Detailed information of oriT

oriT

The information of the oriT region


oriTDB ID   121460
Name   oriT_E2614|3 in_silico
Organism   Citrobacter freundii isolate Citrobacter freundii str. E2614
Sequence Completeness      -
NCBI accession of oriT (coordinates [strand])   NZ_LS992177 (26503..26603 [-], 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_E2614|3
TATTTATTTTTTTATCTTTTAAATCAGTATGATAGCGTGATTTATCGCGCTGCGTTAGGTGTATAGCAGGTTAAGGGATAAAAAATCATCTTTTTTGGTAG

Visualization of oriT structure

  oriT secondary structure

Predicted by RNAfold.

Download structure file


Relaxase

ID   13531 GenBank   WP_001749977
Name   mobF_CFE2614_RS26780_E2614|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   7459 GenBank   WP_000706094
Name   WP_000706094_E2614|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   15834 GenBank   WP_001749976
Name   t4cp2_CFE2614_RS26775_E2614|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: 27170..47014

Locus tag Coordinates Strand Size (bp) Protein ID Product Description
CFE2614_RS26735 (CFE2614_05316) 22320..22829 + 510 WP_000129958 antirestriction protein ArdA -
CFE2614_RS26740 (CFE2614_05317) 23556..23735 + 180 WP_000214483 protein CcgAI -
CFE2614_RS26745 (CFE2614_05318) 23790..24110 + 321 WP_001749971 protein CcgAII -
CFE2614_RS26750 (CFE2614_05319) 24221..24565 - 345 WP_000999874 hypothetical protein -
CFE2614_RS26755 (CFE2614_05320) 24747..25115 - 369 WP_000414913 plasmid stabilization protein StbC -
CFE2614_RS26760 (CFE2614_05321) 25117..25833 - 717 WP_001749973 StbB family protein -
CFE2614_RS27750 (CFE2614_05322) 25842..26261 - 420 WP_001749974 plasmid stabilization protein StbA -
CFE2614_RS26770 (CFE2614_05323) 26878..27168 + 291 WP_000706094 hypothetical protein -
CFE2614_RS26775 (CFE2614_05324) 27170..28699 + 1530 WP_001749976 type IV secretion system DNA-binding domain-containing protein virb4
CFE2614_RS26780 (CFE2614_05325) 28699..31941 + 3243 WP_001749977 MobF family relaxase -
CFE2614_RS26785 (CFE2614_05326) 31941..32114 + 174 WP_001749978 hypothetical protein -
CFE2614_RS26790 (CFE2614_05327) 32309..32962 + 654 Protein_36 EamA family transporter -
CFE2614_RS26795 (CFE2614_05328) 32994..34193 - 1200 WP_012579085 tetracycline efflux MFS transporter Tet(A) -
CFE2614_RS26800 (CFE2614_05329) 34299..34949 + 651 WP_000164043 tetracycline resistance transcriptional repressor TetR(A) -
CFE2614_RS26805 34981..35219 - 239 Protein_39 relaxase -
CFE2614_RS27755 (CFE2614_05330) 35530..35982 + 453 WP_001749956 DUF6710 family protein -
CFE2614_RS26815 (CFE2614_05331) 36156..36689 - 534 WP_000792636 phospholipase D family protein -
CFE2614_RS26820 (CFE2614_05332) 36689..37684 - 996 WP_000128596 ATPase, T2SS/T4P/T4SS family virB11
CFE2614_RS26825 (CFE2614_05333) 37726..38886 - 1161 WP_000101710 type IV secretion system protein VirB10 virB10
CFE2614_RS26830 (CFE2614_05334) 38886..39770 - 885 WP_000735066 TrbG/VirB9 family P-type conjugative transfer protein virB9
CFE2614_RS26835 (CFE2614_05335) 39781..40479 - 699 WP_000646594 virB8 family protein virB8
CFE2614_RS27860 40469..40627 - 159 WP_012561180 hypothetical protein -
CFE2614_RS26845 (CFE2614_05336) 40698..41738 - 1041 WP_001749958 type IV secretion system protein virB6
CFE2614_RS26850 (CFE2614_05337) 41754..41981 - 228 WP_001749959 IncN-type entry exclusion lipoprotein EexN -
CFE2614_RS26855 (CFE2614_05338) 41989..42702 - 714 WP_001749960 type IV secretion system protein virB5
CFE2614_RS26860 (CFE2614_05339) 42720..45320 - 2601 WP_001749961 VirB4 family type IV secretion/conjugal transfer ATPase virb4
CFE2614_RS26865 (CFE2614_05340) 45320..45637 - 318 WP_000496058 VirB3 family type IV secretion system protein virB3
CFE2614_RS26870 (CFE2614_05341) 45687..45980 - 294 WP_001749962 hypothetical protein virB2
CFE2614_RS26875 (CFE2614_05342) 45990..46271 - 282 WP_000440698 transcriptional repressor KorA -
CFE2614_RS26880 (CFE2614_05343) 46280..47014 - 735 WP_001749963 lytic transglycosylase domain-containing protein virB1
CFE2614_RS26885 (CFE2614_05344) 47057..47428 + 372 WP_011867773 H-NS family nucleoid-associated regulatory protein -
CFE2614_RS26890 (CFE2614_05345) 47444..47788 + 345 WP_001749964 hypothetical protein -
CFE2614_RS26895 (CFE2614_05346) 47785..48099 + 315 WP_001749965 TrbM/KikA/MpfK family conjugal transfer protein -
CFE2614_RS26900 (CFE2614_05347) 48135..48446 + 312 WP_001452736 hypothetical protein -
CFE2614_RS26905 (CFE2614_05348) 48496..49143 + 648 WP_015344958 restriction endonuclease -
CFE2614_RS26910 (CFE2614_05349) 49148..49354 + 207 WP_001749967 hypothetical protein -
CFE2614_RS26915 (CFE2614_05350) 49365..49637 - 273 Protein_61 IS1 family transposase -
CFE2614_RS26920 (CFE2614_05351) 49736..51169 + 1434 WP_001288432 DNA cytosine methyltransferase -

Host bacterium

ID   21887 GenBank   NZ_LS992177
Plasmid name   E2614|3 Incompatibility group   IncN
Plasmid size   71403 bp Coordinate of oriT [Strand]   26503..26603 [-]
Host baterium   Citrobacter freundii isolate Citrobacter freundii str. E2614

Cargo genes

Drug resistance gene   mph(A), sul1, qacE, ant(3'')-Ia, blaVIM-1, tet(A)
Virulence gene   -
Metal resistance gene   -
Degradation gene   -
Symbiosis gene   -
Anti-CRISPR   -