Detailed information of oriT

oriT

The information of the oriT region


oriTDB ID   120420
Name   oriT_p24A17001_B_KPC_KPC in_silico
Organism   Citrobacter freundii strain 24A17CRGN001
Sequence Completeness      -
NCBI accession of oriT (coordinates [strand])   NZ_OQ821124 (58857..58962 [+], 106 nt)
oriT length   106 nt
IRs (inverted repeats)      30..35, 41..46  (CCGCCG..CGGCGG)
Location of nic site      _
Conserved sequence flanking the
  nic site    		  _
Note   Predicted by oriTfinder 2.0

  oriT sequence  


Download         Length: 106 nt

>oriT_p24A17001_B_KPC_KPC
AGTACGGGACAAGATGTGTTTTTGGAGTACCGCCGACACGCGGCGGCCGTCCAAAAACGTCTTGGTCAGGGCAAGCCCCGACACCCCCTAACGAGGTTAGCTATCT

Visualization of oriT structure

  oriT secondary structure

Predicted by RNAfold.

Download structure file


Relaxase

ID   12857 GenBank   WP_004187323
Name   traI_SLH58_RS00365_p24A17001_B_KPC_KPC insolico UniProt ID   A0A3U8KUL3
Length   659 a.a. PDB ID   
Note   Predicted by oriTfinder 2.0

  Relaxase protein sequence


Download         Length: 659 a.a.        Molecular weight: 75179.89 Da        Isoelectric Point: 9.9948

>WP_004187323.1 MULTISPECIES: TraI/MobA(P) family conjugative relaxase [Enterobacterales]
MVIPKIIEGRRDKKSSFGQLIKYMADKPSQELTDTVQPTPETALAVKSDMFEGLNNYLTRKQKVISTPVD
VEPGVQRVVVGDVTCQYNTFSLDGAAQEMNSVSQQSTRCKDPVMHYVLSWPDYEKPNDDQVFDSVKFTLA
SMGMSDHQYVAAIHRDTDNLHVHVAVNRINPQTYKAASSSFTKDTLHQACRLLELKNGWSHSNGAYVVND
RQQIVRNPHSKKERGNWRSLDRINKMENKEGVETLYRYIVGDEQVGGSRQNLIHVSAGLREAKSWDDVHK
TFADIGLRVEKAQGKKGYVITHEHQNQKTAVKASLVFNKAQYTLKSMEERFGEYQPSHIEPAKVSVFKTA
YTPGAYRRDANKRLQRKIERAEERMLLKGRYRAYRNNLPIYSPDKDRIADEYRKIAQHTRLVKNNVRHSV
SDPHTRKLMYNLAEFKRLQAVANLRLSLREERNGFRAANPRLSYREWVEQEALKGDKAALSQMRGFAYSS
RKKEKYKQQLVEQIGFNRTFNAITSHDRDDVAVMASARHGVKPRLLKDGTVIFERDGKPVAADRGHIVLT
ESNGIDKEKTADLAIALTIAGKAKSVRVDGDGEFKELCCNRIVDAAVNHNHPVAQGITFTDAAQQAYAQN
EKHRLIREQNNSKNEMQFRSESDDKFNPK

  Protein domains


Predicted by InterproScan.

Relaxase/Mobilisation nuclease domain (Relaxase)

(86-334)


  Protein structure


Source ID Structure
AlphaFold DB A0A3U8KUL3


T4CP

ID   15103 GenBank   WP_038874906
Name   t4cp2_SLH58_RS00090_p24A17001_B_KPC_KPC insolico UniProt ID   _
Length   701 a.a. PDB ID   _
Note   Predicted by oriTfinder 2.0

  T4CP protein sequence


Download         Length: 701 a.a.        Molecular weight: 80068.49 Da        Isoelectric Point: 4.8705

>WP_038874906.1 MULTISPECIES: conjugal transfer protein TrbC [Enterobacterales]
MQQESVDSKKVIRPDGSFMEWFLTPNVQFGLLAILTVLGLFLPFTMLLSILILPPLMVAFTDRKFRPPLR
MPKDCEMFDDTLTTETQAEYRLGPIRIPHKVRERKKAKGILYVGYERGRLFGRELWLNMTDLLRHMVFFG
TTGSGKTETFYGFIVNFLLWCRGYCLSDGKADNKLAFATWSLARRFGREDDYYVLNLLTGSIDRFVNLVK
QESIPAQSNSVNLFSVAPPTFIIQLMESMLPQVGGDSAQWQDTAKAMMSALINALCYKRARGELLLSQRT
IQKNMSLPAMAALYVEAKKNGWHSEGYAALESYLENTPGFLLANAEYPETWEARAFEQHNYMSRQFLKTL
SLFNETYGHVFPEDSGDIRMDDIFHNDRILIVMIPSLELSRGEAATLGRLYVTLQRMTISKDLGYQLEGK
KEEVLLTHALNNQAPYGLIYDELGQYFTSGMDTLSAQMRSLEKMGVFSSQDHPSLARGANGEVDSLIANT
RVKYFESIEDRKTFEILRETVGQDYYSELSGQEAEHGTFSKTVREGDLYQIREKDRVNIRELRKQTEGQG
VISFQDALVRSAAFYIPDNEKFSSELPMRINRFIEVLPPSPATLYSIYPERKDDELAESNPDAMRFPPIK
LFGYDKAANSLLEKIEVFYELQCGAISPEEMSVCLFELFAEWLDGTETDDVLYHQEDDLFPMIGVVSEFG
K

  Protein domains



No domain identified.


  Protein structure



No available structure.




T4SS

T4SS were predicted by using oriTfinder2.

Region 1: 61758..89026

Locus tag Coordinates Strand Size (bp) Protein ID Product Description
SLH58_RS00345 (CIODNGDB_00067) 56844..57155 + 312 WP_004187333 hypothetical protein -
SLH58_RS00350 (CIODNGDB_00068) 57287..57823 + 537 WP_011091066 hypothetical protein -
SLH58_RS00355 (CIODNGDB_00070) 58324..58719 - 396 WP_020805633 hypothetical protein -
SLH58_RS00360 58718..59281 + 564 WP_319382137 plasmid mobilization protein MobA -
SLH58_RS00365 (CIODNGDB_00072) 59268..61247 + 1980 WP_004187323 TraI/MobA(P) family conjugative relaxase -
SLH58_RS00370 (CIODNGDB_00073) 61261..61761 + 501 WP_004187320 DotD/TraH family lipoprotein -
SLH58_RS00375 (CIODNGDB_00074) 61758..62537 + 780 WP_004187315 type IV secretory system conjugative DNA transfer family protein traI
SLH58_RS00380 (CIODNGDB_00075) 62548..63711 + 1164 WP_020805653 plasmid transfer ATPase TraJ virB11
SLH58_RS00385 (CIODNGDB_00076) 63701..63961 + 261 WP_004187310 IcmT/TraK family protein traK
SLH58_RS00390 (CIODNGDB_00077) 63986..67423 + 3438 WP_319382138 LPD7 domain-containing protein -
SLH58_RS00395 (CIODNGDB_00078) 67347..67901 + 555 WP_011154467 hypothetical protein traL
SLH58_RS00400 (CIODNGDB_00079) 67902..68099 - 198 WP_004187464 Hha/YmoA family nucleoid-associated regulatory protein -
SLH58_RS00405 (CIODNGDB_00080) 68086..68496 - 411 WP_004187465 H-NS family nucleoid-associated regulatory protein -
SLH58_RS00410 (CIODNGDB_00081) 68495..69277 + 783 WP_004206929 DotI/IcmL family type IV secretion protein traM
SLH58_RS00415 (CIODNGDB_00082) 69313..70437 + 1125 WP_319382139 DotH/IcmK family type IV secretion protein traN
SLH58_RS00420 (CIODNGDB_00083) 70449..71012 + 564 WP_319382181 hypothetical protein traO
SLH58_RS00425 (CIODNGDB_00084) 71060..74140 - 3081 WP_011787830 Tn3 family transposase -
SLH58_RS00430 (CIODNGDB_00085) 74164..74475 - 312 WP_011918375 type II toxin-antitoxin system RelE/ParE family toxin -
SLH58_RS00435 (CIODNGDB_00086) 74475..74735 - 261 WP_011787805 type II toxin-antitoxin system Phd/YefM family antitoxin -
SLH58_RS00440 (CIODNGDB_00087) 74905..75525 + 621 WP_011787804 recombinase family protein -
SLH58_RS00445 (CIODNGDB_00088) 75643..75975 - 333 WP_011787803 TraR/DksA C4-type zinc finger protein -
SLH58_RS00450 (CIODNGDB_00089) 76066..76920 - 855 WP_011787802 universal stress protein -
SLH58_RS00455 (CIODNGDB_00090) 76955..78445 - 1491 WP_011787801 SulP family inorganic anion transporter -
SLH58_RS00460 (CIODNGDB_00091) 78926..79738 + 813 WP_319382182 conjugal transfer protein TraO traO
SLH58_RS00465 (CIODNGDB_00092) 79750..80454 + 705 WP_020805696 conjugal transfer protein TraP traP
SLH58_RS00470 (CIODNGDB_00093) 80478..81008 + 531 WP_011091077 conjugal transfer protein TraQ traQ
SLH58_RS00475 (CIODNGDB_00094) 81025..81414 + 390 WP_020805690 DUF6750 family protein traR
SLH58_RS00480 (CIODNGDB_00095) 81460..81954 + 495 WP_223294957 hypothetical protein -
SLH58_RS00485 (CIODNGDB_00096) 81951..85001 + 3051 WP_020805687 ATPase AAA traU
SLH58_RS00490 (CIODNGDB_00097) 85031..86206 + 1176 WP_167577398 conjugal transfer protein TraW traW
SLH58_RS00495 (CIODNGDB_00098) 86203..86853 + 651 WP_032426814 hypothetical protein -
SLH58_RS00500 (CIODNGDB_00099) 86846..89026 + 2181 WP_032426815 DotA/TraY family protein traY
SLH58_RS00505 (CIODNGDB_00100) 89029..89682 + 654 WP_020805693 hypothetical protein -
SLH58_RS00510 (CIODNGDB_00101) 89744..89986 + 243 WP_023893611 IncL/M type plasmid replication protein RepC -

Host bacterium

ID   20849 GenBank   NZ_OQ821124
Plasmid name   p24A17001_B_KPC_KPC Incompatibility group   IncL/M
Plasmid size   90282 bp Coordinate of oriT [Strand]   58857..58962 [+]
Host baterium   Citrobacter freundii strain 24A17CRGN001

Cargo genes

Drug resistance gene   blaKPC-3
Virulence gene   -
Metal resistance gene   merR
Degradation gene   -
Symbiosis gene   -
Anti-CRISPR   -