Detailed information of oriT

oriT

The information of the oriT region


oriTDB ID   105708
Name   oriT_pYUSHP2-3 in_silico
Organism   Enterobacter hormaechei strain SH19PTE2
Sequence Completeness      -
NCBI accession of oriT (coordinates [strand])   NZ_CP073774 (33067..33167 [+], 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_pYUSHP2-3
TATTTATTTTTTTATTTTTTAAATCAGTGTGATAGCGTGATTTATCGCGCTGCGTTAGGTGTATAGCAGGTTAAGGGATAAAAAATCATCTTTTTTGGTAG

Visualization of oriT structure

  oriT secondary structure

Predicted by RNAfold.

Download structure file


Relaxase

ID   3864 GenBank   WP_000884352
Name   mobF_KFO54_RS25255_pYUSHP2-3 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   1748 GenBank   WP_001532083
Name   WP_001532083_pYUSHP2-3 insolico UniProt ID   A8R734
Length   138 a.a. PDB ID   _
Note   Predicted by oriTfinder 2.0

  Auxiliary protein sequence


Download         Length: 138 a.a.        Molecular weight: 15332.60 Da        Isoelectric Point: 5.9670

>WP_001532083.1 MULTISPECIES: hypothetical protein [Enterobacterales]
MPIITAKVSDELLAYIDLVSGGNRSDYLRRCLEAGPGDRESGLKIVADRLSDVNRKLDYLFDRASDADFG
PLRDELKAITETLSGVKFPPAGQMMLHESLAIETLILLRSIAEPGKTKAAKAEVERNGYKVWEPKKER

  Protein domains



No domain identified.



  Protein structure


Source ID Structure
AlphaFold DB A8R734


T4CP

ID   3877 GenBank   WP_000342688
Name   t4cp2_KFO54_RS25260_pYUSHP2-3 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: 8060..18385

Locus tag Coordinates Strand Size (bp) Protein ID Product Description
KFO54_RS25105 (KFO54_25105) 3617..4321 - 705 WP_001067858 IS6-like element IS26 family transposase -
KFO54_RS25110 (KFO54_25110) 4382..4801 + 420 Protein_3 IS3 family transposase -
KFO54_RS25115 (KFO54_25115) 4864..5667 + 804 WP_001082320 aminoglycoside O-phosphotransferase APH(3'')-Ib -
KFO54_RS25120 (KFO54_25120) 5667..6503 + 837 WP_001495812 APH(6)-I family aminoglycoside O-phosphotransferase -
KFO54_RS25125 (KFO54_25125) 6629..6940 - 312 WP_001452736 hypothetical protein -
KFO54_RS25130 (KFO54_25130) 6976..7290 - 315 WP_000734776 TrbM/KikA/MpfK family conjugal transfer protein -
KFO54_RS25135 (KFO54_25135) 7253..7630 - 378 WP_000504251 hypothetical protein -
KFO54_RS25140 (KFO54_25140) 7646..8017 - 372 WP_011867773 H-NS family nucleoid-associated regulatory protein -
KFO54_RS25145 (KFO54_25145) 8060..8794 + 735 WP_000033783 lytic transglycosylase domain-containing protein virB1
KFO54_RS25150 (KFO54_25150) 8803..9084 + 282 WP_000440698 transcriptional repressor KorA -
KFO54_RS25155 (KFO54_25155) 9094..9387 + 294 WP_000209137 TrbC/VirB2 family protein virB2
KFO54_RS25160 (KFO54_25160) 9437..9754 + 318 WP_000496058 VirB3 family type IV secretion system protein virB3
KFO54_RS25165 (KFO54_25165) 9886..12354 + 2469 WP_225303560 VirB4 family type IV secretion/conjugal transfer ATPase virb4
KFO54_RS25170 (KFO54_25170) 12372..13085 + 714 WP_000749362 type IV secretion system protein virB5
KFO54_RS25175 (KFO54_25175) 13093..13320 + 228 WP_000734973 IncN-type entry exclusion lipoprotein EexN -
KFO54_RS25180 (KFO54_25180) 13336..14376 + 1041 WP_000886022 type IV secretion system protein virB6
KFO54_RS25740 14477..14605 + 129 WP_071882546 conjugal transfer protein TraN -
KFO54_RS25185 (KFO54_25185) 14595..15293 + 699 WP_000646594 type IV secretion system protein virB8
KFO54_RS25190 (KFO54_25190) 15304..16188 + 885 WP_000735067 TrbG/VirB9 family P-type conjugative transfer protein virB9
KFO54_RS25195 (KFO54_25195) 16188..17348 + 1161 WP_000101711 type IV secretion system protein VirB10 virB10
KFO54_RS25200 (KFO54_25200) 17390..18385 + 996 WP_000128596 ATPase, T2SS/T4P/T4SS family virB11
KFO54_RS25205 (KFO54_25205) 18385..18918 + 534 WP_000731968 phospholipase D family protein -
KFO54_RS25660 19092..19586 - 495 WP_306415314 DUF6710 family protein -
KFO54_RS25215 (KFO54_25215) 19658..22690 - 3033 WP_050576375 Tn3-like element Tn3 family transposase -
KFO54_RS25220 (KFO54_25220) 22681..23385 + 705 WP_001067855 IS6-like element IS26 family transposase -

Host bacterium

ID   6145 GenBank   NZ_CP073774
Plasmid name   pYUSHP2-3 Incompatibility group   IncN
Plasmid size   44286 bp Coordinate of oriT [Strand]   33067..33167 [+]
Host baterium   Enterobacter hormaechei strain SH19PTE2

Cargo genes

Drug resistance gene   aph(3'')-Ib, aph(6)-Id, rmtB, blaTEM-1B
Virulence gene   -
Metal resistance gene   -
Degradation gene   -
Symbiosis gene   -
Anti-CRISPR   -