Detailed information of oriT

oriT

The information of the oriT region


oriTDB ID   111051
Name   oriT_pIMP-ECL14-57 in_silico
Organism   Citrobacter freundii strain ECL-14-57
Sequence Completeness      -
NCBI accession of oriT (coordinates [strand])   NZ_MH727565 (13790..13890 [-], 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_pIMP-ECL14-57
TATTTATTTTTTTATCTTTTAAATCAGTATGATAGCGTGATTTATCGCGCTGCGTTAGGTGTATAGCAGGTTAAGGGATAAAAAATCATCTTTTTTGGTAG

Visualization of oriT structure

  oriT secondary structure

Predicted by RNAfold.

Download structure file


Relaxase

ID   7266 GenBank   WP_012561166
Name   mobF_HTT77_RS00110_pIMP-ECL14-57 insolico UniProt ID   D7RU03
Length   1078 a.a. PDB ID   
Note   Predicted by oriTfinder 2.0

  Relaxase protein sequence


Download         Length: 1078 a.a.        Molecular weight: 120141.30 Da        Isoelectric Point: 6.5229

>WP_012561166.1 MULTISPECIES: MobF family relaxase [Gammaproteobacteria]
MLDITTITRQNVTSVVGYYSDAKDDYYSKDSSFTSWQGTGAEALGLSGDVESARFKELLVGEIDTFTHMQ
RHVGDAKKERLGYDLTFSAPKGVSMQALIHGDKTIIEAHEKAVAAAVREAEKLAQARTTRQGKSVTQNTN
NLVVATFRHETSRALDPDLHTHAFVMNMTQREDGQWRALKNDELMRNKMHLGDVYKQELALELTKAGYEL
RYNSKNNTFDMAHFSDEQIRAFSRRSEQIEKGLAAMGLTRETADAQTKSRVSMATREKKTEHSREEIHQE
WASRAKTLGIDFDNREWQGHGKPLEADIARNMAPDFTSPEVKADRAIQFAVKSLSERDASFERQKLIQIA
NKQVLGHATMADVEKAYLKAVQKGAIIEGEARYQSTLKVGASVMAETLTRKEWIDSLTNSGMRADKARFA
VDDGIKNGRLKKTSHRVTTVEGIRLERSILTIESRGRGQMPRQLTAEIAGQLLAGKTLKNEQMRAVTEIV
TSKDRFVAAHGYAGTGKSYMTMAAKELLESQGLKVTALAPYGTQKKALEDDGLPARTVAAFLKAKDKKLD
EKSVVFIDEAGVIPARQMKQLMEVIEKHNARAVFLGDTSQTKAVEAGKPFEQLIKAGMQTSYMKDIQRQK
NEVLLEAVKYAAEGNAARALKNITGVNELKEEAPRLAQLADRYLSLSSEQQDATLIISGTNASRKTLNDY
IRGNLGLAGTGETFTLLDRVDSTQAERRDSRYFSKGQIIIPEQDYKNGMKRGESYQVLDTGPGNKLTVES
SSGEQIAFSPRTHTKLSVYQAVSAELAPGDKVMVTRNDKTLDVANGDRFTVKTVEGEKLTLEDKKGRTVE
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 D7RU03


Auxiliary protein

ID   4045 GenBank   WP_001749975
Name   WP_001749975_pIMP-ECL14-57 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   8270 GenBank   WP_000342688
Name   t4cp2_HTT77_RS00105_pIMP-ECL14-57 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: 28702..39027

Locus tag Coordinates Strand Size (bp) Protein ID Product Description
HTT77_RS00150 23824..24438 + 615 WP_014839983 recombinase family protein -
HTT77_RS00155 24757..25413 - 657 WP_001516695 quinolone resistance pentapeptide repeat protein QnrS1 -
HTT77_RS00160 25808..26439 + 632 Protein_31 transposase -
HTT77_RS00165 26493..27197 - 705 WP_001067855 IS6-like element IS26 family transposase -
HTT77_RS00170 27262..27441 - 180 Protein_33 helix-turn-helix domain-containing protein -
HTT77_RS00335 27867..27995 + 129 WP_002210551 DUF6710 family protein -
HTT77_RS00180 28169..28702 - 534 WP_000792636 phospholipase D family protein -
HTT77_RS00185 28702..29697 - 996 WP_000128596 ATPase, T2SS/T4P/T4SS family virB11
HTT77_RS00190 29739..30899 - 1161 WP_000101710 type IV secretion system protein VirB10 virB10
HTT77_RS00195 30899..31783 - 885 WP_000735066 TrbG/VirB9 family P-type conjugative transfer protein virB9
HTT77_RS00200 31794..32492 - 699 WP_000646594 type IV secretion system protein virB8
HTT77_RS00205 32482..32640 - 159 WP_012561180 hypothetical protein -
HTT77_RS00210 32711..33751 - 1041 WP_001749958 type IV secretion system protein virB6
HTT77_RS00215 33767..33994 - 228 WP_001749959 IncN-type entry exclusion lipoprotein EexN -
HTT77_RS00220 34002..34766 - 765 WP_013149461 type IV secretion system protein virB5
HTT77_RS00225 34733..37333 - 2601 WP_001749961 VirB4 family type IV secretion/conjugal transfer ATPase virb4
HTT77_RS00230 37333..37650 - 318 WP_000496058 VirB3 family type IV secretion system protein virB3
HTT77_RS00235 37700..37993 - 294 WP_001749962 hypothetical protein virB2
HTT77_RS00240 38003..38284 - 282 WP_000440698 transcriptional repressor KorA -
HTT77_RS00245 38293..39027 - 735 WP_001749963 lytic transglycosylase domain-containing protein virB1
HTT77_RS00250 39070..39441 + 372 WP_011867773 H-NS family nucleoid-associated regulatory protein -
HTT77_RS00255 39457..39801 + 345 WP_001749964 hypothetical protein -
HTT77_RS00260 39798..40112 + 315 WP_001749965 TrbM/KikA/MpfK family conjugal transfer protein -
HTT77_RS00265 40226..40459 + 234 WP_001191790 hypothetical protein -
HTT77_RS00270 40509..41156 + 648 WP_015344958 restriction endonuclease -
HTT77_RS00275 41161..41367 + 207 WP_001749967 hypothetical protein -
HTT77_RS00280 41378..41650 - 273 Protein_55 IS1 family transposase -
HTT77_RS00285 41749..43182 + 1434 WP_001288432 DNA cytosine methyltransferase -

Host bacterium

ID   11486 GenBank   NZ_MH727565
Plasmid name   pIMP-ECL14-57 Incompatibility group   IncN
Plasmid size   51795 bp Coordinate of oriT [Strand]   13790..13890 [-]
Host baterium   Citrobacter freundii strain ECL-14-57

Cargo genes

Drug resistance gene   qnrS1, blaIMP-4
Virulence gene   -
Metal resistance gene   -
Degradation gene   -
Symbiosis gene   -
Anti-CRISPR   -