Detailed information of oriT

oriT

The information of the oriT region


oriTDB ID   105553
Name   oriT_pSNE1-1925 in_silico
Organism   Salmonella enterica subsp. enterica serovar Newport str. USDA-ARS-USMARC-1925
Sequence Completeness      -
NCBI accession of oriT (coordinates [strand])   NZ_CP025233 (48995..49095 [+], 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_pSNE1-1925
TATTTATTTTTTTATTTTTTAAATCAGTGTGATAGCGTGATTTATCGCGCTGCGTTAGGTGTATAGCAGGTTAAGGGATAAAAAATCATCTTTTTTGGTAG

Visualization of oriT structure

  oriT secondary structure

Predicted by RNAfold.

Download structure file


Relaxase

ID   3782 GenBank   WP_000884352
Name   mobF_AW81_RS24145_pSNE1-1925 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   1716 GenBank   WP_000706094
Name   WP_000706094_pSNE1-1925 insolico UniProt ID   B6UZ32
Length   96 a.a. PDB ID   _
Note   Predicted by oriTfinder 2.0

  Auxiliary protein sequence


Download         Length: 96 a.a.        Molecular weight: 10829.54 Da        Isoelectric Point: 8.5040

>WP_000706094.1 MULTISPECIES: hypothetical protein [Enterobacterales]
MKIVADRLSDVNRKLDYLFDRASDADFGPLRDELKAITETLSGVKFPPAGQMMLHESLAIETLILLRSIA
EPGKTKAAKAEVERNGYKVWEPKKER

  Protein domains



No domain identified.



  Protein structure


Source ID Structure
AlphaFold DB B6UZ32


T4CP

ID   3776 GenBank   WP_000342687
Name   t4cp2_AW81_RS24150_pSNE1-1925 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: 57774.92 Da        Isoelectric Point: 9.6551

>WP_000342687.1 MULTISPECIES: type IV secretion system DNA-binding domain-containing protein [Enterobacteriaceae]
MDDRERGLAFLFAITLPPVMVWFLVAKFTYGIDPSTAKYLIPYLVKNTFSLWPLWSALIAGWFIGVGGLI
AFIIYDKSRVFKGERFKKIYRGTELVRARILADKTRERGVNQLTVANIPIPTYAENLHFSIAGTTGTGKT
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: 8785..19110

Locus tag Coordinates Strand Size (bp) Protein ID Product Description
AW81_RS23900 (AW81_24435) 4636..6069 - 1434 WP_001288435 DNA cytosine methyltransferase -
AW81_RS23905 (AW81_24440) 6163..6435 + 273 Protein_4 IS1 family transposase -
AW81_RS23910 (AW81_24445) 6455..6652 - 198 WP_000844102 hypothetical protein -
AW81_RS23915 (AW81_24450) 6657..7166 - 510 WP_000893479 restriction endonuclease -
AW81_RS23920 (AW81_24455) 7354..7665 - 312 WP_001452736 hypothetical protein -
AW81_RS23925 (AW81_24460) 7701..8015 - 315 WP_000734776 TrbM/KikA/MpfK family conjugal transfer protein -
AW81_RS23930 (AW81_24465) 7978..8355 - 378 WP_000504251 hypothetical protein -
AW81_RS23935 (AW81_24470) 8371..8742 - 372 WP_011867773 H-NS family nucleoid-associated regulatory protein -
AW81_RS23940 (AW81_24475) 8785..9519 + 735 WP_000033783 lytic transglycosylase domain-containing protein virB1
AW81_RS23945 (AW81_24480) 9528..9809 + 282 WP_000440698 transcriptional repressor KorA -
AW81_RS23950 (AW81_24485) 9819..10112 + 294 WP_000209137 TrbC/VirB2 family protein virB2
AW81_RS23955 (AW81_24490) 10162..10479 + 318 WP_000496058 VirB3 family type IV secretion system protein virB3
AW81_RS23960 (AW81_24495) 10479..13079 + 2601 WP_001200711 VirB4 family type IV secretion/conjugal transfer ATPase virb4
AW81_RS23965 (AW81_24500) 13097..13810 + 714 WP_000749362 type IV secretion system protein virB5
AW81_RS23970 (AW81_24505) 13818..14045 + 228 WP_000734973 IncN-type entry exclusion lipoprotein EexN -
AW81_RS23975 (AW81_24510) 14061..15101 + 1041 WP_000886022 type IV secretion system protein virB6
AW81_RS24755 (AW81_24515) 15202..15330 + 129 WP_071882546 conjugal transfer protein TraN -
AW81_RS23985 (AW81_24520) 15320..16018 + 699 WP_000646594 type IV secretion system protein virB8
AW81_RS23990 (AW81_24525) 16029..16913 + 885 WP_024129963 TrbG/VirB9 family P-type conjugative transfer protein virB9
AW81_RS23995 (AW81_24530) 16913..18073 + 1161 WP_000101711 type IV secretion system protein VirB10 virB10
AW81_RS24000 (AW81_24535) 18115..19110 + 996 WP_000128596 ATPase, T2SS/T4P/T4SS family virB11
AW81_RS24005 (AW81_24540) 19110..19643 + 534 WP_000731969 phospholipase D family protein -
AW81_RS24015 (AW81_24545) 19885..21636 - 1752 Protein_25 Tn3-like element TnAs1 family transposase -
AW81_RS24020 (AW81_24550) 21640..22032 + 393 WP_001351729 isochorismatase family cysteine hydrolase -
AW81_RS24025 (AW81_24555) 22170..23054 + 885 WP_000058717 EamA family transporter -

Host bacterium

ID   5991 GenBank   NZ_CP025233
Plasmid name   pSNE1-1925 Incompatibility group   IncN
Plasmid size   60586 bp Coordinate of oriT [Strand]   48995..49095 [+]
Host baterium   Salmonella enterica subsp. enterica serovar Newport str. USDA-ARS-USMARC-1925

Cargo genes

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