Detailed information of oriT

oriT

The information of the oriT region


oriTDB ID   104975
Name   oriT_pSalSendai in_silico
Organism   Salmonella enterica subsp. enterica strain BAA-1672
Sequence Completeness      -
NCBI accession of oriT (coordinates [strand])   NZ_CP023471 (36057..36409 [-], 353 nt)
oriT length   353 nt
IRs (inverted repeats)      256..263, 272..279  (ACCGCTAG..CTAGCGGT)
 192..198, 207..213  (TATAAAA..TTTTATA)
 156..161, 168..173  (CCTACA..TGTAGG)
 136..141, 152..157  (GGCGCG..CGCGCC)
 40..47, 50..57  (GCAAAAAC..GTTTTTGC)
 4..11, 16..23  (TTGGTGGT..ACCACCAA)
Location of nic site      _
Conserved sequence flanking the
  nic site    		  _
Note   Predicted by oriTfinder 2.0

  oriT sequence  


Download         Length: 353 nt

>oriT_pSalSendai
AGGTTGGTGGTTCTCACCACCAAAAGCACCACACCCCACGCAAAAACAAGTTTTTGCTGATTTTTCTTTATAAATAGAGTGTTATGAAAAATTAGTTTCTCTTACTCTCTTTATGATATTTAAAAAAGCGGTGTCGGCGCGGCTGCAACAACGCGCCTACACCGCTTTGTAGGGGTGGTACTGACTATTTTTATAAAAAAACATTATTTTATATTAGGGGTGCTGCTAGCGGCGCGGTGTGTTTTTTTATAGGATACCGCTAGGGGCGCTGCTAGCGGTGCGTCCCTGTTTGCATTATGAATTTTAGTGTTTCGAAATTAACTTTATTTTATGTTCAAAAAAGGTAATCTCTA

Visualization of oriT structure

  oriT secondary structure

Predicted by RNAfold.

Download structure file


T4CP

ID   3443 GenBank   WP_117335804
Name   traD_CO195_RS23020_pSalSendai 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: 81822.35 Da        Isoelectric Point: 5.0076

>WP_117335804.1 type IV conjugative transfer system coupling protein TraD [Salmonella enterica]
MSFNAKDMTQGGQIASMRIRMFSQIANIMLYCLFIFFWILVGLVLWVKISWQTFVNGCIYWWCTTLEGMR
DLIRSQPVYEIQYYGKTFRMNAAQVLHDKYMIWCGEQLWSAFVLASVVALVICLITFFVVSWILGHQGKQ
QSENEVTGGRQLTDNPKEVARMLKKSGEDSDIRIGDLPIIRDSEIKNFCLHGTVGAGKSEVIRRLANYAR
QRGDMVVIYDRSGEFVKSYYDPSIDNILNPLDARCAAWDLWKECLTQPDFDNVANTLIPMGTKEDPFWQG
SGRTIFAEAAFLMRNDPNRSYSKLVDTLLSIKIEKLRTFLRNSPAANLVEEKIEKTAISIRAVLTNYVKA
IRYLQGIEHNGEPFTIRDWMRGVREDKKNGWLFISSNADTHASLKPVVSMWLSIAIRGLMAMGENRNRRV
WFFCDELPTLHKLPDLVEILPEARKFGGCYVFGIQSYAQLEDIYGEKSAASLFDVMNTRAFFRSPSHKIA
EFAAGEIGEKEHLKASEQYSYGADPVRDGVSTGKDMERQTLVSYSDIQSLPDLTCYVTLPGPYPAVKLSL
KYQERPKVAPEFIPREINPEMENRLSAVLAAREAEGRQMASLFEPDVPEVVSGEDVVQAEQPQQPQQPVS
PAINDKKSDSGVNVPAGGIEQELKMKPEEEMEQQLPPGISESGEVVDMAAYEAWQQENHPDIQQQMQRRE
EVNINVHRERGEDVEPGDDF

  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.



ID   3444 GenBank   WP_117335816
Name   traC_CO195_RS23100_pSalSendai insolico UniProt ID   _
Length   875 a.a. PDB ID   _
Note   Predicted by oriTfinder 2.0

  T4CP protein sequence


Download         Length: 875 a.a.        Molecular weight: 99235.84 Da        Isoelectric Point: 5.8467

>WP_117335816.1 type IV secretion system protein TraC [Salmonella enterica]
MNNPLEAVTQAVNSLLTALKLPDESAQANQILGEMNFPQFSRLLPYRDYNQESGLFMNDTTMGFMLEAIP
INGANESIVEALDHMLRTKLPRGIPLSIHLMSSQLVGDRIEYGLREFSWSGEQAERFNAITRAYYMKAAA
TQFPLPEGMNLPLTLRHYRVFISYCSPSKKKSRADTLEMENLVKIIRASLQGASITTQTVDAQAFIDIVG
EMINHNPDSLYPKRRQLDPYSDLNYQCVEDSFDLKVRADYLTLGLRENGRNSTARILNFHLARNPEIAFL
WNMADNYSNLLNPELSISCPFILTLTLVVEDQVKTHSEANLKYMDLEKKSKTSYAKWFPSVEKEAKEWGE
LRQRLGSGQSSVVSYFLNITAFCKDNNETALEVEQDILNSFRKNGFELISPRFNHMRNFLTCLPFMAGKG
LFKQLKEAGVVQRAESFNVANLMPLVADNPLTPAGLLAPTYRNQLAFIDIFFRGMNNTNYNMAVCGTSGA
GKTGLIQPLIRSVLDSGGFAVVFDMGDGYKSLCENMGGVYLDGETLRFNPFANITDIDQSAERVRDQLSV
MASPNGNLDEVHEGLLLQAVRASWLAKENRARIDDVVDFLKNASDSEQYAESPTIRSRLDEMIVLLDQYT
ANGTYGQYFNSDEPSLRDDAKMVVLELGGLEDRPSLLVAVMFSLIIYIENRMYRTPRNLKKLNVIDEGWR
LLDFKNHKVGEFIEKGYRTARRHTGAYITITQNIVDFDSDKASSAARAAWGNSSYKIILKQSAKEFAKYN
QLYPDQFLPLQRDMIGKFGAAKDQWFSSFLLQVENHSSWHRLFVDPLSRAMYSSDGPDFEFVQQKRKEGL
SIHEAVWQMAWKKSGPEMASLEAWLEEHEKYRSVA

  Protein domains


Predicted by InterproScan.

Family of unknown function (DUF5934) (DUF5934)

(289-446)

TraC protein (TraC_F_IV)

(38-276)

TraG P-loop domain (P-loop_TraG)

(467-771)

  Protein structure



No available structure.




T4SS

T4SS were predicted by using oriTfinder2.

Region 1: 11114..36980

Locus tag Coordinates Strand Size (bp) Protein ID Product Description
CO195_RS23020 (CO195_22885) 11114..13276 - 2163 WP_117335804 type IV conjugative transfer system coupling protein TraD virb4
CO195_RS23025 (CO195_22890) 13529..14260 - 732 WP_000850424 conjugal transfer complement resistance protein TraT -
CO195_RS23030 (CO195_22895) 14292..14789 - 498 WP_000605867 hypothetical protein -
CO195_RS23035 (CO195_22900) 14805..17627 - 2823 WP_117335806 conjugal transfer mating-pair stabilization protein TraG traG
CO195_RS23040 (CO195_22905) 17624..19000 - 1377 WP_000982833 conjugal transfer pilus assembly protein TraH traH
CO195_RS23045 (CO195_22910) 18997..19359 - 363 WP_010379880 P-type conjugative transfer protein TrbJ -
CO195_RS23050 (CO195_22915) 19289..19834 - 546 WP_000059821 type-F conjugative transfer system pilin assembly thiol-disulfide isomerase TrbB traF
CO195_RS23055 (CO195_22920) 19821..20102 - 282 WP_162887454 type-F conjugative transfer system pilin chaperone TraQ -
CO195_RS23060 (CO195_22925) 20224..20571 - 348 WP_001287677 conjugal transfer protein TrbA -
CO195_RS23065 (CO195_22930) 20587..21330 - 744 WP_001030376 type-F conjugative transfer system pilin assembly protein TraF traF
CO195_RS23070 (CO195_22935) 21323..21580 - 258 WP_000864325 conjugal transfer protein TrbE -
CO195_RS23075 (CO195_22940) 21607..23415 - 1809 WP_117335810 type-F conjugative transfer system mating-pair stabilization protein TraN traN
CO195_RS23080 (CO195_22945) 23412..24050 - 639 WP_117335812 type-F conjugative transfer system pilin assembly protein TrbC trbC
CO195_RS23085 (CO195_22950) 24059..25051 - 993 WP_000830839 conjugal transfer pilus assembly protein TraU traU
CO195_RS23090 (CO195_22955) 25048..25680 - 633 WP_115376262 type-F conjugative transfer system protein TraW traW
CO195_RS23095 (CO195_22960) 25677..26063 - 387 WP_000099690 type-F conjugative transfer system protein TrbI -
CO195_RS23100 (CO195_22965) 26060..28687 - 2628 WP_117335816 type IV secretion system protein TraC virb4
CO195_RS23105 (CO195_22970) 28847..29068 - 222 WP_115376266 conjugal transfer protein TraR -
CO195_RS23110 (CO195_22975) 29203..29718 - 516 WP_115376267 type IV conjugative transfer system lipoprotein TraV traV
CO195_RS23735 (CO195_22980) 29715..29969 - 255 Protein_30 conjugal transfer protein TrbG -
CO195_RS23120 (CO195_22985) 29962..30282 - 321 WP_240330114 conjugal transfer protein TrbD virb4
CO195_RS23125 (CO195_22990) 30269..30859 - 591 WP_048889336 conjugal transfer pilus-stabilizing protein TraP -
CO195_RS23130 (CO195_22995) 30849..32276 - 1428 WP_117335818 F-type conjugal transfer pilus assembly protein TraB traB
CO195_RS23135 (CO195_23000) 32276..33004 - 729 WP_240330115 type-F conjugative transfer system secretin TraK traK
CO195_RS23140 (CO195_23005) 32991..33557 - 567 WP_001717262 type IV conjugative transfer system protein TraE traE
CO195_RS23145 (CO195_23010) 33579..33889 - 311 Protein_36 type IV conjugative transfer system protein TraL -
CO195_RS23150 (CO195_23015) 33904..34269 - 366 WP_000994782 type IV conjugative transfer system pilin TraA -
CO195_RS23155 (CO195_23020) 34303..34698 - 396 WP_048889377 conjugal transfer relaxosome DNA-bindin protein TraY -
CO195_RS23160 (CO195_23025) 34797..35486 - 690 WP_048889333 conjugal transfer transcriptional regulator TraJ -
CO195_RS23165 (CO195_23030) 35673..36056 - 384 Protein_40 conjugal transfer relaxosome DNA-binding protein TraM -
CO195_RS23170 (CO195_23035) 36378..36980 + 603 WP_077932535 transglycosylase SLT domain-containing protein -
CO195_RS23175 (CO195_23040) 37276..38097 - 822 WP_143553149 DUF932 domain-containing protein -
CO195_RS23180 (CO195_23045) 38216..38504 - 289 Protein_43 hypothetical protein -
CO195_RS23740 38529..38735 - 207 WP_000547955 hypothetical protein -
CO195_RS23645 38805..39101 + 297 Protein_45 hypothetical protein -
CO195_RS23190 (CO195_23055) 39205..39846 + 642 WP_115376276 IS66-like element accessory protein TnpA -
CO195_RS23195 (CO195_23060) 39846..40193 + 348 WP_000624622 IS66 family insertion sequence element accessory protein TnpB -
CO195_RS23200 (CO195_23065) 40213..41784 + 1572 WP_048889386 IS66 family transposase -

Host bacterium

ID   5413 GenBank   NZ_CP023471
Plasmid name   pSalSendai Incompatibility group   IncFIB
Plasmid size   81125 bp Coordinate of oriT [Strand]   36057..36409 [-]
Host baterium   Salmonella enterica subsp. enterica strain BAA-1672

Cargo genes

Drug resistance gene   -
Virulence gene   faeJ, faeI, faeH, faeF, faeE, faeD, faeC
Metal resistance gene   -
Degradation gene   -
Symbiosis gene   -
Anti-CRISPR   -