Detailed information of oriT

oriT

The information of the oriT region


oriTDB ID   102020
Name   oriT_SN0033_100|punknown2 in_silico
Organism   Salmonella enterica subsp. enterica serovar Newport strain SN0033_100
Sequence Completeness      -
NCBI accession of oriT (coordinates [strand])   NZ_MBOV01000005 (7646..7796 [-], 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_SN0033_100|punknown2
TGGTCGATGTGAACCCTTTCGACAGGGTTATGAATGAATTGAAAAGTCGTGGCCGCAAGAACGCTCACATCCTGAGCATCCTCCAATTCGACTGGCCTGCATCGGAGGCCATCATCGAGAAGCTGAGCTGCTACATCACAGACGGGATTAA

Visualization of oriT structure

  oriT secondary structure

Predicted by RNAfold.

Download structure file


Relaxase

ID   1612 GenBank   WP_001326173
Name   mobH_BA754_RS07845_SN0033_100|punknown2 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   1266 GenBank   WP_000178857
Name   traD_BA754_RS07840_SN0033_100|punknown2 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: 622..9712

Locus tag Coordinates Strand Size (bp) Protein ID Product Description
BA754_RS07780 (BA754_22570) 226..618 - 393 WP_000479535 TraA family conjugative transfer protein -
BA754_RS07785 (BA754_22575) 622..1200 - 579 WP_000793435 type IV conjugative transfer system lipoprotein TraV traV
BA754_RS07790 (BA754_22580) 1197..2510 - 1314 WP_024131605 TraB/VirB10 family protein traB
BA754_RS07795 (BA754_22585) 2510..3427 - 918 WP_000794249 type-F conjugative transfer system secretin TraK traK
BA754_RS07800 (BA754_22590) 3411..4037 - 627 WP_001049717 TraE/TraK family type IV conjugative transfer system protein traE
BA754_RS07805 (BA754_22595) 4034..4315 - 282 WP_000805625 type IV conjugative transfer system protein TraL traL
BA754_RS07810 (BA754_22600) 4460..4825 - 366 WP_001052530 hypothetical protein -
BA754_RS07815 (BA754_22605) 5161..5823 - 663 WP_001231464 hypothetical protein -
BA754_RS07820 (BA754_22610) 5823..6200 - 378 WP_000869297 hypothetical protein -
BA754_RS07825 (BA754_22615) 6210..6656 - 447 WP_000122507 hypothetical protein -
BA754_RS07830 (BA754_22620) 6666..7295 - 630 WP_000743449 DUF4400 domain-containing protein tfc7
BA754_RS07835 (BA754_22625) 7252..7797 - 546 WP_000228720 hypothetical protein -
BA754_RS07840 (BA754_22630) 7847..9712 - 1866 WP_000178857 conjugative transfer system coupling protein TraD virb4
BA754_RS07845 (BA754_22635) 9709..12681 - 2973 WP_001326173 MobH family relaxase -
BA754_RS07850 (BA754_22640) 12849..13466 + 618 WP_001249395 hypothetical protein -
BA754_RS07855 (BA754_22645) 13448..13681 + 234 WP_001191890 hypothetical protein -

Host bacterium

ID   2464 GenBank   NZ_MBOV01000005
Plasmid name   SN0033_100|punknown2 Incompatibility group   -
Plasmid size   38113 bp Coordinate of oriT [Strand]   7646..7796 [-]
Host baterium   Salmonella enterica subsp. enterica serovar Newport strain SN0033_100

Cargo genes

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