPQSKPGKAKPKSDTEKQPHKPEAKEDLSPQDIAKNAPPLANDNPLQALKDVGGGLGDIDFPF
DAFNASAETTSTDATNSEIPDVAMPGKQEEQPKQDFVPQEQNSLQGDDFPMFGGSDEPPSWAIEPLPMLT
DAPEQPTHTPEMPHTDNVNQHEKDAKTLLVEMLSGYGEASALLEQAIMPVLEGKTTLGEVLCLMKGQAVI
LYPDGARSLGAPSEVLSKLSHANAIVPDPIMPGRKVRDFSGVKAIVLAEQLSDAVVAAIKDAEASMGGYQ
DAFELVSPPGLDASKNKSAPKQQSRKKAQQQKPEVNAGKASPEQKAKGKDSQPQPKEKKVDVTSPVEEQQ
RKPVQEKQNVARLPKREAQPVAPEPKVEREKELGHVEVREREDPEVREFEPPKAKTNPKDINAEDFLPSG
VTPQKALQMLKDMIQKRSGRWLVTPVLEEDGCLVTSDKAFDMIAGENIGISKHILCGMLSRAQRRPLLKK
RQGKLYLEVNETWQWVMTRSPTRCRGGPTMKKML

  Protein domains


Predicted by InterproScan.

Putative helicase (TraI_2)

(51-357)


  Protein structure



No available structure.




T4CP

ID   9909 GenBank   WP_000637386
Name   traC_KOL64_RS21365_p15758C_98 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.



ID   9910 GenBank   WP_000178856
Name   traD_KOL64_RS21440_p15758C_98 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.




T4SS

T4SS were predicted by using oriTfinder2.

Region 1: 43288..68479

Locus tag Coordinates Strand Size (bp) Protein ID Product Description
KOL64_RS21305 (KOL64_21570) 38415..39323 - 909 WP_088212677 hypothetical protein -
KOL64_RS21310 (KOL64_21575) 39334..40302 - 969 WP_000085162 AAA family ATPase -
KOL64_RS21315 (KOL64_21580) 40522..40707 - 186 WP_336432760 hypothetical protein -
KOL64_RS21320 (KOL64_21585) 41011..41331 - 321 WP_000547566 hypothetical protein -
KOL64_RS21325 (KOL64_21590) 41625..42266 + 642 WP_000796664 hypothetical protein -
KOL64_RS21330 (KOL64_21595) 42623..43249 + 627 WP_228130981 hypothetical protein -
KOL64_RS21335 (KOL64_21600) 43288..46098 - 2811 WP_001909286 conjugal transfer mating pair stabilization protein TraN traN
KOL64_RS21340 (KOL64_21605) 46202..47206 - 1005 WP_043940352 TraU family protein -
KOL64_RS21345 (KOL64_21610) 47206..47877 - 672 WP_001337754 EAL domain-containing protein -
KOL64_RS21350 (KOL64_21615) 47874..49139 - 1266 WP_000621288 TrbC family F-type conjugative pilus assembly protein -
KOL64_RS21355 (KOL64_21620) 49102..49632 - 531 WP_001010738 S26 family signal peptidase -
KOL64_RS21360 (KOL64_21625) 49629..49946 - 318 WP_000351984 hypothetical protein -
KOL64_RS21365 (KOL64_21630) 49961..52408 - 2448 WP_000637386 type IV secretion system protein TraC virb4
KOL64_RS21370 (KOL64_21635) 52405..53112 - 708 WP_001259347 DsbC family protein -
KOL64_RS21375 (KOL64_21640) 53261..58792 - 5532 WP_000606833 Ig-like domain-containing protein -
KOL64_RS21380 (KOL64_21645) 58993..59385 - 393 WP_000479535 TraA family conjugative transfer protein -
KOL64_RS21385 (KOL64_21650) 59389..59967 - 579 WP_000793435 type IV conjugative transfer system lipoprotein TraV traV
KOL64_RS21390 (KOL64_21655) 59964..61277 - 1314 WP_024131605 TraB/VirB10 family protein -
KOL64_RS21395 (KOL64_21660) 61277..62194 - 918 WP_000794249 type-F conjugative transfer system secretin TraK -
KOL64_RS21400 (KOL64_21665) 62178..62804 - 627 WP_001049716 TraE/TraK family type IV conjugative transfer system protein traE
KOL64_RS21405 (KOL64_21670) 62801..63082 - 282 WP_000805625 type IV conjugative transfer system protein TraL -
KOL64_RS21410 (KOL64_21675) 63227..63592 - 366 WP_001052531 hypothetical protein -
KOL64_RS21415 (KOL64_21680) 63604..63747 - 144 WP_001275801 hypothetical protein -
KOL64_RS21420 (KOL64_21685) 63928..64590 - 663 WP_001231463 hypothetical protein -
KOL64_RS21425 (KOL64_21690) 64590..64967 - 378 WP_000869261 hypothetical protein -
KOL64_RS22555 65209..65385 - 177 WP_169342285 hypothetical protein -
KOL64_RS21435 (KOL64_21700) 65433..66062 - 630 WP_000743450 DUF4400 domain-containing protein tfc7
KOL64_RS22560 66019..66564 - 546 WP_000228720 hypothetical protein -
KOL64_RS21440 (KOL64_21705) 66614..68479 - 1866 WP_000178856 conjugative transfer system coupling protein TraD virb4
KOL64_RS21445 (KOL64_21710) 68476..71454 - 2979 WP_001337757 MobH family relaxase -
KOL64_RS21450 (KOL64_21715) 71622..72239 + 618 WP_001249396 hypothetical protein -
KOL64_RS21455 (KOL64_21720) 72221..72454 + 234 WP_001191892 hypothetical protein -

Host bacterium

ID   13817 GenBank   NZ_CP123370
Plasmid name   p15758C_98 Incompatibility group   -
Plasmid size   97908 bp Coordinate of oriT [Strand]   66413..66563 [-]
Host baterium   Providencia rettgeri strain PreM15758

Cargo genes

Drug resistance gene   mph(E), msr(E), sul2, aph(3'')-Ib, aph(6)-Id, tet(A), floR
Virulence gene   -
Metal resistance gene   -
Degradation gene   -
Symbiosis gene   -
Anti-CRISPR   -