Detailed information of oriT

oriT

The information of the oriT region


oriTDB ID   103940
Name   oriT_pST33-93798 in_silico
Organism   Salmonella enterica subsp. enterica serovar Typhimurium strain OLF-FSR1_WB_Hawk_ST-33
Sequence Completeness      -
NCBI accession of oriT (coordinates [strand])   NZ_CP051268 (40300..40568 [+], 269 nt)
oriT length   269 nt
IRs (inverted repeats)      247..252, 261..266  (CCCTGG..CCAGGG)
 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: 269 nt

>oriT_pST33-93798
GTCCTCACCACCAAAAGCACCACACCCCACGCAAAATTAAAATTTTTCTGATTTGTTTTTAGTAACAGTGAGTTATGTTCATAATAATGTAATTTAATTTATTTTAATGTATTAAATAGCGGTGCAGGCACGTCGCCGGCACCGCTATGACGACGCTATACAGGGGTAGTACTGACTATTTTTATAAAAAACATTGCATTATATCAGGGGCGCTGCTAGCGTCGCTGTGCCTGTTTTTAAGTAACACCCTGGGGGCGCTGCCAGGGGTG

Visualization of oriT structure

  oriT secondary structure

Predicted by RNAfold.

Download structure file


Relaxase

ID   2934 GenBank   WP_080075569
Name   traI_G4F90_RS23800_pST33-93798 insolico UniProt ID   _
Length   1752 a.a. PDB ID   
Note   Predicted by oriTfinder 2.0

  Relaxase protein sequence


Download         Length: 1752 a.a.        Molecular weight: 191683.76 Da        Isoelectric Point: 5.9879

>WP_080075569.1 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
ETIRVGAGDRMRFTKSDRERGYVANSVWTVTAVSGDSVTLSDGKQTRVVRPGKDRAEQHIDLAYAITAHS
AQGASETFAIALEGTEGGRKQMAGFESAYVALSRMKQHVQVYTDDRQGWVKAINSAEQKGTAHDVLEPKS
EREMMNAERLFSTARELRDVAAGRAVLRNAGLAQGDSRARFIAPGRKYPQPYVALPAFDRNGKSAGIWLN
PLTTDDGAGLRGFTGEGRVKGSEEAQFVALQGSRNGESLLAGSMQDGVRIARENPDSGVVVRIVGDGRPW
NPVAITGGRVWGDIPDSNVQPGAGNGEPVTAEILAQRQAEEAVRRETERRADEIVRKMAEDKSDLPEEKT
AQAVREIAGQEQDRMTPPEREPPLPESVLREPQRERETIREVARENRGRERLQQMEQEMVRDLQKEKTPG
GD

  Protein domains


Predicted by InterproScan.

AAA domain (AAA_30)

(967-1158)

TrwC relaxase (TrwC)

(11-282)

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

(632-711)

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

(574-626)

DNA helicase TraI (TraI_C)

(1430-1553)


  Protein structure



No available structure.




Auxiliary protein

ID   1207 GenBank   WP_001151546
Name   WP_001151546_pST33-93798 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

ID   1208 GenBank   WP_001676655
Name   WP_001676655_pST33-93798 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


T4CP

ID   2786 GenBank   WP_000793310
Name   traC_G4F90_RS23705_pST33-93798 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.



ID   2787 GenBank   WP_000009318
Name   traD_G4F90_RS23785_pST33-93798 insolico UniProt ID   _
Length   720 a.a. PDB ID   _
Note   Predicted by oriTfinder 2.0

  T4CP protein sequence


Download         Length: 720 a.a.        Molecular weight: 81447.01 Da        Isoelectric Point: 5.1045

>WP_000009318.1 MULTISPECIES: type IV conjugative transfer system coupling protein TraD [Salmonella]
MSFNAKDMTQGGQIASMRIRMFSQIANIIFYCLFIFFWILVGLVLWVKLSWQTFVNGGIYWWCTTLEGMR
DLIKSQPVYEIRYYGQTFRMNAAQVLQDKYTVWCGEQLWSAFVLAACVALVICLITFFMTTWILGRQGKQ
QSEDDVTGGRQLTDNPKDVARMLKKDGKASDILIGDLPIIKDSEIQNFLLHGTVSTGKSEIIRRLANYAR
QRGDMVVMYDRSCEFVKSYYDPSIDKILNPCDARCAAWDLWRECLTLPDFDNAANTLIPMGTKEDPFWQG
SGRTIFAEAAYLMRNDSDRSYSKLVDTLLSIKIEKLRTYLRDSPAANLVEEKIEKTAISIRAVLTNYVKA
VRYLQGIERNGEPFTIRDWMRGVREDQKNGWLFISSNADTHSSLKPVISMWLSIAIRGLLAMGENRNRRV
WFFCDELPTLHKLPDLVEIVPEARKFGGCYVFGIQSSTQMEDIYGEKAAATLLDVMNTRAFFRSPSYKIA
DYVAHEIGEKEILKASEQYSYGADPVRDGVSTGKEMERVTLVSYSDIQSLPDLTCYVTLPGPYPAVKLAL
KYQERPKVAPEFIPREMNPEAEARLSAVLAAREAEVRQMSSLFEPDTEAVAPTAAEAQAEQPQQPQPTVV
SDKKSAAAGTAVNTPAGGVGQELKMKPEDEEQPLPPGINASGEVVDMAAYERWRQEQEVNTQQQMQRREE
VNINVHRGHGKDEPEPGDDF

  Protein domains


Predicted by InterproScan.

F sex factor protein N terminal (TraD_N)

(32-128)

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

(173-560)

  Protein structure



No available structure.




T4SS

T4SS were predicted by using oriTfinder2.

Region 1: 42642..66112

Locus tag Coordinates Strand Size (bp) Protein ID Product Description
G4F90_RS24275 38155..38283 + 129 WP_000372429 hypothetical protein -
G4F90_RS23620 (G4F90_23625) 38369..38527 + 159 WP_001704449 hypothetical protein -
G4F90_RS23625 (G4F90_23630) 38630..39448 + 819 Protein_51 DUF932 domain-containing protein -
G4F90_RS23630 (G4F90_23635) 39759..40229 - 471 WP_014344446 transglycosylase SLT domain-containing protein -
G4F90_RS23635 (G4F90_23640) 40643..41023 + 381 WP_001151546 conjugal transfer relaxosome DNA-binding protein TraM -
G4F90_RS24220 41216..41902 + 687 Protein_54 PAS domain-containing protein -
G4F90_RS23645 (G4F90_23650) 41996..42223 + 228 WP_001676655 conjugal transfer relaxosome protein TraY -
G4F90_RS23650 (G4F90_23655) 42265..42627 + 363 WP_001274201 type IV conjugative transfer system pilin TraA -
G4F90_RS23655 (G4F90_23660) 42642..42953 + 312 WP_000012129 type IV conjugative transfer system protein TraL traL
G4F90_RS23660 (G4F90_23665) 42975..43541 + 567 WP_000399768 type IV conjugative transfer system protein TraE traE
G4F90_RS23665 (G4F90_23670) 43528..44268 + 741 WP_001230719 type-F conjugative transfer system secretin TraK traK
G4F90_RS23670 (G4F90_23675) 44268..45689 + 1422 WP_000146700 F-type conjugal transfer pilus assembly protein TraB traB
G4F90_RS23675 (G4F90_23680) 45679..46275 + 597 WP_000527896 conjugal transfer pilus-stabilizing protein TraP -
G4F90_RS23680 (G4F90_23685) 46253..46498 + 246 WP_010999944 DUF2689 domain-containing protein virb4
G4F90_RS23685 (G4F90_23690) 46495..47010 + 516 WP_001079995 type IV conjugative transfer system lipoprotein TraV traV
G4F90_RS23690 (G4F90_23695) 47145..47366 + 222 WP_001278699 conjugal transfer protein TraR -
G4F90_RS23695 (G4F90_23700) 47359..47826 + 468 WP_000549562 hypothetical protein -
G4F90_RS23700 (G4F90_23705) 47943..48206 + 264 WP_001239255 hypothetical protein -
G4F90_RS23705 (G4F90_23710) 48222..50870 + 2649 WP_000793310 type IV secretion system protein TraC virb4
G4F90_RS23710 (G4F90_23715) 50845..51231 + 387 WP_000105164 type-F conjugative transfer system protein TrbI -
G4F90_RS23715 (G4F90_23720) 51228..51860 + 633 WP_000871995 type-F conjugative transfer system protein TraW traW
G4F90_RS23720 (G4F90_23725) 51857..52849 + 993 WP_000833320 conjugal transfer pilus assembly protein TraU traU
G4F90_RS23725 (G4F90_23730) 52868..53176 + 309 WP_010999945 hypothetical protein -
G4F90_RS23730 (G4F90_23735) 53161..53799 + 639 WP_000554823 type-F conjugative transfer system pilin assembly protein TrbC trbC
G4F90_RS23735 (G4F90_23740) 53836..54255 + 420 WP_001229397 HNH endonuclease signature motif containing protein -
G4F90_RS23740 (G4F90_23745) 54252..56078 + 1827 WP_000827529 type-F conjugative transfer system mating-pair stabilization protein TraN traN
G4F90_RS23745 (G4F90_23750) 56089..56304 + 216 WP_000700023 conjugal transfer protein TrbE -
G4F90_RS23750 (G4F90_23755) 56316..57065 + 750 WP_001226854 type-F conjugative transfer system pilin assembly protein TraF traF
G4F90_RS23755 (G4F90_23760) 57279..57572 + 294 WP_001233881 type-F conjugative transfer system pilin chaperone TraQ -
G4F90_RS23760 (G4F90_23765) 57559..58107 + 549 WP_000055840 type-F conjugative transfer system pilin assembly thiol-disulfide isomerase TrbB traF
G4F90_RS23765 (G4F90_23770) 58097..59479 + 1383 WP_001161719 conjugal transfer pilus assembly protein TraH traH
G4F90_RS23770 (G4F90_23775) 59476..62298 + 2823 WP_001007086 conjugal transfer mating-pair stabilization protein TraG traG
G4F90_RS23775 (G4F90_23780) 62314..62807 + 494 Protein_81 entry exclusion protein -
G4F90_RS23780 (G4F90_23785) 62860..63573 + 714 WP_031607910 conjugal transfer complement resistance protein TraT -
G4F90_RS23785 (G4F90_23790) 63950..66112 + 2163 WP_000009318 type IV conjugative transfer system coupling protein TraD virb4
G4F90_RS23790 (G4F90_23795) 66121..66519 - 399 WP_000911322 type II toxin-antitoxin system VapC family toxin -
G4F90_RS23795 (G4F90_23800) 66519..66746 - 228 WP_000450265 toxin-antitoxin system antitoxin VapB -

Host bacterium

ID   4380 GenBank   NZ_CP051268
Plasmid name   pST33-93798 Incompatibility group   IncFII
Plasmid size   93798 bp Coordinate of oriT [Strand]   40300..40568 [+]
Host baterium   Salmonella enterica subsp. enterica serovar Typhimurium strain OLF-FSR1_WB_Hawk_ST-33

Cargo genes

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