Detailed information of oriT

oriT

The information of the oriT region


oriTDB ID   113982
Name   oriT_p14-1360-1 in_silico
Organism   Salmonella enterica subsp. enterica serovar Dublin strain 14-1360
Sequence Completeness      -
NCBI accession of oriT (coordinates [strand])   NZ_MK205418 (50754..50904 [+], 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_p14-1360-1
TGGTCGATGTGAACCCTTTCGACAGGGTTATGAATGAATTGAAAAGTCGTGGCCGCAAGAACGCTCACATCCTGAGCATCCTCCAATTCGACTGGCCTGCATCGGAGGCCATCATCGAGAAGCTGAGCTGCTACATCACAGACGGGATTAA

Visualization of oriT structure

  oriT secondary structure

Predicted by RNAfold.

Download structure file


Relaxase

ID   8980 GenBank   WP_001326173
Name   mobH_HTU80_RS00355_p14-1360-1 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   10417 GenBank   WP_077779971
Name   traD_HTU80_RS00360_p14-1360-1 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: 69253.76 Da        Isoelectric Point: 6.9403

>WP_077779971.1 MULTISPECIES: conjugative transfer system coupling protein TraD [Enterobacteriaceae]
MTMSYDPLAYEMPWRPNYEKNAVAGWLAASGAALAVEQVSTMPPEPFYWMTGICGVMAMARLPKAIKLHL
LQKHLKGRDLEFISIAELQKYIKDTPDDMWLGSGFLWENRHAQRVFEILKRDWTSIVGRESTVKKVVRKI
QGKKKELPIGQPWIHGVEPKEEKLMQPLKHTEGHSLIVGTTGSGKTRMFDILISQAILRGEAVIIIDPKG
DKEMRDNARRACEAMGQPERFVSFHPVFPEESVRIDPLRNFTRVTEIASRLAALIPSEAGADPFKSFGWQ
ALNNIAQGLVITHDRPNLTKLRRFLEGGAAGLVIKAVQAYSERVMPDWEAEAAAYLEKVKNGSREKIAFA
LMKFYYDIIQPEHPNSDLEGLLSMFQHDQTHFSKMVANLLPIMNMLTSGELGPLLSPDSSDLSDERQITD
SAKIINNAQVAYLGLDSLTDNMVGSAMGSIFLSDLTAVAGDRYNYGVNNRPVNIFVDEAAEVINDPFIQL
LNKGRGAKLRLFVATQTFADFAARLGSKDKALQVLGNINNTFALRIVDGETQEYIADNLPKTRLKYVMRT
QGQNSDGKEPIMHGGNQGERLMEEEADLFPAQLLGMLPNLEYIAKISGGTIVKGRLPILTQ

  Protein domains


Predicted by InterproScan.

Type IV secretion-system coupling protein DNA-binding domain (TrwB_AAD_bind)

(170-302)

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: 48838..57928

Locus tag Coordinates Strand Size (bp) Protein ID Product Description
HTU80_RS00345 44869..45102 - 234 WP_001191890 hypothetical protein -
HTU80_RS00350 45084..45701 - 618 WP_001249395 hypothetical protein -
HTU80_RS00355 45869..48841 + 2973 WP_001326173 MobH family relaxase -
HTU80_RS00360 48838..50703 + 1866 WP_077779971 conjugative transfer system coupling protein TraD virb4
HTU80_RS00365 50714..51298 + 585 WP_000332868 hypothetical protein -
HTU80_RS00370 51255..51884 + 630 WP_000743449 DUF4400 domain-containing protein tfc7
HTU80_RS00375 51894..52340 + 447 WP_000122507 hypothetical protein -
HTU80_RS00380 52350..52727 + 378 WP_000869297 hypothetical protein -
HTU80_RS00385 52727..53389 + 663 WP_001231464 hypothetical protein -
HTU80_RS00390 53713..54090 + 378 WP_001326174 hypothetical protein -
HTU80_RS00395 54235..54516 + 282 WP_000805625 type IV conjugative transfer system protein TraL traL
HTU80_RS00400 54513..55139 + 627 WP_001049717 TraE/TraK family type IV conjugative transfer system protein traE
HTU80_RS00405 55123..56040 + 918 WP_000794249 type-F conjugative transfer system secretin TraK traK
HTU80_RS00410 56040..57353 + 1314 WP_024131605 TraB/VirB10 family protein traB
HTU80_RS00415 57350..57928 + 579 WP_000793435 type IV conjugative transfer system lipoprotein TraV traV
HTU80_RS00420 57932..58324 + 393 WP_000479535 TraA family conjugative transfer protein -
HTU80_RS00425 58609..59871 + 1263 WP_000608644 IS1380-like element ISEcp1 family transposase -
HTU80_RS00430 60195..61340 + 1146 WP_000976514 extended-spectrum class C beta-lactamase CMY-2 -
HTU80_RS00435 61434..62015 + 582 WP_058663077 lipocalin family protein -
HTU80_RS00440 61961..62665 - 705 WP_001067855 IS6-like element IS26 family transposase -

Host bacterium

ID   14417 GenBank   NZ_MK205418
Plasmid name   p14-1360-1 Incompatibility group   IncA/C2
Plasmid size   101269 bp Coordinate of oriT [Strand]   50754..50904 [+]
Host baterium   Salmonella enterica subsp. enterica serovar Dublin strain 14-1360

Cargo genes

Drug resistance gene   floR, tet(A), aph(6)-Id, aph(3'')-Ib, sul2, blaCMY-2, blaTEM-1B
Virulence gene   -
Metal resistance gene   merE, merD, merB, merA, merP, merT, merR
Degradation gene   -
Symbiosis gene   -
Anti-CRISPR   -