Detailed information of oriT

oriT

The information of the oriT region


oriTDB ID   120596
Name   oriT_112|P3 in_silico
Organism   Citrobacter freundii isolate 112
Sequence Completeness      -
NCBI accession of oriT (coordinates [strand])   NZ_OW995944 (73643..73743 [+], 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_112|P3
TATTTATTTTTTTATCTTTTAAATCAGTACGATAGCGTGATTTATCGCGCTGCGTTAGGTGTATAGCAGGTTAAGGGATAAAAAATCATCTTTTTTGGTAG

Visualization of oriT structure

  oriT secondary structure

Predicted by RNAfold.

Download structure file


Relaxase

ID   12974 GenBank   WP_012561142
Name   mobF_LQ198_RS27575_112|P3 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   7281 GenBank   WP_000706094
Name   WP_000706094_112|P3 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   15236 GenBank   WP_000342688
Name   t4cp2_LQ198_RS27580_112|P3 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: 21437..31765

Locus tag Coordinates Strand Size (bp) Protein ID Product Description
LQ198_RS27230 (AI2935V1_5345) 17282..18715 - 1434 WP_001288432 DNA cytosine methyltransferase -
LQ198_RS27235 (AI2935V1_5346) 18814..19086 + 273 Protein_18 IS1 family transposase -
LQ198_RS27240 (AI2935V1_5347) 19097..19303 - 207 WP_001749967 hypothetical protein -
LQ198_RS27245 (AI2935V1_5348) 19308..19745 - 438 WP_020325134 restriction endonuclease -
LQ198_RS27250 (AI2935V1_5349) 20005..20316 - 312 WP_013279382 hypothetical protein -
LQ198_RS27255 (AI2935V1_5350) 20352..20666 - 315 WP_016338363 TrbM/KikA/MpfK family conjugal transfer protein -
LQ198_RS27260 (AI2935V1_5351) 20663..21007 - 345 WP_012561155 hypothetical protein -
LQ198_RS27265 (AI2935V1_5352) 21023..21400 - 378 WP_193567606 H-NS family nucleoid-associated regulatory protein -
LQ198_RS27270 (AI2935V1_5353) 21437..22174 + 738 WP_109547639 lytic transglycosylase domain-containing protein virB1
LQ198_RS27275 (AI2935V1_5354) 22183..22464 + 282 WP_016338364 transcriptional repressor KorA -
LQ198_RS27280 (AI2935V1_5355) 22474..22767 + 294 WP_001749962 hypothetical protein virB2
LQ198_RS27285 (AI2935V1_5356) 22817..23134 + 318 WP_000496058 VirB3 family type IV secretion system protein virB3
LQ198_RS27290 (AI2935V1_5357) 23134..25734 + 2601 WP_012561149 VirB4 family type IV secretion/conjugal transfer ATPase virb4
LQ198_RS27295 (AI2935V1_5358) 25752..26465 + 714 WP_001749960 type IV secretion system protein virB5
LQ198_RS27300 (AI2935V1_5359) 26473..26700 + 228 WP_001749959 IncN-type entry exclusion lipoprotein EexN -
LQ198_RS27305 (AI2935V1_5360) 26716..27756 + 1041 WP_001749958 type IV secretion system protein virB6
LQ198_RS27310 27839..27985 + 147 WP_001257173 conjugal transfer protein TraN -
LQ198_RS27315 (AI2935V1_5361) 27975..28673 + 699 WP_000646594 virB8 family protein virB8
LQ198_RS27320 (AI2935V1_5362) 28684..29568 + 885 WP_000735066 TrbG/VirB9 family P-type conjugative transfer protein virB9
LQ198_RS27325 (AI2935V1_5363) 29568..30728 + 1161 WP_012561145 type IV secretion system protein VirB10 virB10
LQ198_RS27330 (AI2935V1_5364) 30770..31765 + 996 WP_012561144 ATPase, T2SS/T4P/T4SS family virB11
LQ198_RS27335 (AI2935V1_5365) 31765..32298 + 534 WP_000792636 phospholipase D family protein -
LQ198_RS27340 (AI2935V1_5366) 32471..32785 - 315 WP_000091613 hypothetical protein -
LQ198_RS27345 (AI2935V1_5367) 33187..34191 - 1005 WP_022542389 IS110-like element IS4321 family transposase -

Host bacterium

ID   21025 GenBank   NZ_OW995944
Plasmid name   112|P3 Incompatibility group   IncN
Plasmid size   86953 bp Coordinate of oriT [Strand]   73643..73743 [+]
Host baterium   Citrobacter freundii isolate 112

Cargo genes

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