Detailed information of oriT

oriT

The information of the oriT region


oriTDB ID   100468
Name   oriT_pSH696_135 in_silico
Organism   Salmonella enterica subsp. enterica serovar Heidelberg
Sequence Completeness      intact
NCBI accession of oriT (coordinates [strand])   NC_019118 (52905..53455 [+], 551 nt)
oriT length   551 nt
IRs (inverted repeats)      IR1: 62..70, 71..79  (AACCCTTTC..GACAGGGTT)
  IR2: 143..150, 154..161  (TGGCCTGC..GGAGGCCA)
Location of nic site      _
Conserved sequence flanking the
  nic site    		  _
Note   predicted by the oriTfinder

  oriT sequence  


Download         Length: 551 nt

>oriT_pSH696_135
TGTAAAGAGGCTGTGAAAGAATAAGAGCATCAAGATTCCAGATAGATAGAGGGAAATTTGACAAATTCCAAAGATGGGTTAGCCTAGTGACAGAACTAGATTCCAGTATTGGAATAATCAGCTTTAAATTCCAGATAGATAGTTATGTGGATAGGAATTGGATAGGAATTGGGAGGGTATTGAGG

Visualization of oriT structure

  oriT secondary structure

Predicted by RNAfold.

Download structure file


Relaxase

ID   539 GenBank   YP_006956648
Name   TraI_pSH696_135 insolico UniProt ID   H9TK29
Length   990 a.a. PDB ID   
Note   putative relaxase

  Relaxase protein sequence


Download         Length: 990 a.a.        Molecular weight: 109356.90 Da        Isoelectric Point: 4.9395

>YP_006956648.1 Conjugative transfer protein TraI, relaxase (plasmid) [Salmonella enterica subsp. enterica serovar Heidelberg]
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 H9TK29


T4SS

T4SS were predicted by using oriTfinder2.

Region 1: 51039..62470

Locus tag Coordinates Strand Size (bp) Protein ID Product Description
HS867_RS00365 (pSH696_135_71) 47070..47303 - 234 WP_001191890 hypothetical protein -
HS867_RS00370 (pSH696_135_72) 47285..47902 - 618 WP_001249395 hypothetical protein -
HS867_RS00375 (pSH696_135_73) 48070..51042 + 2973 WP_001326173 MobH family relaxase -
HS867_RS00380 (pSH696_135_74) 51039..52904 + 1866 WP_000178857 conjugative transfer system coupling protein TraD virb4
HS867_RS00385 (pSH696_135_75) 52915..53499 + 585 WP_000332868 hypothetical protein -
HS867_RS00390 (pSH696_135_76) 53456..54085 + 630 WP_000743449 DUF4400 domain-containing protein tfc7
HS867_RS00395 54095..54541 + 447 WP_000122507 hypothetical protein -
HS867_RS00400 (pSH696_135_79) 54551..54928 + 378 WP_000869297 hypothetical protein -
HS867_RS00405 (pSH696_135_80) 54928..55590 + 663 WP_001231464 hypothetical protein -
HS867_RS00410 (pSH696_135_81) 55771..55914 + 144 WP_001275801 hypothetical protein -
HS867_RS00415 (pSH696_135_82) 55914..56291 + 378 WP_001326174 hypothetical protein -
HS867_RS00420 (pSH696_135_83) 56436..56717 + 282 WP_000805625 type IV conjugative transfer system protein TraL traL
HS867_RS00425 (pSH696_135_84) 56714..57340 + 627 WP_001049717 TraE/TraK family type IV conjugative transfer system protein traE
HS867_RS00430 (pSH696_135_85) 57324..58241 + 918 WP_000794249 type-F conjugative transfer system secretin TraK traK
HS867_RS00435 (pSH696_135_86) 58241..59554 + 1314 WP_024131605 TraB/VirB10 family protein traB
HS867_RS00440 (pSH696_135_87) 59551..60129 + 579 WP_000793435 type IV conjugative transfer system lipoprotein TraV traV
HS867_RS00445 (pSH696_135_88) 60133..60525 + 393 WP_000479535 TraA family conjugative transfer protein -
HS867_RS00450 (pSH696_135_89) 60809..61769 + 961 Protein_90 IS1380-like element ISEcp1 family transposase -
HS867_RS00455 (pSH696_135_90) 61763..62470 - 708 WP_000637385 conjugal transfer protein TraC virb4
HS867_RS00460 (pSH696_135_91) 62467..63174 - 708 WP_001259346 DsbC family protein -

Host bacterium

ID   929 GenBank   NC_019118
Plasmid name   pSH696_135 Incompatibility group   IncA/C2
Plasmid size   135423 bp Coordinate of oriT [Strand]   52905..53455 [+]
Host baterium   Salmonella enterica subsp. enterica serovar Heidelberg

Cargo genes

Drug resistance gene   floR, tet(A), aph(6)-Id, aph(3'')-Ib, sul2, blaCMY-2, blaTEM-1B, qacE, cmlA1, ant(2'')-Ia
Virulence gene   -
Metal resistance gene   merE, merD, merB, merA, merP, merT, merR
Degradation gene   -
Symbiosis gene   -
Anti-CRISPR   -