Detailed information of oriT

oriT

The information of the oriT region


oriTDB ID   118775
Name   oriT_pE25b in_silico
Organism   Klebsiella variicola strain E25
Sequence Completeness      -
NCBI accession of oriT (coordinates [strand])   NZ_CP067263 (33597..33697 [+], 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_pE25b
TATTTATTTTTTTATTTTTTAAATCAGTATGATAGCGTGATTTATCGCGCTGCGTTAGGTGTATAGCAGGTTAAGGGATAAAAAATCATCTTTTTTGGTAG

Visualization of oriT structure

  oriT secondary structure

Predicted by RNAfold.

Download structure file


Relaxase

ID   11910 GenBank   WP_000884351
Name   mobF_JJB14_RS27215_pE25b insolico UniProt ID   D7RVP6
Length   1076 a.a. PDB ID   
Note   Predicted by oriTfinder 2.0

  Relaxase protein sequence


Download         Length: 1076 a.a.        Molecular weight: 119897.16 Da        Isoelectric Point: 6.6071

>WP_000884351.1 MULTISPECIES: MobF family relaxase [Enterobacterales]
MLDITTITRQNVTSVVGYYSDAKDDYYSKDSSFTSWQGTGAEALGLSGDVESARFKELLVGEIDTFTHMQ
RHVGDAKKERLGYDLTFSAPKGVSMQALIHGDKTIIEAHEKAVAAAVREAEKLAQARTTRQGKSVTQNTN
NLVVATFRHETSRALDPDLHTHAFVMNMTQREDGQWRALKNDELMRNKMHLGDVYKQELALELTKAGYEL
RYNSKNNTFDMAHFSDEQIRAFSRRSEQIEKGLAAMGLTRETADAQTKSRVSMATREKKTEHSREEIHQE
WASRAKTLGIDFDNREWQGHGKPLEADIARNMAPDFTSPEVKADRAIQFAVKSLSERDASFERQKLIQIA
NKQVLGHATIADVEKAYLKAVQKGAIIEGEARYQSTLKVGASVMAETLTRKEWIDSLTNSGMRADKARFA
VDDGIKNGRLKKTSHRVTTVEGIRLERSILTIESRGRGQMPRQLTAEIAGQLLAGKTLKKEQMRAVTEIV
TSKDRFVAAHGYAGTGKSYMTMAAKELLESQGLKVTALAPYGTQKKALEDDGLPARTVAAFLKAKDKKLD
EKSVVFIDEAGVIPARQMKQLMEVIEKHNARAVFLGDTSQTKAVEAGKPFEQLIKAGMQTSYMKDIQRQK
NEVLLEAVKYAAEGNAARALKNITGVNELKEEAPRLAQLADRYLSLSSEQQDATLIISGTNASRKTLNDY
IRGNLGLAGTGETFTLLDRVDSTQAERRDSRYFSKGQIIIPEQDYKNGMKRGESYQVLDTGPGNKLTVES
ISGEQIAFSPRTHTKLSVYQAVSAELAPGDKVMVTRNDKTLDVANGDRFTVKTVEGEKLTLEDKKGRTVE
LDKKQASYLSYAYATTVHKSQGLTCDRVLFNIDTKSLTTSKDVFYVGISRARHEVEIFTDDKKSLASSVS
RDSPKTTAAEIDRFFGLEARFKDIGRDTSLETRSAEKGLPEATGESMAFNQKPDEHNMTTGTDYQPVSNA
EDAFHLKQNPMDDSVGLRRHEAQQNDAELAHDYAAADDQQWSAQEYADYEHYAEASDYDFDSSIYDDYAM
PQTSQAEQSHTGKEHTHEHEEGGHEI

  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 D7RVP6


Auxiliary protein

ID   6812 GenBank   WP_001532083
Name   WP_001532083_pE25b 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   13940 GenBank   WP_000342688
Name   t4cp2_JJB14_RS27220_pE25b 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: 8376..18701

Locus tag Coordinates Strand Size (bp) Protein ID Product Description
JJB14_RS27055 (JJB14_27050) 4228..5661 - 1434 WP_001288433 DNA cytosine methyltransferase -
JJB14_RS27060 (JJB14_27055) 5755..6026 + 272 Protein_4 IS1 family transposase -
JJB14_RS27065 (JJB14_27060) 6046..6243 - 198 WP_013188474 hypothetical protein -
JJB14_RS27070 (JJB14_27065) 6248..6895 - 648 WP_001532074 restriction endonuclease -
JJB14_RS27075 (JJB14_27070) 6945..7256 - 312 WP_001452736 hypothetical protein -
JJB14_RS27080 (JJB14_27075) 7292..7606 - 315 WP_001749965 TrbM/KikA/MpfK family conjugal transfer protein -
JJB14_RS27085 (JJB14_27080) 7569..7946 - 378 WP_000504250 hypothetical protein -
JJB14_RS27090 (JJB14_27085) 7962..8333 - 372 WP_011867773 H-NS family nucleoid-associated regulatory protein -
JJB14_RS27095 (JJB14_27090) 8376..9110 + 735 WP_000033783 lytic transglycosylase domain-containing protein virB1
JJB14_RS27100 (JJB14_27095) 9119..9400 + 282 WP_000440698 transcriptional repressor KorA -
JJB14_RS27105 (JJB14_27100) 9410..9703 + 294 WP_000209137 TrbC/VirB2 family protein virB2
JJB14_RS27110 (JJB14_27105) 9753..10070 + 318 WP_000496058 VirB3 family type IV secretion system protein virB3
JJB14_RS27115 (JJB14_27110) 10070..12670 + 2601 WP_001200711 VirB4 family type IV secretion/conjugal transfer ATPase virb4
JJB14_RS27120 (JJB14_27115) 12688..13401 + 714 WP_000749362 type IV secretion system protein virB5
JJB14_RS27125 (JJB14_27120) 13409..13636 + 228 WP_000734973 IncN-type entry exclusion lipoprotein EexN -
JJB14_RS27130 (JJB14_27125) 13652..14692 + 1041 WP_000886022 type IV secretion system protein virB6
JJB14_RS27675 14793..14921 + 129 WP_071882546 conjugal transfer protein TraN -
JJB14_RS27135 (JJB14_27130) 14911..15609 + 699 WP_000646594 virB8 family protein virB8
JJB14_RS27140 (JJB14_27135) 15620..16504 + 885 WP_000735067 TrbG/VirB9 family P-type conjugative transfer protein virB9
JJB14_RS27145 (JJB14_27140) 16504..17664 + 1161 WP_000101712 type IV secretion system protein VirB10 virB10
JJB14_RS27150 (JJB14_27145) 17706..18701 + 996 WP_000128596 ATPase, T2SS/T4P/T4SS family virB11
JJB14_RS27155 (JJB14_27150) 18701..19234 + 534 WP_000731968 phospholipase D family protein -
JJB14_RS27160 (JJB14_27155) 19403..20917 - 1515 Protein_25 Tn3-like element TnAs1 family transposase -
JJB14_RS27165 (JJB14_27160) 20983..21687 + 705 WP_001067855 IS6-like element IS26 family transposase -
JJB14_RS27170 (JJB14_27165) 21990..22865 + 876 WP_001617865 extended-spectrum class A beta-lactamase CTX-M-14 -
JJB14_RS27175 (JJB14_27170) 22900..23217 + 318 Protein_28 IS5/IS1182 family transposase -

Host bacterium

ID   19207 GenBank   NZ_CP067263
Plasmid name   pE25b Incompatibility group   IncN
Plasmid size   45201 bp Coordinate of oriT [Strand]   33597..33697 [+]
Host baterium   Klebsiella variicola strain E25

Cargo genes

Drug resistance gene   blaCTX-M-14, fosA3
Virulence gene   -
Metal resistance gene   -
Degradation gene   -
Symbiosis gene   -
Anti-CRISPR   -