Detailed information of oriT

oriT

The information of the oriT region


oriTDB ID   107946
Name   oriT_AR_0082|unnamed in_silico
Organism   Providencia rettgeri strain AR_0082
Sequence Completeness      -
NCBI accession of oriT (coordinates [strand])   NZ_CP029737 (78065..78215 [-], 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_AR_0082|unnamed
TGGTCGATGTGAACCCTTTCGACAGGGTTATGAATGAATTGAAAAGTCGTGGCCGCAAGAACGCTCACATCCTGAGCATCCTCCAATTCGACTGGCCTGCATCGGAGGCCATCATCGAGAAGCTGAGCTGCTACATCACAGACGGGATTAA

Visualization of oriT structure

  oriT secondary structure

Predicted by RNAfold.

Download structure file


Relaxase

ID   5333 GenBank   WP_052686861
Name   mobH_AM461_RS20405_AR_0082|unnamed 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   5603 GenBank   WP_000637384
Name   traC_AM461_RS20325_AR_0082|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   5604 GenBank   WP_000178857
Name   traD_AM461_RS20400_AR_0082|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: 54988..80131

Locus tag Coordinates Strand Size (bp) Protein ID Product Description
AM461_RS20265 (AM461_20265) 50114..51022 - 909 WP_000739139 hypothetical protein -
AM461_RS20270 (AM461_20270) 51033..52001 - 969 WP_000085160 AAA family ATPase -
AM461_RS20275 (AM461_20275) 52221..52406 - 186 WP_001186917 hypothetical protein -
AM461_RS20280 (AM461_20280) 52710..53030 - 321 WP_000547566 hypothetical protein -
AM461_RS20285 (AM461_20285) 53325..53966 + 642 WP_000796664 hypothetical protein -
AM461_RS20290 (AM461_20290) 54308..54949 + 642 WP_223854615 hypothetical protein -
AM461_RS20295 (AM461_20295) 54988..57783 - 2796 WP_001256484 conjugal transfer mating pair stabilization protein TraN -
AM461_RS20300 (AM461_20300) 57899..58903 - 1005 WP_005507569 TraU family protein traU
AM461_RS20305 (AM461_20305) 58903..59574 - 672 WP_000575345 EAL domain-containing protein -
AM461_RS20310 (AM461_20310) 59571..60836 - 1266 WP_001447719 TrbC family F-type conjugative pilus assembly protein traW
AM461_RS20315 (AM461_20315) 60799..61329 - 531 WP_001010740 S26 family signal peptidase -
AM461_RS20320 (AM461_20320) 61326..61643 - 318 WP_000351984 hypothetical protein -
AM461_RS20325 (AM461_20325) 61658..64105 - 2448 WP_000637384 type IV secretion system protein TraC virb4
AM461_RS20330 (AM461_20330) 64102..64809 - 708 WP_001259346 DsbC family protein -
AM461_RS20335 (AM461_20335) 64958..70444 - 5487 WP_000606835 Ig-like domain-containing protein -
AM461_RS20340 (AM461_20340) 70645..71037 - 393 WP_000479535 TraA family conjugative transfer protein -
AM461_RS20345 (AM461_20345) 71041..71619 - 579 WP_000793435 type IV conjugative transfer system lipoprotein TraV traV
AM461_RS20350 (AM461_20350) 71616..72929 - 1314 WP_024131605 TraB/VirB10 family protein traB
AM461_RS20355 (AM461_20355) 72929..73846 - 918 WP_000794249 type-F conjugative transfer system secretin TraK -
AM461_RS20360 (AM461_20360) 73830..74456 - 627 WP_001049717 TraE/TraK family type IV conjugative transfer system protein traE
AM461_RS20365 (AM461_20365) 74453..74734 - 282 WP_000805625 type IV conjugative transfer system protein TraL traL
AM461_RS20370 (AM461_20370) 74879..75244 - 366 WP_001052530 hypothetical protein -
AM461_RS21085 75256..75399 - 144 WP_001275801 hypothetical protein -
AM461_RS20375 (AM461_20375) 75580..76242 - 663 WP_001231464 hypothetical protein -
AM461_RS20380 (AM461_20380) 76242..76619 - 378 WP_000869297 hypothetical protein -
AM461_RS21640 76861..77037 - 177 WP_169342285 hypothetical protein -
AM461_RS20390 (AM461_20390) 77085..77714 - 630 WP_000743449 DUF4400 domain-containing protein tfc7
AM461_RS21645 (AM461_20395) 77671..78216 - 546 WP_000228720 hypothetical protein -
AM461_RS20400 (AM461_20400) 78266..80131 - 1866 WP_000178857 conjugative transfer system coupling protein TraD virb4
AM461_RS20405 (AM461_20405) 80128..83100 - 2973 WP_052686861 MobH family relaxase -
AM461_RS20410 (AM461_20410) 83268..83885 + 618 WP_001249395 hypothetical protein -
AM461_RS20415 (AM461_20415) 83867..84100 + 234 WP_001191890 hypothetical protein -

Host bacterium

ID   8381 GenBank   NZ_CP029737
Plasmid name   AR_0082|unnamed Incompatibility group   IncA/C2
Plasmid size   144970 bp Coordinate of oriT [Strand]   78065..78215 [-]
Host baterium   Providencia rettgeri strain AR_0082

Cargo genes

Drug resistance gene   blaNDM-1, sul1, qacE, aadA2, dfrA12
Virulence gene   htpB
Metal resistance gene   -
Degradation gene   -
Symbiosis gene   -
Anti-CRISPR   -