Detailed information of oriT

oriT

The information of the oriT region


oriTDB ID   120678
Name   oriT_p24A20007A_B_KPC in_silico
Organism   Klebsiella variicola subsp. variicola strain 24A20CPO007A
Sequence Completeness      -
NCBI accession of oriT (coordinates [strand])   NZ_OQ821170 (11962..12051 [-], 90 nt)
oriT length   90 nt
IRs (inverted repeats)      34..41, 44..51  (AGTGCGAT..ATCGCACT)
Location of nic site      62..63
Conserved sequence flanking the
  nic site    		  GGTGTATAGC
Note   Predicted by oriTfinder 2.0

  oriT sequence  


Download         Length: 90 nt

>oriT_p24A20007A_B_KPC
TATTTCATTTTTTGTTTTTTTAATCAGTTAGTTAGTGCGATTCATCGCACTGCGTTAGGTGTATAGCAGGTTAAGGGCTAAAAAATAATC

Visualization of oriT structure

  oriT secondary structure

Predicted by RNAfold.

Download structure file


Relaxase

ID   13034 GenBank   WP_024561907
Name   mobF_SLH58_RS00115_p24A20007A_B_KPC insolico UniProt ID   H1ZMV6
Length   1072 a.a. PDB ID   
Note   Predicted by oriTfinder 2.0

  Relaxase protein sequence


Download         Length: 1072 a.a.        Molecular weight: 118896.59 Da        Isoelectric Point: 6.4636

>WP_024561907.1 MULTISPECIES: MobF family relaxase [Enterobacterales]
MLDITTITRIDIASVVGYYADAKDDYYSKDSSFTAWHGQGAEALGLSGEVSSQRFKELLVGEIDPFTQMK
RSSGDATKERLGYDLTFSAPKGVSMQALIHGDKAIIAAHEKAVAAAVQEAEKLAQARTTHAGKTITQNTG
NLVVASFRHETSRALDPELHTHAFVMNMTQRGDGQWRALKNDELMRAKMHLGDVYKQELALELTKAGYEL
RYNNKNNTFDMAHFTDEQIRGFSRRSAQIEEGLAAMGLTRETADAQTKSRVSMATRDKKTDDYSREDIHK
EWVNRANELGIDFNDLSWAGKGKDGPQTSMNTVPNFTSPEVKADRAIQFALKSLSERDASFDQSRLLAVA
NKKAIGQASKQDIEAAYYRAVAKGAIIEGEARYTTTTDQRSKDAPPLPAMTKAEWQAQLTDKKGMNNDQA
KALVAEGIKSGRLKKTSHRVTTVEGIRVEKAVLNIEARGRGKVIAALTSEQVTAQLVGKTLKAEQQKSVV
DICTTTDRFVAAHGFAGTGKSYMTMSAKAVLESQGFNVTALAPYGTQKKSLEDEGMPARTVAAFVKAKDK
KIDEKSVVFIDEAGVIPARQMKVLMETIEKAGARAVFLGDTSQTKAVEAGKPFEQLISAGMQTSYMKDIQ
RQKNDVLLEAVKLAAEGHISGSLARLSNISAEKDQDKRLEAVANRWLSFSPEQREGTLIISGTNESRVIL
NSQIREALQLQGKGVEVNFLERVDSTQAERRDSKYYQVGQIIIPEKDYKNGLQRGESYRVLDTGPGNLLT
VAGSDGQKISFSPRTHKNLSVYTSVAAELAVGDKVMVTRNDKTLDVANGDRFTVTGTTEKGTFTLTNAKG
REIELDQKQAAYLSYAYATTVHKAQGLTCDRVLFNIDTRSLTTSKDVFYVGISRARHEVEIFTDDKKRLL
SSASRNSPKTTASEIDRFLGMEERYKDVNRSYGHSDGQQEKSYGHDAGHQTEEKENTMKNATEAAHDGPD
TSGTENTSQDLRQREQEEVNAAIRYEQRQEATPEMEANPYHDYERYADEGPDYGDMQDYSTYEEYERARD
VELPQHEHENHQHDHDKEGYGL

  Protein domains


Predicted by InterproScan.

TrwC relaxase (TrwC)

(16-288)

AAA domain (AAA_30)

(480-656)

UvrD-like helicase C-terminal domain (UvrD_C_2)

(855-899)


  Protein structure


Source ID Structure
AlphaFold DB H1ZMV6


T4CP

ID   15299 GenBank   WP_063131939
Name   t4cp2_SLH58_RS00110_p24A20007A_B_KPC insolico UniProt ID   _
Length   510 a.a. PDB ID   _
Note   Predicted by oriTfinder 2.0

  T4CP protein sequence


Download         Length: 510 a.a.        Molecular weight: 57872.95 Da        Isoelectric Point: 9.5852

>WP_063131939.1 MULTISPECIES: type IV secretion system DNA-binding domain-containing protein [Enterobacterales]
MTEQERGLIFLCSLLGPIPFVWFITAKFVYGINSETAHYLVPYLLKNTFNLWPLWVAIIAGAVIGLCGFI
GFIIYDKGRVYKGPRFKRVLRGTKLVRASSLAEKTKERGHKQLTVAGVPVPTEYETLHFSIGGATGTGKS
TIIKEAIYSSMKRGTDKRIVLDPNGEYVETFYRPGDVILSPYDKRSPGWSMFNEIRDDFDYDLYAVSIIQ
ESKERSAEEWYRYGRLIYREVSKKLLTLKRSPTMEEVMHWCTIVENEKLKEFVKGTPAEALFIKGAERAT
GSARFVLGDKLAPHLKMPAGDFSLRDWLEDDKPGTLFITWQEQMKKSLNPLISCWLDIMFSSLLGMGKRD
QRTLFFIDELESLEYLPNLQDLLTKGRKSGASVWAGYQTYSQLIERYGINIAETLLGSMRSGIVMGSSRL
GKETLEQMSRALGEIEGEVEHKQGNPFQAGIGNRPRIETRTVRAVTPTEISELKNLTGYVYFPGDLPVGK
FKTKHVQYTRKNPVPGIIMR

  Protein domains


Predicted by InterproScan.

Type IV secretion-system coupling protein DNA-binding domain (TrwB_AAD_bind)

(113-492)

  Protein structure



No available structure.




T4SS

T4SS were predicted by using oriTfinder2.

Region 1: 49989..60277

Locus tag Coordinates Strand Size (bp) Protein ID Product Description
SLH58_RS00245 (JCEHDHKB_00046) 45843..46397 - 555 WP_063840321 fluoroquinolone-acetylating aminoglycoside 6'-N-acetyltransferase AAC(6')-Ib-cr5 -
SLH58_RS00250 (JCEHDHKB_00047) 46556..47485 + 930 Protein_49 class 1 integron integrase IntI1 -
SLH58_RS00255 (JCEHDHKB_00048) 47753..48328 + 576 WP_000904911 recombinase family protein -
SLH58_RS00260 48481..48834 - 354 WP_162478394 hypothetical protein -
SLH58_RS00265 (JCEHDHKB_00050) 49465..49977 - 513 WP_029697418 phospholipase D family protein -
SLH58_RS00270 (JCEHDHKB_00051) 49989..50990 - 1002 WP_001076634 ATPase, T2SS/T4P/T4SS family virB11
SLH58_RS00275 (JCEHDHKB_00052) 51041..52174 - 1134 WP_000101920 type IV secretion system protein VirB10 virB10
SLH58_RS00280 (JCEHDHKB_00053) 52174..53061 - 888 WP_000758230 TrbG/VirB9 family P-type conjugative transfer protein virB9
SLH58_RS00285 (JCEHDHKB_00054) 53072..53767 - 696 WP_001208352 type IV secretion system protein virB8
SLH58_RS00360 (JCEHDHKB_00055) 53778..53909 - 132 WP_032493177 hypothetical protein -
SLH58_RS00290 (JCEHDHKB_00056) 53986..55023 - 1038 WP_014014948 type IV secretion system protein virB6
SLH58_RS00295 (JCEHDHKB_00057) 55040..55282 - 243 WP_000858958 EexN family lipoprotein -
SLH58_RS00300 (JCEHDHKB_00058) 55292..56005 - 714 WP_000644929 type IV secretion system protein virB5
SLH58_RS00305 (JCEHDHKB_00059) 56021..58594 - 2574 WP_032493176 VirB4 family type IV secretion/conjugal transfer ATPase virb4
SLH58_RS00310 (JCEHDHKB_00060) 58595..58912 - 318 WP_000462629 type IV secretion system protein VirB3 virB3
SLH58_RS00315 (JCEHDHKB_00061) 58952..59293 - 342 WP_001121032 TrbC/VirB2 family protein virB2
SLH58_RS00320 (JCEHDHKB_00063) 59495..60277 - 783 WP_024562119 lytic transglycosylase domain-containing protein virB1
SLH58_RS00325 (JCEHDHKB_00064) 60341..60694 + 354 WP_225988093 H-NS family nucleoid-associated regulatory protein -
SLH58_RS00330 (JCEHDHKB_00065) 60698..61048 + 351 WP_000528713 hypothetical protein -
SLH58_RS00335 (JCEHDHKB_00066) 61027..61383 + 357 WP_014014954 hypothetical protein -
SLH58_RS00340 (JCEHDHKB_00067) 61387..61695 + 309 WP_000733764 hypothetical protein -
SLH58_RS00345 (JCEHDHKB_00068) 61980..62165 + 186 WP_024562121 ribbon-helix-helix domain-containing protein -
SLH58_RS00350 (JCEHDHKB_00069) 62162..62770 - 609 WP_000275218 recombinase family protein -
SLH58_RS00355 (JCEHDHKB_00070) 62936..63268 - 333 WP_000140165 hypothetical protein -

Host bacterium

ID   21107 GenBank   NZ_OQ821170
Plasmid name   p24A20007A_B_KPC Incompatibility group   IncN2
Plasmid size   63407 bp Coordinate of oriT [Strand]   11962..12051 [-]
Host baterium   Klebsiella variicola subsp. variicola strain 24A20CPO007A

Cargo genes

Drug resistance gene   blaKPC-3, blaTEM-1B, sul1, qacE, ARR-3, catB3, blaOXA-1, aac(6')-Ib-cr
Virulence gene   -
Metal resistance gene   -
Degradation gene   -
Symbiosis gene   -
Anti-CRISPR   -