Detailed information of oriT

oriT

The information of the oriT region


oriTDB ID   114376
Name   oriT_pSa1423-50K in_silico
Organism   Salmonella sp. strain Sa1423
Sequence Completeness      -
NCBI accession of oriT (coordinates [strand])   NZ_MK356560 (37675..37775 [+], 101 nt)
oriT length   101 nt
IRs (inverted repeats)      80..85, 91..96  (AAAAAA..TTTTTT)
 20..26, 38..44  (TAAATCA..TGATTTA)
Location of nic site      62..63
Conserved sequence flanking the
  nic site    		  GGTGTATAGC
Note   Predicted by oriTfinder 2.0

  oriT sequence  


Download         Length: 101 nt

>oriT_pSa1423-50K
TATTTATTTTTTTATTTTTTAAATCAGTATGATAGCGTGATTTATCGCGCTGCGTTAGGTGTATAGCAGGTTAAGGGATAAAAAATCATCTTTTTTGGTAG

Visualization of oriT structure

  oriT secondary structure

Predicted by RNAfold.

Download structure file


Relaxase

ID   9217 GenBank   WP_000884352
Name   mobF_HXJ03_RS00195_pSa1423-50K insolico UniProt ID   A8R732
Length   1078 a.a. PDB ID   
Note   Predicted by oriTfinder 2.0

  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


Source ID Structure
AlphaFold DB A8R732


Auxiliary protein

ID   5403 GenBank   WP_172694008
Name   WP_172694008_pSa1423-50K insolico UniProt ID   _
Length   138 a.a. PDB ID   _
Note   Predicted by oriTfinder 2.0

  Auxiliary protein sequence


Download         Length: 138 a.a.        Molecular weight: 15318.58 Da        Isoelectric Point: 5.9670

>WP_172694008.1 MULTISPECIES: traK protein [Enterobacteriaceae]
MPIITAKVSDELLAYIDLVSGGNRSDYLRRCLEAGPGDRESGVKIVADRLSDVNRKLDYLFDRASDADFG
PLRDELKAITETLSGVKFPPAGQMMLHESLAIETLILLRSIAEPGKTKAAKAEVERNGYKVWEPKKER

  Protein domains



No domain identified.



  Protein structure



No available structure.




T4CP

ID   10683 GenBank   WP_000342688
Name   t4cp2_HXJ03_RS00200_pSa1423-50K insolico UniProt ID   _
Length   509 a.a. PDB ID   _
Note   Predicted by oriTfinder 2.0

  T4CP protein sequence


Download         Length: 509 a.a.        Molecular weight: 57762.87 Da        Isoelectric Point: 9.6551

>WP_000342688.1 MULTISPECIES: type IV secretion system DNA-binding domain-containing protein [Enterobacterales]
MDDRERGLAFLFAITLPPVMVWFLVAKFTYGIDPSTAKYLIPYLVKNTFSLWPLWSALIAGWFIGVGGLI
AFIIYDKSRVFKGERFKKIYRGTELVRARTLADKTRERGVNQLTVANIPIPTYAENLHFSIAGTTGTGKT
TIFNELLFKSIIRGGKNIALDPNGGFLKNFYRPGDVILNAYDKRTEGWVFFNEIRRSYDYERLVNSIVQE
SPDMATEEWFGYGRLIFSEVSKKLHSLYSTVTMEEVIHWACNVDQKKLKEFLMGTPAEAIFSGSEKAVGS
ARFVLSKNLAPHLKMPEGNFSLRDWLDDGKPGTLFITWQEEMKRSLNPLISCWLDSIFSIVLGMGEKESR
INVFIDELESLQFLPNLNDALTKGRKSGLCVYAGYQTYSQLVKVYGRDMAQTILANMRSNIVLGGSRLGD
ETLDQMSRSLGEIEGEVERKESDPQKPWIVRKRRDVKVVRAVTPTEISMLPNLTGYLALPGDMPVAKFKA
KHVKYHRKNPVPGIELREI

  Protein domains


Predicted by InterproScan.

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

(113-489)

  Protein structure



No available structure.




T4SS

T4SS were predicted by using oriTfinder2.

Region 1: 20685..37108

Locus tag Coordinates Strand Size (bp) Protein ID Product Description
HXJ03_RS00085 (NNIBIDOC_00261) 15861..16559 + 699 WP_001390335 EamA family transporter -
HXJ03_RS00090 (NNIBIDOC_00262) 16591..17790 - 1200 WP_001493765 tetracycline efflux MFS transporter Tet(A) -
HXJ03_RS00095 (NNIBIDOC_00263) 17896..18546 + 651 WP_001493764 tetracycline resistance transcriptional repressor TetR(A) -
HXJ03_RS00100 18578..18820 - 243 WP_000844627 transposase -
HXJ03_RS00105 (NNIBIDOC_00264) 18878..19378 - 501 Protein_20 Tn3 family transposase -
HXJ03_RS00110 (NNIBIDOC_00265) 19444..20148 + 705 WP_001067858 IS6-like element IS26 family transposase -
HXJ03_RS00115 (NNIBIDOC_00267) 20271..20642 - 372 WP_011867773 H-NS family nucleoid-associated regulatory protein -
HXJ03_RS00120 (NNIBIDOC_00268) 20685..21419 + 735 WP_000033783 lytic transglycosylase domain-containing protein virB1
HXJ03_RS00125 (NNIBIDOC_00269) 21428..21709 + 282 WP_000440698 transcriptional repressor KorA -
HXJ03_RS00130 (NNIBIDOC_00270) 21719..22012 + 294 WP_000209137 TrbC/VirB2 family protein virB2
HXJ03_RS00135 (NNIBIDOC_00271) 22062..22379 + 318 WP_000496058 VirB3 family type IV secretion system protein virB3
HXJ03_RS00140 (NNIBIDOC_00272) 22379..24979 + 2601 WP_001200711 VirB4 family type IV secretion/conjugal transfer ATPase virb4
HXJ03_RS00145 (NNIBIDOC_00273) 24997..25710 + 714 WP_000749362 type IV secretion system protein virB5
HXJ03_RS00150 (NNIBIDOC_00274) 25718..25945 + 228 WP_000734973 IncN-type entry exclusion lipoprotein EexN -
HXJ03_RS00155 (NNIBIDOC_00275) 25961..27001 + 1041 WP_000886022 type IV secretion system protein virB6
HXJ03_RS00160 27072..27230 + 159 WP_012561180 hypothetical protein -
HXJ03_RS00165 (NNIBIDOC_00276) 27220..27918 + 699 WP_000646594 virB8 family protein virB8
HXJ03_RS00170 (NNIBIDOC_00277) 27929..28813 + 885 WP_000735067 TrbG/VirB9 family P-type conjugative transfer protein virB9
HXJ03_RS00175 (NNIBIDOC_00278) 28813..29973 + 1161 WP_000101711 type IV secretion system protein VirB10 virB10
HXJ03_RS00180 (NNIBIDOC_00279) 30015..31010 + 996 WP_000128596 ATPase, T2SS/T4P/T4SS family virB11
HXJ03_RS00185 (NNIBIDOC_00280) 31010..31543 + 534 WP_000731968 phospholipase D family protein -
HXJ03_RS00190 (NNIBIDOC_00281) 31717..32343 - 627 WP_000434930 DUF6710 family protein -
HXJ03_RS00195 (NNIBIDOC_00282) 32343..35579 - 3237 WP_000884352 MobF family relaxase -
HXJ03_RS00200 (NNIBIDOC_00283) 35579..37108 - 1530 WP_000342688 type IV secretion system DNA-binding domain-containing protein virb4
HXJ03_RS00205 (NNIBIDOC_00284) 37110..37526 - 417 WP_172694008 traK protein -
HXJ03_RS00290 (NNIBIDOC_00285) 38039..38458 + 420 WP_063815362 plasmid stabilization protein StbA -
HXJ03_RS00215 (NNIBIDOC_00286) 38467..39183 + 717 WP_000861577 StbB family protein -
HXJ03_RS00220 (NNIBIDOC_00287) 39185..39553 + 369 WP_000414913 plasmid stabilization protein StbC -
HXJ03_RS00225 (NNIBIDOC_00288) 39735..40079 + 345 WP_000999874 hypothetical protein -
HXJ03_RS00230 (NNIBIDOC_00289) 40190..40510 - 321 WP_000211832 protein CcgAII -
HXJ03_RS00235 (NNIBIDOC_00290) 40565..40744 - 180 WP_000214483 protein CcgAI -
HXJ03_RS00240 (NNIBIDOC_00291) 41576..42085 - 510 WP_000129958 antirestriction protein ArdA -

Host bacterium

ID   14811 GenBank   NZ_MK356560
Plasmid name   pSa1423-50K Incompatibility group   IncN
Plasmid size   49279 bp Coordinate of oriT [Strand]   37675..37775 [+]
Host baterium   Salmonella sp. strain Sa1423

Cargo genes

Drug resistance gene   tet(A)
Virulence gene   -
Metal resistance gene   -
Degradation gene   -
Symbiosis gene   -
Anti-CRISPR   -