Detailed information of oriT

oriT

The information of the oriT region


oriTDB ID   101306
Name   oriT_ST478|unnamed in_silico
Organism   Salmonella enterica subsp. enterica serovar Typhimurium strain ST478
Sequence Completeness      -
NCBI accession of oriT (coordinates [strand])   NZ_LYRT01000329 (28481..28832 [+], 352 nt)
oriT length   352 nt
IRs (inverted repeats)      192..198, 206..212  (TATAAAA..TTTTATA)
 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: 352 nt

>oriT_ST478|unnamed
AGGTTGGTGGTTCTCACCACCAAAAGCACCACACCCCACGCAAAAACAAGTTTTTGCTGATTTTTCTTTATAAATAGAGAGTTATGAAAAATTAGTTTCTCTTACTCTCTTTATGATATTTAAAAAAGCGGTGTCGGCGCGGCTACAACAACGCGCCGACACCGCTTTGTAGGGGTGGTACTGACTATTTTTATAAAAAACATTATTTTATATTAGGGGTGCTGCTAGCGGCGCGGTGTGTTTTTTTATAGGATACCGCCAGGGGCGCTGCTAGCGGTGCGTCCCTGTTTGCATTATGAATTTTAGTGTTTCGAAATTAACTTTATTTTATGTTCAAAAAAGGTAATCTCTA

Visualization of oriT structure

  oriT secondary structure

Predicted by RNAfold.

Download structure file


T4CP

ID   851 GenBank   WP_001064265
Name   traC_A8277_RS19500_ST478|unnamed 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: 99296.07 Da        Isoelectric Point: 6.3032

>WP_001064265.1 MULTISPECIES: type IV secretion system protein TraC [Enterobacteriaceae]
MNNPLEAVTQAVNSLVTALKLPDESAKANEVLGEMSFPQFSRLLPYRDYNQESGLFMNDTTMGFMLEAIP
INGANESIVEALDHMLRTKLPRGVPFCIHLMSSQLVGDRIEYGLREFSWSGEQAERFNAITRAYYMNAAA
TQFPLPEGMNLPLTLRHYRVFFSYCSPSKKKSRADILEMENLVKIIRASLQGASITTQAVDAQAFIDIVG
EMINHNPDSLYPKRRQLDPYSDLNYQCVEDSFDLKVRADYLTLGLREKGRNSTARILNFHLARNPEIAFL
WNMADNYSNLLNPELSISCPFILTLTLVVEDQVKTHSEANLKYMDLEKKSKTSYAKWFPSVEKEAKEWGE
LRQRLGSGQSSVVSYFLNITAFCKDNNETALEVEQDILNSFRKNGFELISPRFNHMRNFLTCLPFMAGKG
LFKQLKEAGVVQRAESFNVANLMPLVADNPLTPAGLLAPTYRNQLAFIDIFFRGMNNTNYNMAVCGTSGA
GKTGLIQPLIRSVLDSGGFAVVFDMGDGYKSLCENMGGVYLDGETLRFNPFANITDIDQSAERVRDQLSV
MASPNGNLDEVHEGLLLQAVRASWLAKKNRARIDDVVDFLKNARDNDQYVESPTIRSRLDEMIVLLDQYT
AGGTYGRYFNSDEPSLRDDAKMVVLELGGLEDRPSLLVAVMFSLIIYIENRMYRTPRNLKKLNVIDEGWR
LLDFKNHKVGEFIEKGYRTARRHTGAYITITQNIVDFDSDKASSAARAAWGNSSYKIILKQSAKEFAKYN
QLYPDQFLPLQRDMIGKFGAAKDQWFSSFLLQVENHSSWHRLFVDPLSRAMYSSDGPDFEFVQQKRKEGL
SIHEAVWQLAWKKSGPEMASLEAWLEEHEKYRSVA

  Protein domains


Predicted by InterproScan.

TraC protein (TraC_F_IV)

(38-276)

TraG P-loop domain (P-loop_TraG)

(467-771)

Family of unknown function (DUF5934) (DUF5934)

(289-446)

  Protein structure



No available structure.




T4SS

T4SS were predicted by using oriTfinder2.

Region 1: 27910..50686

Locus tag Coordinates Strand Size (bp) Protein ID Product Description
A8277_RS29145 23838..25207 + 1370 WP_085947770 IS3-like element IS150 family transposase -
A8277_RS30375 25249..25398 + 150 Protein_31 plasmid maintenance protein Mok -
A8277_RS29625 (A8277_23300) 25340..25465 + 126 WP_001372321 type I toxin-antitoxin system Hok family toxin -
A8277_RS30660 25685..25914 + 230 Protein_33 hypothetical protein -
A8277_RS30380 25912..26085 - 174 Protein_34 hypothetical protein -
A8277_RS30385 (A8277_23310) 26155..26361 + 207 WP_015059635 hypothetical protein -
A8277_RS19420 (A8277_23315) 26386..26672 + 287 Protein_36 hypothetical protein -
A8277_RS19425 (A8277_23320) 26792..27613 + 822 WP_001234423 DUF932 domain-containing protein -
A8277_RS19430 (A8277_23325) 27910..28500 - 591 WP_023565181 transglycosylase SLT domain-containing protein virB1
A8277_RS19435 (A8277_23330) 28833..29216 + 384 WP_001151528 conjugal transfer relaxosome DNA-binding protein TraM -
A8277_RS19440 (A8277_23335) 29403..30092 + 690 WP_000283383 conjugal transfer transcriptional regulator TraJ -
A8277_RS19445 (A8277_23340) 30191..30586 + 396 WP_001366159 conjugal transfer relaxosome DNA-bindin protein TraY -
A8277_RS19450 (A8277_23345) 30619..30981 + 363 WP_000994784 type IV conjugative transfer system pilin TraA -
A8277_RS19455 (A8277_23350) 30986..31297 + 312 WP_000012106 type IV conjugative transfer system protein TraL traL
A8277_RS19460 (A8277_23355) 31319..31885 + 567 WP_000399792 type IV conjugative transfer system protein TraE traE
A8277_RS19465 (A8277_23360) 31872..32600 + 729 WP_001230805 type-F conjugative transfer system secretin TraK traK
A8277_RS19470 (A8277_23365) 32600..34051 + 1452 WP_000146659 F-type conjugal transfer pilus assembly protein TraB traB
A8277_RS19475 (A8277_23370) 34041..34601 + 561 WP_000896605 conjugal transfer pilus-stabilizing protein TraP -
A8277_RS19480 (A8277_23375) 34588..34908 + 321 WP_001057304 conjugal transfer protein TrbD virb4
A8277_RS19485 (A8277_23380) 34901..35152 + 252 WP_001038331 conjugal transfer protein TrbG -
A8277_RS19490 (A8277_23385) 35149..35664 + 516 WP_000809885 type IV conjugative transfer system lipoprotein TraV traV
A8277_RS19495 (A8277_23390) 35799..36020 + 222 WP_001278686 conjugal transfer protein TraR -
A8277_RS19500 (A8277_23395) 36180..38807 + 2628 WP_001064265 type IV secretion system protein TraC virb4
A8277_RS19505 (A8277_23400) 38804..39190 + 387 WP_000099693 type-F conjugative transfer system protein TrbI -
A8277_RS19510 (A8277_23405) 39187..39819 + 633 WP_001203750 type-F conjugative transfer system protein TraW traW
A8277_RS19515 (A8277_23410) 39816..40808 + 993 WP_000830835 conjugal transfer pilus assembly protein TraU traU
A8277_RS19520 (A8277_23415) 40817..41455 + 639 WP_000777690 type-F conjugative transfer system pilin assembly protein TrbC trbC
A8277_RS19525 (A8277_23420) 41452..43260 + 1809 WP_000821840 type-F conjugative transfer system mating-pair stabilization protein TraN traN
A8277_RS19530 (A8277_23425) 43287..43544 + 258 WP_000864318 conjugal transfer protein TrbE -
A8277_RS19535 (A8277_23430) 43537..44280 + 744 WP_001030378 type-F conjugative transfer system pilin assembly protein TraF traF
A8277_RS19540 (A8277_23435) 44296..44643 + 348 WP_001287910 conjugal transfer protein TrbA -
A8277_RS19545 (A8277_23440) 44645..44959 - 315 WP_000415566 protein ArtA -
A8277_RS19550 (A8277_23445) 45040..45324 + 285 WP_000624109 type-F conjugative transfer system pilin chaperone TraQ -
A8277_RS19555 (A8277_23450) 45311..45856 + 546 WP_000059851 type-F conjugative transfer system pilin assembly thiol-disulfide isomerase TrbB traF
A8277_RS19560 (A8277_23455) 45786..46127 + 342 WP_001443031 P-type conjugative transfer protein TrbJ -
A8277_RS19565 (A8277_23460) 46114..46494 + 381 WP_001366201 F-type conjugal transfer protein TrbF -
A8277_RS19570 (A8277_23465) 46491..47867 + 1377 WP_000982840 conjugal transfer pilus assembly protein TraH traH
A8277_RS19575 (A8277_23470) 47864..50686 + 2823 WP_001007016 conjugal transfer mating-pair stabilization protein TraG traG
A8277_RS19580 (A8277_23475) 50702..51199 + 498 WP_000605859 entry exclusion protein -
A8277_RS19585 (A8277_23480) 51231..51962 + 732 WP_023565183 conjugal transfer complement resistance protein TraT -

Host bacterium

ID   1750 GenBank   NZ_LYRT01000329
Plasmid name   ST478|unnamed Incompatibility group   IncFIA
Plasmid size   52236 bp Coordinate of oriT [Strand]   28481..28832 [+]
Host baterium   Salmonella enterica subsp. enterica serovar Typhimurium strain ST478

Cargo genes

Drug resistance gene   -
Virulence gene   -
Metal resistance gene   -
Degradation gene   -
Symbiosis gene   -
Anti-CRISPR   -