Detailed information of oriT

oriT

The information of the oriT region


oriTDB ID   101553
Name   oriT_L2M4-08|unnamed1 in_silico
Organism   Escherichia coli strain L2M4-08
Sequence Completeness      -
NCBI accession of oriT (coordinates [strand])   NZ_JAPVEN010000034 (49635..49735 [+], 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_L2M4-08|unnamed1
TATTTATTTTTTTATTTTTTAAATCAGTGTGATAGCGTGATTTATCGCGCTGCGTTAGGTGTATAGCAGGTTAAGGGATAAAAAATCATCTTTTTTGGTAG

Visualization of oriT structure

  oriT secondary structure

Predicted by RNAfold.

Download structure file


Relaxase

ID   1376 GenBank   WP_000884352
Name   mobF_O3I04_RS19360_L2M4-08|unnamed1 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   496 GenBank   WP_000706094
Name   WP_000706094_L2M4-08|unnamed1 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   1009 GenBank   WP_000342687
Name   t4cp2_O3I04_RS19365_L2M4-08|unnamed1 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: 57774.92 Da        Isoelectric Point: 9.6551

>WP_000342687.1 MULTISPECIES: type IV secretion system DNA-binding domain-containing protein [Enterobacteriaceae]
MDDRERGLAFLFAITLPPVMVWFLVAKFTYGIDPSTAKYLIPYLVKNTFSLWPLWSALIAGWFIGVGGLI
AFIIYDKSRVFKGERFKKIYRGTELVRARILADKTRERGVNQLTVANIPIPTYAENLHFSIAGTTGTGKT
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: 14616..24941

Locus tag Coordinates Strand Size (bp) Protein ID Product Description
O3I04_RS19160 (O3I04_19085) 10467..11900 - 1434 WP_001288435 DNA cytosine methyltransferase -
O3I04_RS19165 (O3I04_19090) 11994..12266 + 273 Protein_13 IS1 family transposase -
O3I04_RS19170 (O3I04_19095) 12286..12483 - 198 WP_000844102 hypothetical protein -
O3I04_RS19175 (O3I04_19100) 12488..12997 - 510 WP_000893479 restriction endonuclease -
O3I04_RS19180 (O3I04_19105) 13185..13496 - 312 WP_001452736 hypothetical protein -
O3I04_RS19185 (O3I04_19110) 13532..13846 - 315 WP_000734776 TrbM/KikA/MpfK family conjugal transfer protein -
O3I04_RS19190 (O3I04_19115) 13809..14186 - 378 WP_000504251 hypothetical protein -
O3I04_RS19195 (O3I04_19120) 14202..14573 - 372 WP_011867773 H-NS family nucleoid-associated regulatory protein -
O3I04_RS19200 (O3I04_19125) 14616..15350 + 735 WP_000033783 lytic transglycosylase domain-containing protein virB1
O3I04_RS19205 (O3I04_19130) 15359..15640 + 282 WP_000440698 transcriptional repressor KorA -
O3I04_RS19210 (O3I04_19135) 15650..15943 + 294 WP_000209137 TrbC/VirB2 family protein virB2
O3I04_RS19215 (O3I04_19140) 15993..16310 + 318 WP_000496058 VirB3 family type IV secretion system protein virB3
O3I04_RS19220 (O3I04_19145) 16310..18910 + 2601 WP_001200711 VirB4 family type IV secretion/conjugal transfer ATPase virb4
O3I04_RS19225 (O3I04_19150) 18928..19641 + 714 WP_000749362 type IV secretion system protein virB5
O3I04_RS19230 (O3I04_19155) 19649..19876 + 228 WP_000734973 IncN-type entry exclusion lipoprotein EexN -
O3I04_RS19235 (O3I04_19160) 19892..20932 + 1041 WP_000886022 type IV secretion system protein virB6
O3I04_RS19240 (O3I04_19165) 21015..21161 + 147 WP_001257173 conjugal transfer protein TraN -
O3I04_RS19245 (O3I04_19170) 21151..21849 + 699 WP_000646594 type IV secretion system protein virB8
O3I04_RS19250 (O3I04_19175) 21860..22744 + 885 WP_000735067 TrbG/VirB9 family P-type conjugative transfer protein virB9
O3I04_RS19255 (O3I04_19180) 22744..23904 + 1161 WP_000101711 type IV secretion system protein VirB10 virB10
O3I04_RS19260 (O3I04_19185) 23946..24941 + 996 WP_000128596 ATPase, T2SS/T4P/T4SS family virB11
O3I04_RS19265 (O3I04_19190) 24941..25474 + 534 WP_000731969 phospholipase D family protein -
O3I04_RS19270 (O3I04_19195) 25667..26212 + 546 WP_001493763 plasmid pRiA4b ORF-3 family protein -
O3I04_RS19275 (O3I04_19200) 26349..26921 + 573 WP_001493762 recombinase family protein -
O3I04_RS19280 (O3I04_19205) 26958..28349 + 1392 WP_001493761 ISKra4-like element ISKpn19 family transposase -
O3I04_RS19285 (O3I04_19210) 28382..28810 + 429 Protein_37 recombinase family protein -
O3I04_RS19290 (O3I04_19215) 29129..29785 - 657 WP_001516695 quinolone resistance pentapeptide repeat protein QnrS1 -

Host bacterium

ID   1997 GenBank   NZ_JAPVEN010000034
Plasmid name   L2M4-08|unnamed1 Incompatibility group   IncN
Plasmid size   52848 bp Coordinate of oriT [Strand]   49635..49735 [+]
Host baterium   Escherichia coli strain L2M4-08

Cargo genes

Drug resistance gene   qnrS1, blaTEM-1B, tet(A), aph(3'')-Ib, aph(6)-Id
Virulence gene   -
Metal resistance gene   -
Degradation gene   -
Symbiosis gene   -
Anti-CRISPR   -