Detailed information of oriT

oriT

The information of the oriT region


oriTDB ID   113781
Name   oriT_pGMI17-002_1 in_silico
Organism   Salmonella enterica strain CFSAN064034
Sequence Completeness      -
NCBI accession of oriT (coordinates [strand])   NZ_CP028170 (113667..113817 [+], 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_pGMI17-002_1
TGGTCGATGTGAACCCTTTCGACAGGGTTATGAATGAATTGAAAAGTCGTGGCCGCAAGAACGCTCACATCCTGAGCATCCTCCAATTCGACTGGCCTGCATCGGAGGCCATCATCGAGAAGCTGAGCTGCTACATCACAGACGGGATTAA

Visualization of oriT structure

  oriT secondary structure

Predicted by RNAfold.

Download structure file


Relaxase

ID   8823 GenBank   WP_052686861
Name   mobH_C6648_RS26140_pGMI17-002_1 insolico UniProt ID   A0A722GY04
Length   990 a.a. PDB ID   
Note   Predicted by oriTfinder 2.0

  Relaxase protein sequence


Download         Length: 990 a.a.        Molecular weight: 109417.00 Da        Isoelectric Point: 4.9395

>WP_052686861.1 MULTISPECIES: MobH family relaxase [Gammaproteobacteria]
MLKALNKLFGGRSGVIETAPSVRVLPLKDVEDEEIPRYPPFAKGLPVAPLDKILATQAELIEKVRNSLGF
TVDDFNRLVLPVIQRYAAFVHLLPASESHHHRGAGGLFRHGLEVAFWAAQASESVIFSIEGTPRERRDNE
PRWRLASCFSGLLHDVGKPLSDVSITDKDGSITWNPYSESLHDWAHRHEIDRYFIRWRDKRHKRHEQFSL
LAVDRIIPAETREFLSKSGPSIMEAMLEAISGTSVNQPVTKLMLRADQESVSRDLRQSRLDVDEFSYGVP
VERYVFDAIRRLVKTGKWKVNEPGAKVWHLNQGVFIAWKQLGDLYDLISHDKIPGIPRDPDTLADILIER
GFAVPNTVQEKGERAYYRYWEVLPEMLQEAAGSVKILMLRLESNDLVFTTEPPAAVAAEVVGDVEDAEIE
FVDPEEVDDDQEEDVSALNDDMLAAEQEAEKALAGLGFGDAMEMLKSTSDAVEEKPEQKDAGSTESSKPD
AGKKGKPQSKPGKAKPKSDTEKQPHKPEAKEDLSPQDIAKNAPPLANDNPLQALKDVGGGLGDIDFPFDA
FSASAETASTDATNSEIPDVAMPGKQEKQPKQDFVPQEQNSLQGDDFPMFGSFDEPPSWAIEPLPMLTDA
PEQTTPAPAMPPTDKPNLHEKDAKTLLVEMLAGYGEASALLEQAIMPVLEGKTTLGEVLCLMKGQAVILY
PDGARSLGAPSEVLSKLSHANAIVPDPIMPGRKVRDFSGVKAIVLAEQLSDAVVAAIKDAEASMGGYQDA
FELVSPPGLDASKNKSAPKQQSRKKAQQQKPEVNAGKPSPEQKAKGKDSQPQQKEKKVDVTSPVEEPQRQ
PVQEKQNVARLPKREVQPVAPEPKVEREKELGHVEVREREEPEVREFEPPKAKTNPKDINAEDFLPSGVT
PQKALQMLKDMIQKRSGRWLVTPVLEEDGCLVTSDKAFDMIAGENIGISKHILCGMLSRAQRRPLLKKRQ
GKLYLEVNET

  Protein domains


Predicted by InterproScan.

Putative helicase (TraI_2)

(51-357)


  Protein structure


Source ID Structure
AlphaFold DB A0A722GY04


T4CP

ID   10233 GenBank   WP_107238667
Name   traD_C6648_RS26145_pGMI17-002_1 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: 69226.65 Da        Isoelectric Point: 6.6492

>WP_107238667.1 conjugative transfer system coupling protein TraD [Salmonella enterica]
MTMSYDPLAYEMPWRPNYEKNAVAGWLAASGAALAVEQVSTMPPEPFYWMTGICGVMAMARLPKAIKLHL
LQKHLKGRDLEFISIAELQKYIKDTPDDMWLGSGFLWENRHAQRVFEILKRDWTSIVGRESTVKKVVRKI
QGKKKELPIGQPWIHGVEPKEEKLMQPLKHTEGHSLIVGTTGSGKTRMFDILISQAILRGEAVIIIDPKG
DKEMRDNARRACEAMGQPERFVSFHPAFPEESVRIDPLRNFTRVTEIASRLAALIPSEAGADPFKSFGWQ
ALNNIAQGLVITHDRPNLTKLRRFLEGGAAGLVIKAVQAYSERVMPDWEAEAAAYLEKVKNGSREKIAFA
LMKFYYDIIQPEHPNSDLEGLLSMFQHDQTHFSKMVANLLPIMNMLTSGELGPLLSPDSSDLSDERQITD
SAKIINNAQVAYLGLDSLTDNMVGSAMGSIFLSDLTAVAGDRYNYGVNNRPVNIFVDEAAEVINDPFIQL
LNKGRGAKLRLFVATQTFADFAARLGSEDKALQVLGNINNTFALRIVDGETQEYIADNLPKTRLKYVMRT
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.



ID   10234 GenBank   WP_000637384
Name   traC_C6648_RS26220_pGMI17-002_1 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.




T4SS

T4SS were predicted by using oriTfinder2.

Region 1: 111751..136894

Locus tag Coordinates Strand Size (bp) Protein ID Product Description
C6648_RS26130 (C6648_26105) 107782..108015 - 234 WP_001191890 hypothetical protein -
C6648_RS26135 (C6648_26110) 107997..108614 - 618 WP_001249395 hypothetical protein -
C6648_RS26140 (C6648_26115) 108782..111754 + 2973 WP_052686861 MobH family relaxase -
C6648_RS26145 (C6648_26120) 111751..113616 + 1866 WP_107238667 conjugative transfer system coupling protein TraD virb4
C6648_RS26150 (C6648_26125) 113666..114211 + 546 WP_000228720 hypothetical protein -
C6648_RS26155 (C6648_26130) 114168..114797 + 630 WP_000743449 DUF4400 domain-containing protein tfc7
C6648_RS26160 (C6648_26135) 114807..115253 + 447 WP_000122507 hypothetical protein -
C6648_RS26165 (C6648_26140) 115263..115640 + 378 WP_000869297 hypothetical protein -
C6648_RS26170 (C6648_26145) 115640..116302 + 663 WP_001231464 hypothetical protein -
C6648_RS26175 (C6648_26150) 116638..117003 + 366 WP_001052530 hypothetical protein -
C6648_RS26180 (C6648_26155) 117148..117429 + 282 WP_000805625 type IV conjugative transfer system protein TraL traL
C6648_RS26185 (C6648_26160) 117426..118052 + 627 WP_001049717 TraE/TraK family type IV conjugative transfer system protein traE
C6648_RS26190 (C6648_26165) 118036..118953 + 918 WP_000794249 type-F conjugative transfer system secretin TraK traK
C6648_RS26195 (C6648_26170) 118953..120266 + 1314 WP_024131605 TraB/VirB10 family protein traB
C6648_RS26200 (C6648_26175) 120263..120841 + 579 WP_000793435 type IV conjugative transfer system lipoprotein TraV traV
C6648_RS26205 (C6648_26180) 120845..121237 + 393 WP_000479535 TraA family conjugative transfer protein -
C6648_RS26210 (C6648_26185) 121438..126924 + 5487 WP_000606835 Ig-like domain-containing protein -
C6648_RS26215 (C6648_26190) 127073..127780 + 708 WP_001259346 DsbC family protein -
C6648_RS26220 (C6648_26195) 127777..130224 + 2448 WP_000637384 type IV secretion system protein TraC virb4
C6648_RS26225 (C6648_26200) 130239..130556 + 318 WP_000351984 hypothetical protein -
C6648_RS26230 (C6648_26205) 130553..131083 + 531 WP_001010740 S26 family signal peptidase -
C6648_RS26235 (C6648_26210) 131046..132311 + 1266 WP_001447719 TrbC family F-type conjugative pilus assembly protein traW
C6648_RS26240 (C6648_26215) 132308..132979 + 672 WP_000575345 EAL domain-containing protein -
C6648_RS26245 (C6648_26220) 132979..133983 + 1005 WP_005507569 TraU family protein traU
C6648_RS26250 (C6648_26225) 134099..136894 + 2796 WP_001256484 conjugal transfer mating pair stabilization protein TraN traN
C6648_RS26255 (C6648_26230) 136933..137793 - 861 WP_000709517 hypothetical protein -
C6648_RS26260 (C6648_26235) 137916..138557 - 642 WP_000796664 hypothetical protein -
C6648_RS26265 (C6648_26240) 138852..139172 + 321 WP_000547566 hypothetical protein -
C6648_RS26270 (C6648_26245) 139476..139661 + 186 WP_001186917 hypothetical protein -
C6648_RS26275 (C6648_26250) 139881..140849 + 969 WP_000085160 AAA family ATPase -
C6648_RS26280 (C6648_26255) 140860..141768 + 909 WP_000739139 hypothetical protein -

Host bacterium

ID   14216 GenBank   NZ_CP028170
Plasmid name   pGMI17-002_1 Incompatibility group   IncA/C2
Plasmid size   177712 bp Coordinate of oriT [Strand]   113667..113817 [+]
Host baterium   Salmonella enterica strain CFSAN064034

Cargo genes

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