Detailed information of oriT

oriT

The information of the oriT region


oriTDB ID   102888
Name   oriT_pCFSAN017963_01 in_silico
Organism   Salmonella enterica subsp. enterica serovar Minnesota strain CFSAN017963
Sequence Completeness      -
NCBI accession of oriT (coordinates [strand])   NZ_CP017721 (141829..141914 [-], 86 nt)
oriT length   86 nt
IRs (inverted repeats)      61..68, 73..80  (TTGGTGGT..ACCACCAA)
 27..34, 37..44  (GCAAAAAC..GTTTTTGC)
 8..14, 20..26  (TGATTTG..CAAATCA)
Location of nic site      53..54
Conserved sequence flanking the
  nic site    		  GGTGTGGTGC
Note   Predicted by oriTfinder 2.0

  oriT sequence  


Download         Length: 86 nt

>oriT_pCFSAN017963_01
AATTACATGATTTGAAACGCAAATCAGCAAAAACTTGTTTTTGCGTGGGGTGTGGTGCTTTTGGTGGTGAGAACCACCAACCTGTT

Visualization of oriT structure

  oriT secondary structure

Predicted by RNAfold.

Download structure file


Relaxase

ID   2167 GenBank   WP_088137268
Name   traI_GX95_RS25005_pCFSAN017963_01 insolico UniProt ID   _
Length   1756 a.a. PDB ID   
Note   Predicted by oriTfinder 2.0

  Relaxase protein sequence


Download         Length: 1756 a.a.        Molecular weight: 191586.30 Da        Isoelectric Point: 6.0402

>WP_088137268.1 conjugative transfer relaxase/helicase TraI [Salmonella enterica]
MMSIAQVRSAGSAGNYYTDKDNYYVLGSMEERWAGQGAEQLGLQGSVDKDVFTRLLEGRLPDGADLSRMQ
DGSNKHRPGYDLTFSAPKSVSMMAMPGGDKRLIEAHNQAVDFAVRQLEALASTRIMTDGQSETVLTGNLV
MALFNHDTSRDQEPQLHTHAVVANVTQHNGEWKTLSSDKVGKTGFIENVYANQIAFGRLYREKLKEQVEA
LGYETEVVGKHGMWEMPGVPVEAFSGRSQTIREAVGEGASLKSRDVAALDTRKSKQHVDPEVRMAEWMQT
LKETGFDIRAYRDAADRRAETRTQAPGSASQDGPDVQQAVTQAIAGLSERKVQFTYTDVLARTVGILPPE
EGVIERARAGIDEAISREQLIPLDCEKGLFTSGIHVLDELSVRALSRDIMKLNRVTVHPEKSVPRTAGYS
DAVSVLAQDRPSLAIVSGQGGAAGQRERVAELVMMAREQGREVQIIAADRRSQMNLKQDERLSGELITGR
RQLLEGMAFTPGSTVIVDQGEKLSLKEMLTLLDGAARHNVQVLITDSGQRTGTGSALMAMKDAGVNSYRW
QGGEQRPATIISEPDRNVRYARLAGDFAASVKAGEESVAQVSGVREQVILTQAIRSELKTQGVLGHPEVT
MTALSPVWLDSRSRYLRDMYRPGMVMEQWNPETRSHDRYVINRVTAQSNSLTLRNAQGETQVVRISSLNS
SWSLFRPEKMPVADGERLRVTGKIPGLRVSGGDRLQVSSVSEDAMTVVVPGRAEPASLPVGDSPFTALKL
ESGWVETPGHSVSDSATVFASVTQMAMDNATLNGLARSGRDVRLYSSLDEPRTAEKLARHPSFAVVSEQI
KARAGETSLETAIRHQKSALHTPAQQAIHLALPVVESNNLVFSQAALLAEARSFAAEGTGFADLGREINA
QIKRGDLLHVDVAKGYGTDLLVSRASYEAEKSILRHILEGKEAVMPLMERVPGELMEKLTSGQRAATRMI
LETSDRFTVVQGCAGVGKTTQFRAVMSAVNMLPESERPRVVGLGPTHRAVGEMRSAGVDAQTLASFLHDT
QLQQRSGETPDFSNTLFLLDESSMVGNPDMARAYALIAAGGGRAVASGDTDQLQAIAPGQPFRLQQMRSA
ADVAIMKEIVRQTPELREAVYSLINRDVERALSGLESVKPAQVPRQEGAWAPEHSVTEFSRSHESALAEA
KREARKTGEAFPDVPMTLYEAIVRDYTGRTPEAREQTLIVTHLNEDRRVLNSMIHDALAKTGAPGKEQVM
VPVLNTANIRDGELRRLSTWEKHPDALALVDNVYHRIAGVSKDDGLITLQDAEGNTRLISPREAVAEGVT
LYTPDTIRVGAGDRMRFTKSDRERGYVANSVWTVTAVSGDSVTLSDGQQTRVIRPGQEQAEQHIDLAYAI
TAHGAQGASETFAIALEGTEGGRKQMTSFESAYVALSRMKQHVQVYTDDRQGWTDAINNAVQKGTAHDVL
EPRADREVMNAGRLFSTARELRDVAAGRAVLRQAGLDGGDSPARFIAPGRKYPQPYVALPAFDRNGKSAG
IWLNPLTTDDGNGLRGFSGEGRVKGGGDAQFVALQGSRNGESLLADNMQDGVRIARDNPDSGVVVRIAGE
GRPWNPGAITGGRVWGDIPDSSVQLGAGNGEPVTAEVLAQRQAEEAIRRETERRADEIVRKMAENKPDLP
DGKTEQAVREIAGQERDRAVTSERETALPESVLREPLREREAVREVARENLLQERLQQMERDMVRDLQKE
KTPGGD

  Protein domains


Predicted by InterproScan.

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

(575-626)

TrwC relaxase (TrwC)

(10-283)

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

(633-712)

DNA helicase TraI (TraI_C)

(1434-1557)

AAA domain (AAA_30)

(969-1156)


  Protein structure



No available structure.




Auxiliary protein

ID   876 GenBank   WP_046201845
Name   WP_046201845_pCFSAN017963_01 insolico UniProt ID   _
Length   127 a.a. PDB ID   _
Note   Predicted by oriTfinder 2.0

  Auxiliary protein sequence


Download         Length: 127 a.a.        Molecular weight: 14482.43 Da        Isoelectric Point: 4.8545

>WP_046201845.1 MULTISPECIES: conjugal transfer relaxosome DNA-binding protein TraM [Enterobacteriaceae]
MARVILYISNDVYDKVNAIVEQRRQEGARDKDISVSGTASMLLELGLRVHEAQMERKESAFNQTEFNKLL
LECVVKTQSSVAKILGIESLSPHVSGNPKFEYANMVEDIREKVSSEMERFFPKNDEE

  Protein domains


Predicted by InterproScan.

TraM protein, DNA-binding (Tra_M)

(1-126)


  Protein structure



No available structure.



ID   877 GenBank   WP_052011882
Name   WP_052011882_pCFSAN017963_01 insolico UniProt ID   _
Length   75 a.a. PDB ID   _
Note   Predicted by oriTfinder 2.0

  Auxiliary protein sequence


Download         Length: 75 a.a.        Molecular weight: 8442.65 Da        Isoelectric Point: 9.9218

>WP_052011882.1 MULTISPECIES: conjugal transfer relaxosome protein TraY [Enterobacteriaceae]
MSRNIIRPAPGNKVLLVLDDATNHKLLGARERSGRTKTNEVLVRLRDHLSRFPDFYNLDAIKEGAGETDS
IIKDL

  Protein domains


Predicted by InterproScan.

TraY domain (TraY)

(14-60)


  Protein structure



No available structure.




T4CP

ID   1836 GenBank   WP_088137252
Name   traC_GX95_RS24900_pCFSAN017963_01 insolico UniProt ID   _
Length   876 a.a. PDB ID   _
Note   Predicted by oriTfinder 2.0

  T4CP protein sequence


Download         Length: 876 a.a.        Molecular weight: 99300.06 Da        Isoelectric Point: 6.1926

>WP_088137252.1 type IV secretion system protein TraC [Salmonella enterica]
MSNNPLEAVTQAVNSLLTALKLPDESAKANEVLGEMSFPQFSRLLPYRDYNQESGLFMNDTTMGFMLEAI
PINGANESIVEALDHMLRTKLPRGVPFCIHLMSSQLVGDRIEYGLREFSWSGEQAVRFNAITRAYYMRAA
ATQFPLPEGMNLPLTLRHYRVFFSYCSPSKKKSRADILEMENLVKIIRASLQGASITTQAVDAQAFIDIV
GEMINHNPDSLYPKRRQLDPYSDLNYQCVEDSFDLKVRADYLTLGLRENGRNSTARILNFHLARNPEIAF
LWNMADNYSNLLNPELSISCPFILTLTLVVEDQVKTHSEANLKYMDLEKKSKTSYAKWFPSVEKEAKEWG
ELRQRLGSGQSSVVSYFLNITAFCKDNNETALEVEQDILNSFRKNGFELISPRFNHMRNFLTCLPFMAGK
GLFKQLKEAGVVQRAESFNVANLMPLVADNPLTPAGLLAPTYRNQLAFIDIFFRGMNNTNYNMAVCGTSG
AGKTGLIQPLIRSVLDSGGFAVVFDMGDGYKSLCENMGGVYLDGETLRFNPFANITDIDQSAERIRDQLS
VMASPNGNLDEVHEGLLLQAVRASWLAKKNKARIDDVVDFLKNASDSEQYAESPTIRSRLDEMIVLLDQY
TANGTYGQYFNSDEPSLRDDAKMVVLELGGLEDRPSLLVAVMFSLIIYIENRMYRTPRNLKKLNVIDEGW
RLLDFKNHKVGEFIEKGYRTARRHTGAYITITQNIVDFDSDKASSAARAAWGNSSYKIILKQSAKEFAKY
NQLYPDQFLPLQRDMIGKFGAAKDQWFSSFLLQVENHSSWHRLFVDPLSRAMYSSDGPDFEFVQQKRKEG
LSIHEAVWQLAWKKSGPEMASLEAWLEEHEKYRSVA

  Protein domains


Predicted by InterproScan.

Family of unknown function (DUF5934) (DUF5934)

(290-447)

TraC protein (TraC_F_IV)

(39-277)

TraG P-loop domain (P-loop_TraG)

(468-772)

  Protein structure



No available structure.



ID   1837 GenBank   WP_088137266
Name   traD_GX95_RS24990_pCFSAN017963_01 insolico UniProt ID   _
Length   735 a.a. PDB ID   _
Note   Predicted by oriTfinder 2.0

  T4CP protein sequence


Download         Length: 735 a.a.        Molecular weight: 83425.03 Da        Isoelectric Point: 5.0429

>WP_088137266.1 type IV conjugative transfer system coupling protein TraD [Salmonella enterica]
MSFNAKDMTQGGQIASMRIRMFSQIANIMLYCLFIFFWILVGLVLWVKISWQTFVNGCIYWWCTTLEGMR
DLIKSQPVYEIQYYGKTFRMNAAQVLHDKYMIWCGEQLWSAFVLATVVALVICLITFFVVSWILGRQGKQ
QSENEVTGGRQLTDNPKDVARMLKKDGKDSDIRIGDLPIIRDSEIQNFCLHGTVGAGKSEVIRRLANYAR
QRGDMVVIYDRSGEFVKSYYDPSIDKILNPLDARCAAWDLWKECLTQPDFDNVANTLIPMGTKEDPFWQG
SGRTIFAEAAYLMRNDPNRSYSKLVDTLLSIKIEKLRTYLRNSPAANLVEEKIEKTAISIRAVLTNYVKA
IRYLQGIEHSGESFTIRDWMRGVRDDQKNGWLFISSNADTHASLKPVISMWLSIAIRGLLAMGENRNRRV
WYFCDEIPTLHKLPDLVEIVPEARKFGGCYVFGMQAYTQMEDIYGDKAAATLFDVMNTRAFFRSPSHKIA
EFAAGEIGEKEHLKASEQYSYGADPVRDGVSTGKDMERQTLVSYSDIQTLPDLTCYVTLPGPYPAVKLSL
KYQVRPKVAPEFIPREISPEMENRLSAVLAAREAEGRQMASLFEPDVPEVTSGEDVTQAEQPQQPQQPQQ
PQQPQQPQQPQPVVSSVINDKKSGTGVNVPAGGIAQELEMKPEEETEQQLPPGVSDSGEVVDMAAYEAWQ
QENHPDIQQQMQRREEVNINVHRERGEDVEPGDDF

  Protein domains


Predicted by InterproScan.

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

(173-560)

F sex factor protein N terminal (TraD_N)

(32-128)

  Protein structure



No available structure.




T4SS

T4SS were predicted by using oriTfinder2.

Region 1: 141261..168937

Locus tag Coordinates Strand Size (bp) Protein ID Product Description
GX95_RS24780 (GX95_23540) 137258..137692 + 435 WP_000845926 conjugation system SOS inhibitor PsiB -
GX95_RS24785 (GX95_23545) 137689..138408 + 720 WP_088137240 plasmid SOS inhibition protein A -
GX95_RS26480 138624..138773 + 150 Protein_126 plasmid maintenance protein Mok -
GX95_RS24790 (GX95_23550) 138715..138840 + 126 WP_096937776 type I toxin-antitoxin system Hok family toxin -
GX95_RS26485 (GX95_23555) 139141..139438 - 298 Protein_128 hypothetical protein -
GX95_RS26080 (GX95_23560) 139508..139714 + 207 WP_000275848 hypothetical protein -
GX95_RS24805 (GX95_23565) 139739..140026 + 288 WP_088137241 hypothetical protein -
GX95_RS24810 (GX95_23570) 140144..140965 + 822 WP_052953840 DUF932 domain-containing protein -
GX95_RS24815 (GX95_23575) 141261..141851 - 591 WP_335695493 transglycosylase SLT domain-containing protein -
GX95_RS24820 (GX95_23580) 142186..142569 + 384 WP_046201845 conjugal transfer relaxosome DNA-binding protein TraM -
GX95_RS24825 (GX95_23585) 142760..143422 + 663 WP_088137243 conjugal transfer protein TraJ -
GX95_RS24830 143537..143764 + 228 WP_052011882 conjugal transfer relaxosome protein TraY -
GX95_RS24835 (GX95_23590) 143797..144162 + 366 WP_088137244 type IV conjugative transfer system pilin TraA -
GX95_RS24840 (GX95_23595) 144177..144488 + 312 WP_000012106 type IV conjugative transfer system protein TraL traL
GX95_RS24845 (GX95_23600) 144510..145076 + 567 WP_000399791 type IV conjugative transfer system protein TraE traE
GX95_RS24850 (GX95_23605) 145063..145812 + 750 WP_088137245 type-F conjugative transfer system secretin TraK traK
GX95_RS24855 (GX95_23610) 145812..147239 + 1428 WP_088137246 F-type conjugal transfer pilus assembly protein TraB traB
GX95_RS24860 (GX95_23615) 147229..147819 + 591 WP_088137247 conjugal transfer pilus-stabilizing protein TraP -
GX95_RS24865 (GX95_23620) 147806..148126 + 321 WP_237214220 conjugal transfer protein TrbD virb4
GX95_RS24870 (GX95_23625) 148119..148370 + 252 WP_001038341 conjugal transfer protein TrbG -
GX95_RS24875 (GX95_23630) 148367..148882 + 516 WP_088137248 type IV conjugative transfer system lipoprotein TraV traV
GX95_RS24880 (GX95_23635) 149017..149238 + 222 WP_088137249 conjugal transfer protein TraR -
GX95_RS24885 (GX95_23640) 149231..149704 + 474 WP_071686320 hypothetical protein -
GX95_RS24890 (GX95_23645) 149743..149961 + 219 WP_071686319 hypothetical protein -
GX95_RS24895 (GX95_23650) 149989..150351 + 363 WP_088137251 hypothetical protein -
GX95_RS24900 (GX95_23655) 150477..153107 + 2631 WP_088137252 type IV secretion system protein TraC virb4
GX95_RS24905 (GX95_23660) 153104..153490 + 387 WP_000214082 type-F conjugative transfer system protein TrbI -
GX95_RS24910 (GX95_23665) 153487..154119 + 633 WP_088137253 type-F conjugative transfer system protein TraW traW
GX95_RS24915 (GX95_23670) 154116..155108 + 993 WP_071686344 conjugal transfer pilus assembly protein TraU traU
GX95_RS24920 (GX95_23675) 155137..155472 + 336 WP_198385738 hypothetical protein -
GX95_RS24925 (GX95_23680) 155465..155914 + 450 WP_088137254 hypothetical protein -
GX95_RS24930 (GX95_23685) 155942..156580 + 639 WP_157719429 type-F conjugative transfer system pilin assembly protein TrbC trbC
GX95_RS24935 (GX95_23690) 156577..158427 + 1851 WP_088137256 type-F conjugative transfer system mating-pair stabilization protein TraN traN
GX95_RS24940 (GX95_23695) 158454..158711 + 258 WP_157719446 conjugal transfer protein TrbE -
GX95_RS24945 (GX95_23700) 158704..159447 + 744 WP_157719430 type-F conjugative transfer system pilin assembly protein TraF traF
GX95_RS24950 (GX95_23705) 159563..159844 + 282 WP_088137259 type-F conjugative transfer system pilin chaperone TraQ -
GX95_RS24955 (GX95_23710) 159831..160376 + 546 WP_088137260 type-F conjugative transfer system pilin assembly thiol-disulfide isomerase TrbB traF
GX95_RS24960 (GX95_23715) 160366..160671 + 306 WP_237214222 P-type conjugative transfer protein TrbJ -
GX95_RS24965 (GX95_23720) 160625..161017 + 393 WP_237214223 F-type conjugal transfer protein TrbF -
GX95_RS24970 (GX95_23725) 161001..162377 + 1377 WP_000982833 conjugal transfer pilus assembly protein TraH traH
GX95_RS24975 (GX95_23730) 162374..165196 + 2823 WP_088137263 conjugal transfer mating-pair stabilization protein TraG traG
GX95_RS24980 (GX95_23735) 165212..165697 + 486 WP_088137264 surface exclusion protein -
GX95_RS24985 (GX95_23740) 165746..166477 + 732 WP_088137265 conjugal transfer complement resistance protein TraT -
GX95_RS24990 (GX95_23745) 166730..168937 + 2208 WP_088137266 type IV conjugative transfer system coupling protein TraD virb4
GX95_RS24995 (GX95_23750) 168946..169344 - 399 WP_071624913 type II toxin-antitoxin system VapC family toxin -
GX95_RS25000 (GX95_23755) 169344..169571 - 228 WP_198385745 toxin-antitoxin system antitoxin VapB -

Host bacterium

ID   3331 GenBank   NZ_CP017721
Plasmid name   pCFSAN017963_01 Incompatibility group   IncFII
Plasmid size   280421 bp Coordinate of oriT [Strand]   141829..141914 [-]
Host baterium   Salmonella enterica subsp. enterica serovar Minnesota strain CFSAN017963

Cargo genes

Drug resistance gene   -
Virulence gene   -
Metal resistance gene   arsH, arsR, arsB, arsC
Degradation gene   -
Symbiosis gene   -
Anti-CRISPR   -