Detailed information of oriT

oriT

The information of the oriT region


oriTDB ID   117554
Name   oriT_pWP4-W18-ESBL-05_2 in_silico
Organism   Klebsiella sp. WP4-W18-ESBL-05
Sequence Completeness      -
NCBI accession of oriT (coordinates [strand])   NZ_AP022059 (54960..55060 [+], 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_pWP4-W18-ESBL-05_2
TATTTATTTTTTTATCTTTTAAATCAGTACGATAGCGTGATTTATCGCGCTGCGTTAGGTGTATAGCAGGTTAAGGGATAAAAAATCATCTTTTTTGGTAG

Visualization of oriT structure

  oriT secondary structure

Predicted by RNAfold.

Download structure file


Relaxase

ID   11188 GenBank   WP_012561142
Name   mobF_H7R58_RS25010_pWP4-W18-ESBL-05_2 insolico UniProt ID   A0A1S6KKJ9
Length   1078 a.a. PDB ID   
Note   Predicted by oriTfinder 2.0

  Relaxase protein sequence


Download         Length: 1078 a.a.        Molecular weight: 120195.37 Da        Isoelectric Point: 6.5230

>WP_012561142.1 MULTISPECIES: MobF family relaxase [Enterobacterales]
MLDITTITRQNVTSVVGYYSDAKDDYYSKDSSFTSWQGTGAEALGLSGDVESARFKELLVGEIDTFTHMQ
RHVGDAKKERLGYDLTFSAPKGVSMQALIHGDKTIIEAHEKAVAAAVREAEKLAQARTTRQGKSVTQNTN
NLVVATFRHETSRALDPDLHTHAFVMNMTQREDGQWRALKNDELMRNKMHLGDVYKQELALELTKAGYEL
RYNSKNNTFDMAHFSDEQIRAFSRRSEQIEKGLAAMGLTRETADAQTKSRVSMATREKKTEHSREEIHQE
WASRAKTLGIDFDNREWQGHGKPLEADIARNMAPDFTSPEVKADRAIQFAVKSLSERDASFERQKLIQIA
NKQVLGHATIADVEKAYLKAVQKGAIIEGEARYQSTLKVGASVMAETLTRKEWIDSLTNSGMRADKARFA
VDDGIKNGRLKKTSHRVTTVEGIRLERSILTIESRGRGQMPRQLTAEIAGQLLAGKTLKKEQMRAVTEIV
TSKDRFVAAHGYAGTGKSYMTMAAKELLESQGLKVTALAPYGTQKKALEDDGLPARTVAAFLKAKDKKLD
EKSVVFIDEAGVIPARQMKQLMEVIEKHNARAVFLGDTSQTKAVEAGKPFEQLIKADMQTSYMKDIQRQK
NEVLLEAVKYAAEGNAARALKNITGVNELKEEAPRLAQLADRYLSLSSEQQDATLIISGTNASRKTLNDY
IRGNLGLAGTGETFTLLDRVDSTQAERRDSRYFSKGQIIIPEQDYKNGMKRGESYQVLDTGPGNKLTVES
SSGEQIAFSPRTHTKLSVYQAVSAELAPGDKVMVTRNDKTLDVANGDRFTVKTVEGEKLTLEDKKGRTVE
LDKKQASYLSYAYATTVHKSQGLTCDRVLFNIDTKSLTTSKDVFYVGISRARHEVEIFTDDKKSLASSVS
RDSPKTTAAEIDRFFGLEARFKDIGRDTSLETRSAEKGLPEATGESMAFNQKPDEHNMTTGTDYQPVSNA
EDAFHLKQNPMDDSVGLRRHEAQQNDAELAHDYAAADDQQWSAQEYADYEHYAEASDYDFDSSIYDDYAM
PQTSQAEQSHTGKEHTHEHEHEEGGHEI

  Protein domains


Predicted by InterproScan.

UvrD-like helicase C-terminal domain (UvrD_C_2)

(851-895)

AAA domain (AAA_30)

(477-653)

TrwC relaxase (TrwC)

(16-287)


  Protein structure


Source ID Structure
AlphaFold DB A0A1S6KKJ9


Auxiliary protein

ID   6474 GenBank   WP_001749975
Name   WP_001749975_pWP4-W18-ESBL-05_2 insolico UniProt ID   A0A5C2CVS6
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_001749975.1 MULTISPECIES: hypothetical protein [Gammaproteobacteria]
MPIITAKVSDELLAYIDLVSGGNRSDYLRRCIEAGPGDRESGLKIVADRLSDVNRKLDYLFDRASDADFG
PLRDELKAITETLSGVKFPPAGQMMLHESLAIETLILLRSIAEPGKTKAAKAEVERNGYKVWEPKKER

  Protein domains



No domain identified.



  Protein structure


Source ID Structure
AlphaFold DB A0A5C2CVS6


T4CP

ID   13071 GenBank   WP_000342688
Name   t4cp2_H7R58_RS25015_pWP4-W18-ESBL-05_2 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: 6423..16751

Locus tag Coordinates Strand Size (bp) Protein ID Product Description
H7R58_RS24680 (WP4W18E05_P20030) 2268..3701 - 1434 WP_001288432 DNA cytosine methyltransferase -
H7R58_RS24685 (WP4W18E05_P20040) 3800..4072 + 273 Protein_3 IS1 family transposase -
H7R58_RS24690 4083..4289 - 207 WP_001749967 hypothetical protein -
H7R58_RS24695 (WP4W18E05_P20050) 4294..4935 - 642 WP_012561158 restriction endonuclease -
H7R58_RS24700 (WP4W18E05_P20060) 4991..5302 - 312 WP_013279382 hypothetical protein -
H7R58_RS24705 (WP4W18E05_P20070) 5338..5652 - 315 WP_016338363 TrbM/KikA/MpfK family conjugal transfer protein -
H7R58_RS24710 (WP4W18E05_P20080) 5649..5993 - 345 WP_012561155 hypothetical protein -
H7R58_RS24715 (WP4W18E05_P20090) 6009..6314 - 306 WP_012561154 H-NS family nucleoid-associated regulatory protein -
H7R58_RS24720 (WP4W18E05_P20100) 6423..7160 + 738 WP_109547639 lytic transglycosylase domain-containing protein virB1
H7R58_RS24725 (WP4W18E05_P20110) 7169..7450 + 282 WP_016338364 transcriptional repressor KorA -
H7R58_RS24730 (WP4W18E05_P20120) 7460..7753 + 294 WP_001749962 hypothetical protein virB2
H7R58_RS24735 (WP4W18E05_P20130) 7803..8120 + 318 WP_000496058 VirB3 family type IV secretion system protein virB3
H7R58_RS24740 (WP4W18E05_P20140) 8252..10720 + 2469 WP_223669807 VirB4 family type IV secretion/conjugal transfer ATPase virb4
H7R58_RS24745 (WP4W18E05_P20150) 10738..11451 + 714 WP_001749960 type IV secretion system protein virB5
H7R58_RS24750 (WP4W18E05_P20160) 11459..11686 + 228 WP_001749959 IncN-type entry exclusion lipoprotein EexN -
H7R58_RS24755 (WP4W18E05_P20170) 11702..12742 + 1041 WP_001749958 type IV secretion system protein virB6
H7R58_RS24760 (WP4W18E05_P20180) 12961..13659 + 699 WP_000646594 virB8 family protein virB8
H7R58_RS24765 (WP4W18E05_P20190) 13670..14554 + 885 WP_000735066 TrbG/VirB9 family P-type conjugative transfer protein virB9
H7R58_RS24770 (WP4W18E05_P20200) 14554..15714 + 1161 WP_012561145 type IV secretion system protein VirB10 virB10
H7R58_RS24775 (WP4W18E05_P20210) 15756..16751 + 996 WP_012561144 ATPase, T2SS/T4P/T4SS family virB11
H7R58_RS24780 (WP4W18E05_P20220) 16751..17284 + 534 WP_000792636 phospholipase D family protein -
H7R58_RS24785 (WP4W18E05_P20230) 17457..17771 - 315 WP_000091613 hypothetical protein -
H7R58_RS24790 (WP4W18E05_P20240) 18173..19177 - 1005 WP_022542389 IS110-like element IS4321 family transposase -
H7R58_RS25565 19262..19423 - 162 WP_107835450 Tn3 family transposase -
H7R58_RS24800 (WP4W18E05_P20250) 19617..20369 - 753 WP_004729622 S9 family peptidase -
H7R58_RS24805 (WP4W18E05_P20260) 20610..21479 + 870 WP_001567390 DMT family transporter -

Host bacterium

ID   17987 GenBank   NZ_AP022059
Plasmid name   pWP4-W18-ESBL-05_2 Incompatibility group   IncN
Plasmid size   69620 bp Coordinate of oriT [Strand]   54960..55060 [+]
Host baterium   Klebsiella sp. WP4-W18-ESBL-05

Cargo genes

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