Detailed information of oriT

oriT


The information of the oriT region


oriTDB ID   105555
Name   oriT_pSNE1-1924 in_silico
Organism   Salmonella enterica subsp. enterica serovar Newport str. USDA-ARS-USMARC-1924
Sequence Completeness      -
NCBI accession of oriT (coordinates [strand])   NZ_CP025231 (51294..51444 [+], 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_pSNE1-1924
TGGTCGATGTGAACCCTTTCGACAGGGTTATGAATGAATTGAAAAGTCGTGGCCGCAAGAACGCTCACATCCTGAGCATCCTCCAATTCGACTGGCCTGCATCGGAGGCCATCATCGAGAAGCTGAGCTGCTACATCACAGACGGGATTAA

Visualization of oriT structure

  oriT secondary structure

Predicted by RNAfold.

Download structure file


Relaxase


ID   3784 GenBank   WP_001326173
Name   mobH_AW80_RS24930_pSNE1-1924 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.

(51-357)


  Protein structure


Source ID Structure
AlphaFold DB F5BPR1


T4CP


ID   3777 GenBank   WP_000178857
Name   traD_AW80_RS24935_pSNE1-1924 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.

(170-299)

(471-598)

  Protein structure



No available structure.



ID   3778 GenBank   WP_000637384
Name   traC_AW80_RS25080_pSNE1-1924 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.

(284-434)

(21-255)

(449-809)

  Protein structure



No available structure.




T4SS


T4SS were predicted by using oriTfinder2.

Region 1: 49378..60698

Locus tag Coordinates Strand Size (bp) Protein ID Product Description
AW80_RS24920 (AW80_25475) 45409..45642 - 234 WP_001191890 hypothetical protein -
AW80_RS24925 (AW80_25480) 45624..46241 - 618 WP_001249395 hypothetical protein -
AW80_RS24930 (AW80_25485) 46409..49381 + 2973 WP_001326173 MobH family relaxase -
AW80_RS24935 (AW80_25490) 49378..51243 + 1866 WP_000178857 conjugative transfer system coupling protein TraD virb4
AW80_RS24940 (AW80_25495) 51293..51838 + 546 WP_000228720 hypothetical protein -
AW80_RS24945 (AW80_25500) 51795..52424 + 630 WP_000743449 DUF4400 domain-containing protein tfc7
AW80_RS24950 (AW80_25505) 52434..52880 + 447 WP_000122507 hypothetical protein -
AW80_RS24955 (AW80_25510) 52890..53267 + 378 WP_000869297 hypothetical protein -
AW80_RS24960 (AW80_25515) 53267..53929 + 663 WP_001231464 hypothetical protein -
AW80_RS24965 (AW80_25520) 54265..54630 + 366 WP_001052530 hypothetical protein -
AW80_RS24970 (AW80_25525) 54775..55056 + 282 WP_000805625 type IV conjugative transfer system protein TraL traL
AW80_RS24975 (AW80_25530) 55053..55679 + 627 WP_001049717 TraE/TraK family type IV conjugative transfer system protein traE
AW80_RS24980 (AW80_25535) 55663..56580 + 918 WP_000794249 type-F conjugative transfer system secretin TraK traK
AW80_RS24985 (AW80_25540) 56580..57893 + 1314 WP_024131605 TraB/VirB10 family protein traB
AW80_RS24990 (AW80_25545) 57890..58468 + 579 WP_000793435 type IV conjugative transfer system lipoprotein TraV traV
AW80_RS24995 (AW80_25550) 58472..58864 + 393 WP_000479535 TraA family conjugative transfer protein -
AW80_RS25000 (AW80_25555) 59149..60108 + 960 Protein_83 IS1380-like element ISEcp1 family transposase -
AW80_RS25005 (AW80_25560) 60102..60809 - 708 WP_000637385 conjugal transfer protein TraC -
AW80_RS25010 (AW80_25565) 60806..61513 - 708 WP_001259346 DsbC family protein -


Host bacterium


ID   5993 GenBank   NZ_CP025231
Plasmid name   pSNE1-1924 Incompatibility group   IncA/C2
Plasmid size   158213 bp Coordinate of oriT [Strand]   51294..51444 [+]
Host baterium   Salmonella enterica subsp. enterica serovar Newport str. USDA-ARS-USMARC-1924

Cargo genes


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