Detailed information of oriT

oriT

The information of the oriT region


oriTDB ID   111855
Name   oriT_pET1.2-IncN in_silico
Organism   Salmonella enterica subsp. enterica serovar Bredeney strain SA20114778WT
Sequence Completeness      -
NCBI accession of oriT (coordinates [strand])   NZ_CP043224 (30803..30903 [+], 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_pET1.2-IncN
TATTTATTTTTTTATTTTTTAAATCAGTGTGATAGCGTGATTTATCGCGCTGCGTTAGGTGTATAGCAGGTTAAGGGATAAAAAATCATCTTTTTTGGTAG

Visualization of oriT structure

  oriT secondary structure

Predicted by RNAfold.

Download structure file


Relaxase

ID   7684 GenBank   WP_011407157
Name   mobF_FYA01_RS25190_pET1.2-IncN insolico UniProt ID   A0A740S2B6
Length   1078 a.a. PDB ID   
Note   Predicted by oriTfinder 2.0

  Relaxase protein sequence


Download         Length: 1078 a.a.        Molecular weight: 120179.41 Da        Isoelectric Point: 6.5766

>WP_011407157.1 MULTISPECIES: MobF family relaxase [Enterobacterales]
MLDITTITRQNVTSVVGYYSDAKDDYYSKDSSFTSWQGTGAEALGLSGDVESARFKELLVGEIDTFTHMQ
RHVGDAKKERLGYDLTFSAPKGVSMQALIHGDKTIIEAHEKAVAAAVREAEKLAQARTTRQGKSVTQNTN
NLVVATFRHETSRALDPDLHTHAFVMNMTQREDGQWRALKNDELMRNKMHLGDVYKQELALELTKAGYEL
RYNSKNNTFDMAHFSDEQIRAFSRRSEQIEKGLAAMGLTRETADAQTKSRVSMATREKKTEHSREEIHQE
WASRAKTLGIDFDNREWQGHGKPLEADIARNMAPDFTSPEVKADRAIQFAVKSLSERDASFERQKLIQIA
NKQVLGHATIADVEKAYLKAVQKGAIIEGEARYQSTLKVGASVMAETLTRKEWIDSLTNSGMRADKARFA
VDDGIKNGRLKKTSHRVTTVEGIRLERSILTIESRGRGQMPRQLTAEIAGQLLSGKTLKKEQMRAVTEIV
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 A0A740S2B6


Auxiliary protein

ID   4177 GenBank   WP_000706094
Name   WP_000706094_pET1.2-IncN 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   8781 GenBank   WP_000342688
Name   t4cp2_FYA01_RS25195_pET1.2-IncN 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: 13813..30236

Locus tag Coordinates Strand Size (bp) Protein ID Product Description
FYA01_RS25070 (FYA01_25065) 9930..10487 + 558 WP_001235700 recombinase family protein -
FYA01_RS25075 (FYA01_25070) 10587..10988 - 402 WP_096171525 PD-(D/E)XK nuclease superfamily protein -
FYA01_RS25080 (FYA01_25075) 11197..11421 + 225 Protein_10 DDE-type integrase/transposase/recombinase -
FYA01_RS25085 (FYA01_25080) 11483..11680 - 198 WP_000844102 hypothetical protein -
FYA01_RS25090 (FYA01_25085) 11685..12194 - 510 WP_000893479 restriction endonuclease -
FYA01_RS25095 (FYA01_25090) 12382..12693 - 312 WP_001452736 hypothetical protein -
FYA01_RS25100 (FYA01_25095) 12729..13043 - 315 WP_000734776 TrbM/KikA/MpfK family conjugal transfer protein -
FYA01_RS25105 (FYA01_25100) 13006..13383 - 378 WP_000504251 hypothetical protein -
FYA01_RS25110 (FYA01_25105) 13399..13770 - 372 WP_011867773 H-NS family nucleoid-associated regulatory protein -
FYA01_RS25115 (FYA01_25110) 13813..14547 + 735 WP_000033783 lytic transglycosylase domain-containing protein virB1
FYA01_RS25120 (FYA01_25115) 14556..14837 + 282 WP_000440698 transcriptional repressor KorA -
FYA01_RS25125 (FYA01_25120) 14847..15140 + 294 WP_000209137 TrbC/VirB2 family protein virB2
FYA01_RS25130 (FYA01_25125) 15190..15507 + 318 WP_000496058 VirB3 family type IV secretion system protein virB3
FYA01_RS25135 (FYA01_25130) 15507..18107 + 2601 WP_001200711 VirB4 family type IV secretion/conjugal transfer ATPase virb4
FYA01_RS25140 (FYA01_25135) 18125..18838 + 714 WP_000749362 type IV secretion system protein virB5
FYA01_RS25145 (FYA01_25140) 18846..19073 + 228 WP_000734973 IncN-type entry exclusion lipoprotein EexN -
FYA01_RS25150 (FYA01_25145) 19089..20129 + 1041 WP_000886022 type IV secretion system protein virB6
FYA01_RS25930 (FYA01_25150) 20230..20358 + 129 WP_071882546 conjugal transfer protein TraN -
FYA01_RS25160 (FYA01_25155) 20348..21046 + 699 WP_000646594 type IV secretion system protein virB8
FYA01_RS25165 (FYA01_25160) 21057..21941 + 885 WP_000735067 TrbG/VirB9 family P-type conjugative transfer protein virB9
FYA01_RS25170 (FYA01_25165) 21941..23101 + 1161 WP_000101711 type IV secretion system protein VirB10 virB10
FYA01_RS25175 (FYA01_25170) 23143..24138 + 996 WP_000128596 ATPase, T2SS/T4P/T4SS family virB11
FYA01_RS25180 (FYA01_25175) 24138..24671 + 534 WP_000731968 phospholipase D family protein -
FYA01_RS25185 (FYA01_25180) 24845..25471 - 627 WP_000434930 DUF6710 family protein -
FYA01_RS25190 (FYA01_25185) 25471..28707 - 3237 WP_011407157 MobF family relaxase -
FYA01_RS25195 (FYA01_25190) 28707..30236 - 1530 WP_000342688 type IV secretion system DNA-binding domain-containing protein virb4
FYA01_RS25200 (FYA01_25195) 30238..30528 - 291 WP_000706094 hypothetical protein -
FYA01_RS25935 31167..31586 + 420 WP_000802909 plasmid stabilization protein StbA -
FYA01_RS25210 (FYA01_25205) 31595..32311 + 717 WP_000861577 StbB family protein -
FYA01_RS25215 (FYA01_25210) 32313..32681 + 369 WP_000414913 plasmid stabilization protein StbC -
FYA01_RS25220 (FYA01_25215) 32863..33207 + 345 WP_015059326 hypothetical protein -
FYA01_RS25225 (FYA01_25220) 33318..33638 - 321 WP_000211833 protein CcgAII -
FYA01_RS25230 (FYA01_25225) 33693..33872 - 180 WP_000214483 protein CcgAI -
FYA01_RS25235 (FYA01_25230) 34704..35213 - 510 WP_000129958 antirestriction protein ArdA -

Host bacterium

ID   12290 GenBank   NZ_CP043224
Plasmid name   pET1.2-IncN Incompatibility group   IncN
Plasmid size   42407 bp Coordinate of oriT [Strand]   30803..30903 [+]
Host baterium   Salmonella enterica subsp. enterica serovar Bredeney strain SA20114778WT

Cargo genes

Drug resistance gene   blaCTX-M-1
Virulence gene   -
Metal resistance gene   -
Degradation gene   -
Symbiosis gene   -
Anti-CRISPR   -