Detailed information of oriT

oriT


The information of the oriT region


oriTDB ID   100075
Name   oriT1_pOLA52 in_silico
Organism   Escherichia coli
Sequence Completeness      incomplete
NCBI accession of oriT (coordinates [strand])   NC_010378 ( 36250..36275 [-], 26 nt)
oriT length   26 nt
IRs (inverted repeats)     _
Location of nic site      18..19
Conserved sequence flanking the
  nic site  
 
 TATCCTG|C
Note   oriT_pOLA52 (30771..30796)

  oriT sequence  


Download         Length: 26 nt

>oriT1_pOLA52
GGCGTTTGCCCTATCCTGCATCGCAG

Visualization of oriT structure

  oriT secondary structure

Predicted by RNAfold.

Download structure file

  Reference


[1] Norman A et al. (2008) Nucleotide sequence of pOLA52: a conjugative IncX1 plasmid from Escherichia coli which enables biofilm formation and multidrug efflux. Plasmid. 60(1):59-74. [PMID:18440636]


Relaxase


ID   71 GenBank   YP_001693207
Name   TaxC_pOLA52(IncX1) insolico UniProt ID   B0ZDZ0
Length   388 a.a. PDB ID   
Note   relaxase

  Relaxase protein sequence


Download         Length: 388 a.a.        Molecular weight: 44497.84 Da        Isoelectric Point: 10.5286

>YP_001693207.1 TaxC protein (plasmid) [Escherichia coli]
MGVYVDKEHRVKRKSSENGRKSAFAHKVKNGGKNYSRNVQERINRKGASKEVVVKISGGAVTRQGIRNSI
DYMSRESELPVMSESGRVWTGDEILEAKEHMIDRANDPQHVMNDKGKENKKITQNIVFSPPVSAKVKPED
LLESVRKTMQKKYPNHRFVLGYHCDKKEHPHVHVVFRIRDNDGKRADIRKKDLREIRTGFCEELKLKGYD
VKATHKQQHGLNQSVKDAHNTAPKRQKGVYEVVDIGYDHYQNDKTKSKQHFIKLKTLNKGVEKTYWGADF
GDLCSRESVKAGDLVRLKKLGQKEVKIPALDKNGVQHGWKTVHRNEWQLENLGVKGVDRTPSASKELVLN
SPDMLLKQQQRMAQFTQQKASTLQSEQKLKTGIKFFNI

  Protein domains


Predicted by InterproScan.

(70-228)


  Protein structure


Source ID Structure
AlphaFold DB B0ZDZ0

  Reference


[1] Norman A et al. (2008) Nucleotide sequence of pOLA52: a conjugative IncX1 plasmid from Escherichia coli which enables biofilm formation and multidrug efflux. Plasmid. 60(1):59-74. [PMID:18440636]


Auxiliary protein


ID   103 GenBank   YP_001693208
Name   TaxA_pOLA52 insolico UniProt ID   B0ZDZ1
Length   181 a.a. PDB ID   _
Note   auxilary protein; similar to TaxA from R6K

  Auxiliary protein sequence


Download         Length: 181 a.a.        Molecular weight: 21363.44 Da        Isoelectric Point: 7.6939

>YP_001693208.1 hypothetical protein pOLA52_37 (plasmid) [Escherichia coli]
MKKVQFRIDENQHDDLLDCLKTLYPDEPALTVAKGMKLLANALLKSKAVSKDINTFFDNNDFIKTTMYLT
GKQRADIERAANRHGWTLSRECRYRIQTTLENELDFFDQELLMMNRCRNSIDKIGRNFHYIIVNDQTRVL
DKDGFYQDAERLTTEIFNLKNQFENYIMLCKGRTVSNKVEM

  Protein domains



No domain identified.



  Protein structure


Source ID Structure
AlphaFold DB B0ZDZ1

  Reference


[1] Norman A et al. (2008) Nucleotide sequence of pOLA52: a conjugative IncX1 plasmid from Escherichia coli which enables biofilm formation and multidrug efflux. Plasmid. 60(1):59-74. [PMID:18440636]


T4CP


ID   71 GenBank   YP_001693193
Name   TaxB_pOLA52 insolico UniProt ID   B0ZDX6
Length   611 a.a. PDB ID   _
Note   putative T4SS coupling protein; similar to TaxB from R6K

  T4CP protein sequence


Download         Length: 611 a.a.        Molecular weight: 69362.21 Da        Isoelectric Point: 7.1491

>YP_001693193.1 TaxB protein (plasmid) [Escherichia coli]
MSLKLPDKGQWAFIGLVMCLVTYYTGSVAVYFLNGKTPLYIWKNFDSMLLWRIITESNIRTDIRLTAIPS
LLSGMVSSLIVPVFIIWQLNKTDVALYGDAKFASDNDLRKSKLLKWEKENDTDILVGAYKGKYLWYTAPD
FVSLGAGTRAGKGAAIGIPNLLVRKHSLIALDPKQELWKITSKVREILLGNKVYLLDPFNSKTHQFNPLF
YIDLKAESGAKDLLKLIEILFPSYGMTGAEAHFNNLAGQYWTGLAKLLHFFINYEPSWLNEFGLKPVFSI
GSVVDLYSNIDRELILSKREELEGTNGLDENALYHLRDALTKIREYHETEDEQRSSIDGSFRKKMSLFYL
PTVRKCTDGNDFDLRQLRREDITVYVGVNAEDISLAYDFLNLFFNFVVEVTLRENPDFDPTLKHDCLMFL
DEFPSIGYMPIIKKGSGYIAGFKLKLLTIYQNISQLNEIYGIEGAKTLMSAHPCRIIYAVSEEDDAAKIS
EKLGYITTTSKSTSKSRGRSTSQGESESEARRALVLPQELGTLDFKEEFIILKGESPVKAEKALYYLDPY
FMDRLMKVSPKLASLTMELNKTKKIFGVKGLKYPSKEKMLSVGELESEVLL

  Protein domains


Predicted by InterproScan.

(102-571)

  Protein structure


Source ID Structure
AlphaFold DB B0ZDX6


T4SS


T4SS were predicted by using oriTfinder2.

Region 1: 17991..27943

Locus tag Coordinates Strand Size (bp) Protein ID Product Description
HS514_RS00080 (pOLA52_19) 14364..15329 + 966 WP_001335017 SMEK domain-containing protein -
HS514_RS00085 (pOLA52_20) 15444..15746 - 303 WP_000717624 TrbM/KikA/MpfK family conjugal transfer protein -
HS514_RS00090 (pOLA52_21) 15743..16156 - 414 WP_000722603 cag pathogenicity island Cag12 family protein -
HS514_RS00095 (pOLA52_22) 16153..17988 - 1836 WP_012291471 type IV secretory system conjugative DNA transfer family protein -
HS514_RS00100 (pOLA52_23) 17991..19022 - 1032 WP_012291472 P-type DNA transfer ATPase VirB11 virB11
HS514_RS00105 (pOLA52_24) 19024..20229 - 1206 WP_012291473 VirB10/TraB/TrbI family type IV secretion system protein virB10
HS514_RS00110 (pOLA52_25) 20226..21155 - 930 WP_000783379 TrbG/VirB9 family P-type conjugative transfer protein virB9
HS514_RS00115 (pOLA52_26) 21160..21873 - 714 WP_000394613 type IV secretion system protein virB8
HS514_RS00300 (pOLA52_27) 21863..21991 - 129 WP_001328099 hypothetical protein -
HS514_RS00120 (pOLA52_29) 22118..23179 - 1062 WP_000796673 type IV secretion system protein virB6
HS514_RS00125 (pOLA52_30) 23191..23475 - 285 WP_000748128 EexN family lipoprotein -
HS514_RS00130 (pOLA52_31) 23490..24239 - 750 WP_000744202 type IV secretion system protein -
HS514_RS00135 (pOLA52_32) 24250..27003 - 2754 WP_012291475 VirB3 family type IV secretion system protein virb4
HS514_RS00140 (pOLA52_33) 27022..27318 - 297 WP_000916182 TrbC/VirB2 family protein virB2
HS514_RS00145 (pOLA52_34) 27296..27943 - 648 WP_000953529 lytic transglycosylase domain-containing protein virB1
HS514_RS00150 27976..28188 - 213 WP_032312290 hypothetical protein -
HS514_RS00155 (pOLA52_35) 28118..28636 - 519 WP_001446885 transcription termination/antitermination NusG family protein -
HS514_RS00160 (pOLA52_36) 28982..30148 - 1167 WP_000539530 MobP1 family relaxase -
HS514_RS00165 (pOLA52_37) 30151..30696 - 546 WP_000757693 DNA distortion polypeptide 1 -
HS514_RS00175 (pOLA52_38) 31022..31294 - 273 WP_000160399 hypothetical protein -
HS514_RS00180 (pOLA52_39) 31307..31504 - 198 WP_001675595 hypothetical protein -
HS514_RS00185 (pOLA52_40) 31526..31705 - 180 WP_000439078 hypothetical protein -
HS514_RS00190 31748..32078 - 331 Protein_37 hypothetical protein -
HS514_RS00195 (pOLA52_42) 32171..32386 - 216 WP_001180116 hypothetical protein -
HS514_RS00200 (pOLA52_43) 32376..32621 - 246 WP_000356546 hypothetical protein -


Host bacterium


ID   71 GenBank   NC_010378
Plasmid name   pOLA52 Incompatibility group   IncX1
Plasmid size   51602 bp Coordinate of oriT [Strand]   30771..30796 [+]; 36250..36275 [-]
Host baterium   Escherichia coli

Cargo genes


Drug resistance gene   resistance-nodulation-division (RND)-type efflux-pump (oqxAB); bla encoding beta-lactamase TEM precursor
Virulence gene   -
Metal resistance gene   -
Degradation gene   -
Symbiosis gene   -
Anti-CRISPR   -