Detailed information of oriT

oriT

The information of the oriT region


oriTDB ID   100856
Name   oriT_pSARB26_02 in_silico
Organism   Salmonella enterica subsp. enterica serovar Stanleyville str. CFSAN000624 strain SGSC 2518 isolate SARB61
Sequence Completeness      intact
NCBI accession of oriT (coordinates [strand])   NZ_CP017725 (15892..16540 [+], 649 nt)
oriT length   649 nt
IRs (inverted repeats)      IR1: 198..207, 211..220  (ATTAGGTGTT..AATACCTAAT)
 IR2:319..324, 330..335  (AAAAAA..TTTTTT)
  IR3: 393..402, 405..414  (GTATTCATGC..GCATGAATAC)
Location of nic site      301..302
Conserved sequence flanking the
  nic site    		  GGTGT|ATAGC
Note   predicted by the oriTfinder

  oriT sequence  


Download         Length: 649 nt

>oriT_pSARB26_02
AGCGCCGCAGATAATCTGACCGATTACCTCCTGAAACCAGGTCTATATAGGCCAAAAGTTCATCTGATACTTTTGCGGTTATTATTGGCATTCAGTCCTCACATTGTGCATTTCTTAAACAAAAGATTGGGATCTAACAAGCTGAAATCTTAGTATTACCAAAGTAATAAAGCAAACTCATTATAAAACAATGAGTTATTAGGTGTTTTTAATACCTAATTATTACCGAATATTGACGCTATTTATTTTTTTATTTTTTAAATCAGTGTGATAGCGTGATTTATCGCGCTGCGTTAGGTGTATAGCAGGTTAAGGGATAAAAAATCATCTTTTTTGGTAGGAGCGATCTACGTAGGTTAAGGACTAACTGACTAAAAAGCGTTCAATATTCCGTATTCATGCTTGCATGAATACCAGTACAACACTATTACAACAAAAGTACATCAAAATTACATCAAAAGTACATCACTTGAAGGTTGACAGTACAACAGAATTACATCATTATCTGGTCATGAGGTAGCCAGTACAACAAAAGTACATCAAAAATACATCATAAATACATCAGAAATACATCAAAATTACATCATTCTAAATGAGGGTACTATGAAGCCCAAAAGTATCAGGGCGGCACTTCAGTTGATGTTGCCGG

Visualization of oriT structure

  oriT secondary structure

Predicted by RNAfold.

Download structure file


Relaxase

ID   928 GenBank   WP_000884352
Name   Relaxase_pSARB26_02 insolico UniProt ID   _
Length   1078 a.a. PDB ID   
Note   putative relaxase

  Relaxase protein sequence


Download         Length: 1078 a.a.        Molecular weight: 120163.41 Da        Isoelectric Point: 6.5766

>WP_000884352.1 MULTISPECIES: MobF family relaxase [Enterobacterales]
MLDITTITRQNVTSVVGYYSDAKDDYYSKDSSFTSWQGTGAEALGLSGDVESARFKELLVGEIDTFTHMQ
RHVGDAKKERLGYDLTFSAPKGVSMQALIHGDKTIIEAHEKAVAAAVREAEKLAQARTTRQGKSVTQNTN
NLVVATFRHETSRALDPDLHTHAFVMNMTQREDGQWRALKNDELMRNKMHLGDVYKQELALELTKAGYEL
RYNSKNNTFDMAHFSDEQIRAFSRRSEQIEKGLAAMGLTRETADAQTKSRVSMATREKKTEHSREEIHQE
WASRAKTLGIDFDNREWQGHGKPLEADIARNMAPDFTSPEVKADRAIQFAVKSLSERDASFERQKLIQIA
NKQVLGHATIADVEKAYLKAVQKGAIIEGEARYQSTLKVGASVMAETLTRKEWIDSLTNSGMRADKARFA
VDDGIKNGRLKKTSHRVTTVEGIRLERSILTIESRGRGQMPRQLTAEIAGQLLAGKTLKKEQMRAVTEIV
TSKDRFVAAHGYAGTGKSYMTMAAKELLESQGLKVTALAPYGTQKKALEDDGLPARTVAAFLKAKDKKLD
EKSVVFIDEAGVIPARQMKQLMEVIEKHNARAVFLGDTSQTKAVEAGKPFEQLIKAGMQTSYMKDIQRQK
NEVLLEAVKYAAEGNAARALKNITGVNELKEEAPRLAQLADRYLSLSSEQQDATLIISGTNASRKTLNDY
IRGNLGLAGTGETFTLLDRVDSTQAERRDSRYFSKGQIIIPEQDYKNGMKRGESYQVLDTGPGNKLTVES
ISGEQIAFSPRTHTKLSVYQAVSAELAPGDKVMVTRNDKTLDVANGDRFTVKTVEGEKLTLEDKKGRTVE
LDKKQASYLSYAYATTVHKSQGLTCDRVLFNIDTKSLTTSKDVFYVGISRARHEVEIFTDDKKSLASSVS
RDSPKTTAAEIDRFFGLEARFKDIGRDTSLETRSAEKGLPEATGESMAFNQKPDEHNMTTGTDYQPVSNA
EDAFHLKQNPMDDSVGLRRHEAQQNDAELAHDYAAADDQQWSAQEYADYEHYAEASDYDFDSSIYDDYAM
PQTSQAEQSHTGKEHTHEHEHEEGGHEI

  Protein domains


Predicted by InterproScan.

UvrD-like helicase C-terminal domain (UvrD_C_2)

(851-895)

TrwC relaxase (TrwC)

(16-287)

AAA domain (AAA_30)

(477-653)


  Protein structure



No available structure.




T4SS

T4SS were predicted by using oriTfinder2.

Region 1: 36534..46859

Locus tag Coordinates Strand Size (bp) Protein ID Product Description
CFSAN000624_RS24530 (CFSAN000624_024530) 32385..33818 - 1434 WP_001288435 DNA cytosine methyltransferase -
CFSAN000624_RS24535 (CFSAN000624_024535) 33912..34184 + 273 Protein_35 IS1 family transposase -
CFSAN000624_RS26585 34204..34401 - 198 WP_000844102 hypothetical protein -
CFSAN000624_RS24540 (CFSAN000624_024540) 34406..34915 - 510 WP_000893479 restriction endonuclease -
CFSAN000624_RS24545 (CFSAN000624_024545) 35103..35414 - 312 WP_001452736 hypothetical protein -
CFSAN000624_RS24550 (CFSAN000624_024550) 35450..35764 - 315 WP_000734776 TrbM/KikA/MpfK family conjugal transfer protein -
CFSAN000624_RS24555 (CFSAN000624_024555) 35727..36104 - 378 WP_000504251 hypothetical protein -
CFSAN000624_RS24560 (CFSAN000624_024560) 36120..36425 - 306 WP_000960954 H-NS family nucleoid-associated regulatory protein -
CFSAN000624_RS24565 (CFSAN000624_024565) 36534..37268 + 735 WP_000033783 lytic transglycosylase domain-containing protein virB1
CFSAN000624_RS24570 (CFSAN000624_024570) 37277..37558 + 282 WP_000440698 transcriptional repressor KorA -
CFSAN000624_RS24575 (CFSAN000624_024575) 37568..37861 + 294 WP_000209137 TrbC/VirB2 family protein virB2
CFSAN000624_RS24580 (CFSAN000624_024580) 37911..38228 + 318 WP_000496058 VirB3 family type IV secretion system protein virB3
CFSAN000624_RS24585 (CFSAN000624_024585) 38228..40828 + 2601 WP_001200711 VirB4 family type IV secretion/conjugal transfer ATPase virb4
CFSAN000624_RS24590 (CFSAN000624_024590) 40846..41559 + 714 WP_000749362 type IV secretion system protein virB5
CFSAN000624_RS24595 (CFSAN000624_024595) 41567..41794 + 228 WP_000734973 IncN-type entry exclusion lipoprotein EexN -
CFSAN000624_RS24600 (CFSAN000624_024600) 41810..42850 + 1041 WP_000886022 type IV secretion system protein virB6
CFSAN000624_RS27685 (CFSAN000624_024605) 42951..43079 + 129 WP_071882546 conjugal transfer protein TraN -
CFSAN000624_RS24610 (CFSAN000624_024610) 43069..43767 + 699 WP_000646594 type IV secretion system protein virB8
CFSAN000624_RS24615 (CFSAN000624_024615) 43778..44662 + 885 WP_000735067 TrbG/VirB9 family P-type conjugative transfer protein virB9
CFSAN000624_RS24620 (CFSAN000624_024620) 44662..45822 + 1161 WP_000101711 type IV secretion system protein VirB10 virB10
CFSAN000624_RS24625 (CFSAN000624_024625) 45864..46859 + 996 WP_000128596 ATPase, T2SS/T4P/T4SS family virB11
CFSAN000624_RS24630 (CFSAN000624_024630) 46859..47392 + 534 WP_000731969 phospholipase D family protein -

Host bacterium

ID   1316 GenBank   NZ_CP017725
Plasmid name   pSARB26_02 Incompatibility group   IncN
Plasmid size   49762 bp Coordinate of oriT [Strand]   15892..16540 [+]
Host baterium   Salmonella enterica subsp. enterica serovar Stanleyville str. CFSAN000624 strain SGSC 2518 isolate SARB61

Cargo genes

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