Detailed information of oriT

oriT

The information of the oriT region


oriTDB ID   102898
Name   oriT_pSE92-0392 in_silico
Organism   Salmonella enterica subsp. enterica serovar Enteritidis strain 92-0392
Sequence Completeness      -
NCBI accession of oriT (coordinates [strand])   NZ_CP018658 (59575..59844 [-], 270 nt)
oriT length   270 nt
IRs (inverted repeats)      245..253, 262..270  (CACCCCTGG..CCAGGGGTG)
 92..98, 111..117  (ATTTAAT..ATTAAAT)
 103..108, 111..116  (TTTAAT..ATTAAA)
 33..38, 41..46  (AAAATT..AATTTT)
Location of nic site      _
Conserved sequence flanking the
  nic site    		  _
Note   Predicted by oriTfinder 2.0

  oriT sequence  


Download         Length: 270 nt

>oriT_pSE92-0392
GTCCTCACCACCAAAAGCACCACACCCCACGCAAAATTAAAATTTTTCTGATTTGTTTTTAGTAACAGTGAGTTATGTTCATAATAATGTAATTTAATTTATTTTAATGTATTAAATAGCGGTGCAGGCACGTCGCCGGCACCGCTATGACGACGCTATACAGGGGTAGTACTGACTATTTTTATAAAAAACATTGCATTATATCAGGGGCGCTGCTAGCGTCGCTGTGCCTGTTTTTAAGTAACACCCCTGGGGGCGCTGCCAGGGGTG

Visualization of oriT structure

  oriT secondary structure

Predicted by RNAfold.

Download structure file


Relaxase

ID   2176 GenBank   WP_022743192
Name   traI_BTN74_RS25755_pSE92-0392 insolico UniProt ID   A0A484WVL1
Length   1752 a.a. PDB ID   
Note   Predicted by oriTfinder 2.0

  Relaxase protein sequence


Download         Length: 1752 a.a.        Molecular weight: 191680.70 Da        Isoelectric Point: 5.9879

>WP_022743192.1 conjugative transfer relaxase/helicase TraI [Salmonella enterica]
MMSIAQVRSAGSAAGYYSDRDNYYVLGSMEERWAGKGAEQLGLQGTVDKEVFTRVLEGRLPDGADLSRQQ
DGGNKHRPGYDLTFSAPKSVSLMAMLAGDKRLTEAHNQAVDIAVRQVEALASTRVMTDGQSETVLTGNLV
MALFNHDTSRDQEPQLHTHAVVVNVTQHDGEWKTLSSDKVGKTGFIENVYANQIAFGKIYRAVLKEKVEA
LGYETEVVGKHGMWEMPGVPVEAFSSRSQAIREAVGEDASLKSRDVAALDTRKSKQHVDPEVKMAEWMQT
LKDTGFDISAYRESADRRAEIQAAQPVPSQEQPDIQQAVTQAIAGLSDRKVQFTYTDVLARTVGMLPPEA
GVIEKARAGIDEAISREQLIPLDREKGLFTSGIHVLDELSVRALSSDIMKQNRVTVHPEKSVPRTGSYSD
AVSVLAQDRPSLAIISGQGGAAGQRERVAELTMMAREQGREVQIIVADRRSQTNLKQDERLSGELITGRR
QLQEGMLFSPGSTVIVDQGEKLSLKETLTLLDGAARHNVQVLITDSGQRTGTGSALMAMKEAGVNSYRWQ
GRQQTPATVISEPDRNVRYARLAGDFVAAVKAGEESVAQVSGMREQAILAGMIRSELKTQGILGQQDTMM
TALSPVWLDSRNRYLRDMYREGMVMEQWNPEKRSHDRYVIDRVTAQSHSLTLRDAQGETQMVRISALDSS
WSLFRPEKMPVADGERLMVTGKIPGLRVSVGDRLQVSAVNDGVMTVTVPGRAEPASLPVGDSPFTALKLE
NGWVETPGHSVSDSAKVFASVTQMAMDNATLNSLARSGRDVRLYSSLDETRTAEKLSRHPSFTVVSEQIK
ARAGEVSLETAISRQKAGLHTPAQQAIHLALPVVESKNLAFSQVDLLTEAKSFAAEGTGFADLGREIDAQ
IKRGDLLYVDVAKGYGTDLLISRASYDAEKSILHHILEGKEAVTPLMERVPGELMETLTSGQRAATRMIL
ETKDRFTVVQGYAGVGKTTQFRAVMSAVNLLPESERPRVVGLGPTHRAVGEMRSAGVEAQTLASFLHDTQ
LQQRSGETPDFSNTLFLLDESSMVGNTDMARAYALIAAGGGRAVASGDTDQLQAIAPGQPFRLQQTRSAA
DVAIMKEIVRQTPELRDAVYSLINRDVNKALSGLENVKPVQVPRLKGAWAPENSVTEFSRLQERELAKAA
QEAEKKGEAFPDVPVTLYEAIVRDYTGRTPEAREQTLIVTHLNEDRRVLNSMIQDALAKPGEQQVTVPVL
TTANIRDGELRRLSTWEAHPGALALVDNVYHRIAGISKEDGLITLEDKAGNTRLISPREAAAEGVTLYNP
ETIRVGAGDRMRFTKSDRERGYVANSVWTVTAVSGDSVTLSDGKQTRVVRPGQDRAEQHIDLAYAITAHS
AQGASETFAIALEGTEGGRKQMAGFESAYVALSRMKQHVQVYTDDRQGWVKAINSAEQKGTAHDVLEPKS
EREMKNAERLFSTARELRDVAAGRAVLRNAGLAQGDSRARFIAPGRKYPQPYVALPAFDRNGKSAGIWLN
PLTTDDGAGLRGFTGEGRVKGSEEAQFVALQGSRNGESLLAGSMQDGVRIARENPDSGVVVRIVGDGRPW
NPVAITGGRVWGDIPDSNVQPGAGNGEPVTAEILAQRQAEEAVRRETERRADEIVRKMAEDKSDLPEEKT
AQAVREIAGQEQDRMTPPEREPPLPESVLREPQRERETIREVARENRGRERLQQMEQEMVRDLQKEKTPG
GD

  Protein domains


Predicted by InterproScan.

AAA domain (AAA_30)

(967-1158)

DNA relaxase TraI 2B/2B-like domain (TraI_2B)

(632-711)

single-stranded DNA binding TraI N-terminal subdomain (ssDNA_TraI_N)

(574-626)

TrwC relaxase (TrwC)

(11-282)

DNA helicase TraI (TraI_C)

(1430-1553)


  Protein structure



No available structure.




Auxiliary protein

ID   884 GenBank   WP_001676655
Name   WP_001676655_pSE92-0392 insolico UniProt ID   H3JT82
Length   75 a.a. PDB ID   _
Note   Predicted by oriTfinder 2.0

  Auxiliary protein sequence


Download         Length: 75 a.a.        Molecular weight: 9147.26 Da        Isoelectric Point: 9.6183

>WP_001676655.1 MULTISPECIES: conjugal transfer relaxosome protein TraY [Salmonella]
MRRRNAREGISRTVSVYLDEDTNNRLIRAKDRSGRSKTIEVQIRLRDHLKRYPDFYNEEIFREVIEETES
TFKEI

  Protein domains


Predicted by InterproScan.

TraY domain (TraY)

(14-61)


  Protein structure


Source ID Structure
AlphaFold DB H3JT82

ID   885 GenBank   WP_001151546
Name   WP_001151546_pSE92-0392 insolico UniProt ID   Q93GP1
Length   126 a.a. PDB ID   _
Note   Predicted by oriTfinder 2.0

  Auxiliary protein sequence


Download         Length: 126 a.a.        Molecular weight: 14366.30 Da        Isoelectric Point: 5.7236

>WP_001151546.1 MULTISPECIES: conjugal transfer relaxosome DNA-binding protein TraM [Salmonella]
MAKVNVYISNEVHNKITAIVEKRRQEGARDKDISFSGTSSMLLELGLRVYEAQMERKESPFNQTEFNKVL
LENVLKTQSSVAKILGIGSLSPHVAGNPKFEYANMVEDIKEKVSSEMERFFHENEE

  Protein domains


Predicted by InterproScan.

TraM protein, DNA-binding (Tra_M)

(1-126)


  Protein structure


Source ID Structure
AlphaFold DB Q93GP1


T4CP

ID   1848 GenBank   WP_000793310
Name   traC_BTN74_RS25850_pSE92-0392 insolico UniProt ID   _
Length   882 a.a. PDB ID   _
Note   Predicted by oriTfinder 2.0

  T4CP protein sequence


Download         Length: 882 a.a.        Molecular weight: 100382.20 Da        Isoelectric Point: 6.9316

>WP_000793310.1 MULTISPECIES: type IV secretion system protein TraC [Salmonella]
MKNLLDTVTQAANSLLTALKLPDESAQANQILGEMSFPQFSRLLPYRDYNQESGLFMNDATMGFMLEATP
VNGANETIALSLDHLLRTKLPRGIPLCVHLMSSQLVGERIEYGLRKFSWSGEQAERFNAITRAYYMKAAE
THFPLPEGMNLPLTLRHYRVFISYCAPSRKKSRADILEMENLVKIIRASLQGAYISTQTVDAKAFINIVG
EMINHNPESIHPTRRRLDPYSDLNYQCVDDSFDLKVRQDYLTLGLRDNGKNSTARIMSFHLARNPEIAFL
WNSADNYSNLLNPELSISCPFILTLTLVVEDQVKTHSEANLKYMDLEKKSKTSYAKWFPSVEKEAKEWGD
LRQRLASNQSSVVSYFFNITAFCRDNKETALETEQDILNSFRKNGFELISPRFNHMRNFLACLPFMAGKG
LFKQLKEAGVVQRAESFNVTNLMPLVADNPLTPAGLLAPTYRNQLAFIDIFFRGMNNTNYNMAVCGTSGA
GKTGLIQPLIRSVLDSGGFAVVFDMGDGYKSLCENMGGVYLDGETLRFNPFANITNIDQSAERIRDQLSV
MASPNGNLDEVHEGLLLQAVRAAWLTKKNRARIDDVVDFLENARTSEQYAESPGIRSRLDEMIVLLNQYT
AAGTYGRYFNSDEPSLRDDARMVVLELGGLEDRPSLLVAVMFSLIIYIENRMYRTPRNLKKLNVIDEGWR
LLDFKNRKVGDFIEKGYRTARRHTGAYITITQNIVDFDSDKASSAARAAWGNSSYKIILKQSAKEFAKYN
QLYPDQFPQLHREMIEKFGAAKDQWFSSFLLQVENHSSWHRLFVDPLSRAMYSSDGPDFEFVQQKRKEGL
SIHEAVWQLAWKKSGPEMASLEAWLQEHETFRGTYEYKAETD

  Protein domains


Predicted by InterproScan.

Family of unknown function (DUF5934) (DUF5934)

(289-446)

TraG P-loop domain (P-loop_TraG)

(468-763)

TraC protein (TraC_F_IV)

(38-276)

  Protein structure



No available structure.




T4SS

T4SS were predicted by using oriTfinder2.

Region 1: 37844..60385

Locus tag Coordinates Strand Size (bp) Protein ID Product Description
BTN74_RS25760 (BTN74_25630) 33296..33523 + 228 WP_000450265 toxin-antitoxin system antitoxin VapB -
BTN74_RS25765 (BTN74_25635) 33523..33921 + 399 WP_000911322 type II toxin-antitoxin system VapC family toxin -
BTN74_RS25770 (BTN74_25640) 33930..36190 - 2261 Protein_45 type IV conjugative transfer system coupling protein TraD -
BTN74_RS25775 (BTN74_25645) 36567..37298 - 732 WP_022743186 conjugal transfer complement resistance protein TraT -
BTN74_RS25780 (BTN74_25650) 37334..37828 - 495 WP_010999946 entry exclusion protein -
BTN74_RS25785 (BTN74_25655) 37844..40666 - 2823 WP_001007086 conjugal transfer mating-pair stabilization protein TraG traG
BTN74_RS25790 (BTN74_25660) 40663..42045 - 1383 WP_001161719 conjugal transfer pilus assembly protein TraH traH
BTN74_RS25795 (BTN74_25665) 42035..42583 - 549 WP_022743183 type-F conjugative transfer system pilin assembly thiol-disulfide isomerase TrbB traF
BTN74_RS25800 (BTN74_25670) 42570..42863 - 294 WP_001233881 type-F conjugative transfer system pilin chaperone TraQ -
BTN74_RS25805 (BTN74_25675) 43077..43826 - 750 WP_001226854 type-F conjugative transfer system pilin assembly protein TraF traF
BTN74_RS25810 (BTN74_25680) 43838..44053 - 216 WP_000700023 conjugal transfer protein TrbE -
BTN74_RS25815 (BTN74_25685) 44064..45890 - 1827 WP_000827528 type-F conjugative transfer system mating-pair stabilization protein TraN traN
BTN74_RS25820 (BTN74_25690) 45887..46306 - 420 WP_001229397 HNH endonuclease signature motif containing protein -
BTN74_RS25825 (BTN74_25695) 46343..46981 - 639 WP_000554823 type-F conjugative transfer system pilin assembly protein TrbC trbC
BTN74_RS25830 (BTN74_25700) 46966..47274 - 309 WP_010999945 hypothetical protein -
BTN74_RS25835 (BTN74_25705) 47293..48285 - 993 WP_000833320 conjugal transfer pilus assembly protein TraU traU
BTN74_RS25840 (BTN74_25710) 48282..48914 - 633 WP_000871995 type-F conjugative transfer system protein TraW traW
BTN74_RS25845 (BTN74_25715) 48911..49297 - 387 WP_000105164 type-F conjugative transfer system protein TrbI -
BTN74_RS25850 (BTN74_25720) 49272..51920 - 2649 WP_000793310 type IV secretion system protein TraC virb4
BTN74_RS25855 (BTN74_25725) 51936..52199 - 264 WP_001239256 hypothetical protein -
BTN74_RS25860 (BTN74_25730) 52316..52783 - 468 WP_000549562 hypothetical protein -
BTN74_RS25865 (BTN74_25735) 52776..52997 - 222 WP_001278699 conjugal transfer protein TraR -
BTN74_RS25870 (BTN74_25740) 53132..53647 - 516 WP_001079995 type IV conjugative transfer system lipoprotein TraV traV
BTN74_RS25875 (BTN74_25745) 53644..53889 - 246 WP_010999944 DUF2689 domain-containing protein virb4
BTN74_RS25880 (BTN74_25750) 53867..54463 - 597 WP_000527896 conjugal transfer pilus-stabilizing protein TraP -
BTN74_RS25885 (BTN74_25755) 54453..55874 - 1422 WP_000146700 F-type conjugal transfer pilus assembly protein TraB traB
BTN74_RS25890 (BTN74_25760) 55874..56614 - 741 WP_001230719 type-F conjugative transfer system secretin TraK traK
BTN74_RS25895 (BTN74_25765) 56601..57167 - 567 WP_000399768 type IV conjugative transfer system protein TraE traE
BTN74_RS25900 (BTN74_25770) 57189..57500 - 312 WP_000012129 type IV conjugative transfer system protein TraL traL
BTN74_RS25905 (BTN74_25775) 57515..57877 - 363 WP_001274201 type IV conjugative transfer system pilin TraA -
BTN74_RS25910 (BTN74_25780) 57919..58146 - 228 WP_001676655 conjugal transfer relaxosome protein TraY -
BTN74_RS25915 (BTN74_25785) 58241..58927 - 687 WP_000336297 PAS domain-containing protein -
BTN74_RS25920 (BTN74_25790) 59120..59500 - 381 WP_001151546 conjugal transfer relaxosome DNA-binding protein TraM -
BTN74_RS25930 (BTN74_25800) 59915..60385 + 471 WP_001526856 transglycosylase SLT domain-containing protein virB1
BTN74_RS26445 60696..61514 - 819 Protein_77 DUF932 domain-containing protein -
BTN74_RS26450 61617..61775 - 159 WP_001704449 hypothetical protein -
BTN74_RS26730 61861..61989 - 129 WP_000372429 hypothetical protein -
BTN74_RS25940 (BTN74_25820) 62024..62761 - 738 WP_000581933 plasmid SOS inhibition protein A -
BTN74_RS25945 (BTN74_25825) 62758..63192 - 435 WP_010999943 conjugation system SOS inhibitor PsiB -
BTN74_RS25950 (BTN74_25830) 63232..65229 - 1998 WP_000117513 ParB/RepB/Spo0J family partition protein -

Host bacterium

ID   3341 GenBank   NZ_CP018658
Plasmid name   pSE92-0392 Incompatibility group   IncFIB
Plasmid size   94039 bp Coordinate of oriT [Strand]   59575..59844 [-]
Host baterium   Salmonella enterica subsp. enterica serovar Enteritidis strain 92-0392

Cargo genes

Drug resistance gene   -
Virulence gene   pefB, pefA, pefC, pefD, rck, spvB, spvC
Metal resistance gene   -
Degradation gene   -
Symbiosis gene   -
Anti-CRISPR   -