Detailed information of oriT

oriT

The information of the oriT region


oriTDB ID   120584
Name   oriT_pBL77_3 in_silico
Organism   Citrobacter freundii strain BL77
Sequence Completeness      -
NCBI accession of oriT (coordinates [strand])   NZ_CP140971 (111495..111595 [+], 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_pBL77_3
TATTTATTTTTTTATCTTTTAAATCAGTATGATAGCGTGATTTATCGCGCTGCGTTAGGTGTATAGCAGGTTAAGGGATAAAAAATCATCTTTTTTGGTAG

Visualization of oriT structure

  oriT secondary structure

Predicted by RNAfold.

Download structure file


Relaxase

ID   12964 GenBank   WP_001749977
Name   mobF_U0540_RS02335_pBL77_3 insolico UniProt ID   A0A5C2CVP7
Length   1080 a.a. PDB ID   
Note   Predicted by oriTfinder 2.0

  Relaxase protein sequence


Download         Length: 1080 a.a.        Molecular weight: 120419.59 Da        Isoelectric Point: 6.5483

>WP_001749977.1 MULTISPECIES: MobF family relaxase [Gammaproteobacteria]
MLDITTITRQNVTSVVGYYSDAKDDYYSKDSSFTSWQGTGAEALGLSGDVESARFKELLVGEIDTFTHMQ
RHVGDAKKERLGYDLTFSAPKGVSMQALIHGDKTIIEAHEKAVAAAVREAEKLAQARTTRQGKSVTQNTN
NLVVATFRHETSRALDPDLHTHAFVMNMTQREDGQWRALKNDELMRNKMHLGDVYKQELALELTKAGYEL
RYNSKNNTFDMAHFSDEQIRAFSRRSEQIEKGLAAMGLTRETADAQTKSRVSMATREKKTEHSREEIHQE
WASRAKTLGIDFDNREWQGHGKPLEADIARNMAPDFTSPEVKADRAIQFAVKSLSERDASFERQKLIQIA
NKQVLGHATIADVEKAYLKAVQKGAIIEGEARYQSTLKVGASVMAETLTRKEWIDSLTNSGMRADKARFA
VDDGIKNGRLKKTSHRVTTVEGIRLERSILTIESRGRGQMPRQLTAEIAGQLLAGKTLKKEQMRAVTEIV
TSKDRFVAAHGYAGTGKSYMTMAAKELLESQGLKVTALAPYGTQKKALEDDGLPARTVAAFLKAKDKKLD
EKSVVFIDEAGVIPARQMKQLMEVIEKHNARAVFLGDTSQTKAVEAGKPFEQLIKAGMQTSYMKDIQRQK
NEVLLEAVKYAAEGNAARALKNITGVNELKEEAPRLSQLADRYLSLSSEQQDATLIISGTNASRKTLNDY
IRGNLGLAGTGETFTLLDRVDSTQAERRDSRYFSKGQIIIPEQDYKNGMKRGESYQVLDTGPGNKLTVES
SSGEQIAFSPRTHTKLSVYQAVSAELAPGDKVMVTRNDKTLDVANGDRFTVKTVEGEKLTLEDKKGRTVE
LDKKQASYLSYAYATTVHKSQGLTCDRVLFNIDTKSLTTSKDVFYVGISRARHEVEIFTDDKKSLASSVS
RDSPKTTAAEIDRFFGLEARFKDIGRDTSLETRSAEKGLPEATGESMAFNQKPDEHNMTTGTDYQPVSNA
EDAFHLKQNPMDDSVGLRRHEAQQNDAELAHDYAAADDQQWSAQEYADYEHYAEASDYDFDSSIYDDYAM
PQTSQAEQSHTGKEHTHEHEHEHEEGGHEI

  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 A0A5C2CVP7


Auxiliary protein

ID   7279 GenBank   WP_000706094
Name   WP_000706094_pBL77_3 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   15223 GenBank   WP_001749976
Name   t4cp2_U0540_RS02340_pBL77_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: 57679.73 Da        Isoelectric Point: 9.5788

>WP_001749976.1 MULTISPECIES: type IV secretion system DNA-binding domain-containing protein [Gammaproteobacteria]
MDDRERGLAFLFAITLPPVMVWFLVAKFTYGIDPSTAKYLIPYLVKNTFSLWPLWSALIAGWFIGVGGLI
AFIIYDKSRVFKGERFKKIYRGTELVSARTLADKTRERGVNQLTVANIPIPTYAENLHFSIAGTTGTGKT
TIFNELLFKSIIRGGKNIALDPNGGFLKNFYRPGDVILNAYDKRTEGWVFFNEIRRSYDYERLVNSIVQE
SPDMATEEWFGYGRLIFSEVSKKLHSLYSTVTMEEVIHWACNVDQKKLKEFLMGTPAEAIFSGSEKAVGS
ARFVLSKNLAPHLKMPEGNFSLRDWLDDGKPGTLFITWQEEMKRSLNPLISCWLDSIFSIVLGMGEKESR
INVFIDELESLQFLPNLNDALTKGRKSGLCVYAGYQTYSQLVKVYGRDMAQTILANMRSNIVLGGSRLGD
ETLDQMSRSLGEIEGEVERKESDPQKPWIVRKRRDVKVVRAVTPTEISMLPNLTGYLALPGDMPVAKFKA
KHVKYHRKNPVPGIELRDI

  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: 5793..16119

Locus tag Coordinates Strand Size (bp) Protein ID Product Description
U0540_RS01685 (U0540_01685) 2074..2493 - 420 WP_012579083 fosfomycin resistance glutathione transferase FosA5 -
U0540_RS01690 (U0540_01690) 2487..2636 - 150 Protein_2 LysR family transcriptional regulator -
U0540_RS01695 (U0540_01695) 2743..3951 + 1209 WP_001339197 IS4-like element ISVsa5 family transposase -
U0540_RS01700 (U0540_01700) 3964..4305 - 342 Protein_4 restriction endonuclease -
U0540_RS01705 (U0540_01705) 4361..4672 - 312 WP_001452736 hypothetical protein -
U0540_RS01710 (U0540_01710) 4708..5022 - 315 WP_001749965 TrbM/KikA/MpfK family conjugal transfer protein -
U0540_RS01715 (U0540_01715) 5019..5363 - 345 WP_001749964 hypothetical protein -
U0540_RS01720 (U0540_01720) 5379..5750 - 372 WP_011867773 H-NS family nucleoid-associated regulatory protein -
U0540_RS01725 (U0540_01725) 5793..6527 + 735 WP_001749963 lytic transglycosylase domain-containing protein virB1
U0540_RS01730 (U0540_01730) 6536..6817 + 282 WP_000440698 transcriptional repressor KorA -
U0540_RS01735 (U0540_01735) 6827..7120 + 294 WP_001749962 hypothetical protein virB2
U0540_RS01740 (U0540_01740) 7171..7488 + 318 WP_000496058 VirB3 family type IV secretion system protein virB3
U0540_RS01745 (U0540_01745) 7488..10088 + 2601 WP_001749961 VirB4 family type IV secretion/conjugal transfer ATPase virb4
U0540_RS01750 (U0540_01750) 10106..10819 + 714 WP_001749960 type IV secretion system protein virB5
U0540_RS01755 (U0540_01755) 10827..11054 + 228 WP_001749959 IncN-type entry exclusion lipoprotein EexN -
U0540_RS01760 (U0540_01760) 11070..12110 + 1041 WP_001749958 type IV secretion system protein virB6
U0540_RS01765 (U0540_01765) 12193..12339 + 147 WP_001257173 conjugal transfer protein TraN -
U0540_RS01770 (U0540_01770) 12329..13027 + 699 WP_000646594 virB8 family protein virB8
U0540_RS01775 (U0540_01775) 13038..13922 + 885 WP_000735066 TrbG/VirB9 family P-type conjugative transfer protein virB9
U0540_RS01780 (U0540_01780) 13922..15082 + 1161 WP_000101710 type IV secretion system protein VirB10 virB10
U0540_RS01785 (U0540_01785) 15124..16119 + 996 WP_000128596 ATPase, T2SS/T4P/T4SS family virB11
U0540_RS01790 (U0540_01790) 16119..16652 + 534 WP_000792636 phospholipase D family protein -
U0540_RS01795 (U0540_01795) 16826..17011 - 186 WP_315970982 DUF6710 family protein -
U0540_RS01800 (U0540_01800) 17216..17539 - 324 WP_226331933 DUF6710 family protein -
U0540_RS01805 (U0540_01805) 17845..19128 + 1284 WP_326972521 terminase -
U0540_RS01810 (U0540_01810) 19157..20191 - 1035 WP_071444890 hypothetical protein -

Host bacterium

ID   21013 GenBank   NZ_CP140971
Plasmid name   pBL77_3 Incompatibility group   IncN
Plasmid size   144744 bp Coordinate of oriT [Strand]   111495..111595 [+]
Host baterium   Citrobacter freundii strain BL77

Cargo genes

Drug resistance gene   fosA5, aac(6')-Ib-cr, blaOXA-1, catB3, ARR-3, sul1, qnrA1
Virulence gene   -
Metal resistance gene   -
Degradation gene   -
Symbiosis gene   -
Anti-CRISPR   AcrIIA7