Detailed information of oriT

oriT

The information of the oriT region


oriTDB ID   115832
Name   oriT_pKM00_OXA48 in_silico
Organism   Enterobacter hormaechei strain 21KM1500
Sequence Completeness      -
NCBI accession of oriT (coordinates [strand])   NZ_CP126826 (51996..52101 [+], 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_pKM00_OXA48
AGTACGGGACAAGATGTGTTTTTGGAGTACCGCCGACACGCGGCGGCCGTCCAAAAACGTCTTGGTCAGGGCAAGCCCCGACACCCCCTAACGAGGTTAGCTATCT

Visualization of oriT structure

  oriT secondary structure

Predicted by RNAfold.

Download structure file


Relaxase

ID   10144 GenBank   WP_004187323
Name   traI_QPR53_RS24630_pKM00_OXA48 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   11851 GenBank   WP_004206885
Name   t4cp2_QPR53_RS24335_pKM00_OXA48 insolico UniProt ID   _
Length   695 a.a. PDB ID   _
Note   Predicted by oriTfinder 2.0

  T4CP protein sequence


Download         Length: 695 a.a.        Molecular weight: 79538.91 Da        Isoelectric Point: 4.8317

>WP_004206885.1 MULTISPECIES: conjugal transfer protein TrbC [Enterobacterales]
MQQESVDSKKVLRPDGSFMEWFLTPNVQFGLLAILTVLGLFLPFTMLLSILILPPLMVAFTDRKFRPPLR
MPKDCEMFDDTLTTETQAEYRLGPIRIPHKVRERKKAKGILYVGYERGRLFGRELWLNMTDLLRHMVFFG
TTGSGKTETFYGFIVNFLLWCRGYCLSDGKADNKLAFATWSLARRFGREDDYYVLNLLTGSIDRFVNLVK
QESIPAQSNSVNLFSVAPPTFIIQLMESMLPQVGGDSAQWQDTAKAMMSALINALCYKRARGELLLSQRT
IQKNMSLPAMAALYVEAKKNGWHSEGYAALESYLENTPGFLLANAEYPETWEARAFEQHNYMSRQFLKTL
SLFNETYGHVFPEDSGDIRMDDIFHNDRILIVMIPSLELSRGEAATLGRLYVTLQRMTISKDLGYQLEGK
KEEVLLTHALNNQAPYGLIYDELGQYFTSGMDTLSAQMRSLEKMGVFSSQDHPSLARGANGEVDSLIANT
RVKYFESIEDRKTFEILRETVGQDYYSELSGQEAEHGTFSKTVREGDLYQIREKDRVNIRELRKQTEGQG
VISFQDALVRSAAFYIPDNEKFSSELPMRINRFIEVLPPSPATLYSIYPERKDDELAETNPDAMRFPPIK
LFGYDKAANSLLEKIEVFYELQCGAISPEEMSVCLFELFAEWLDGTETDDVLYHQEDDLFPMIEM

  Protein domains



No domain identified.


  Protein structure



No available structure.




T4SS

T4SS were predicted by using oriTfinder2.

Region 1: 1360..18651

Locus tag Coordinates Strand Size (bp) Protein ID Product Description
QPR53_RS24275 (QPR53_24270) 1360..2064 + 705 WP_015060002 conjugal transfer protein TraP traP
QPR53_RS24280 (QPR53_24275) 2088..2618 + 531 WP_004187478 conjugal transfer protein TraQ traQ
QPR53_RS24285 (QPR53_24280) 2635..3024 + 390 WP_004187479 DUF6750 family protein traR
QPR53_RS24290 (QPR53_24285) 3070..3564 + 495 WP_004187480 hypothetical protein -
QPR53_RS24295 (QPR53_24290) 3561..6611 + 3051 WP_004187482 hypothetical protein traU
QPR53_RS24300 (QPR53_24295) 6608..7816 + 1209 WP_011091082 conjugal transfer protein TraW traW
QPR53_RS24305 (QPR53_24300) 7813..8409 + 597 WP_015060003 hypothetical protein -
QPR53_RS24310 (QPR53_24305) 8402..10597 + 2196 WP_015062834 DotA/TraY family protein traY
QPR53_RS24315 (QPR53_24310) 10599..11252 + 654 WP_015060005 hypothetical protein -
QPR53_RS24320 (QPR53_24315) 11333..11563 + 231 WP_011091085 IncL/M type plasmid replication protein RepC -
QPR53_RS24325 (QPR53_24320) 11859..12914 + 1056 WP_015060006 plasmid replication initiator RepA -
QPR53_RS24330 (QPR53_24325) 14137..14232 + 96 WP_004206884 DinQ-like type I toxin DqlB -
QPR53_RS24335 (QPR53_24330) 14283..16370 - 2088 WP_004206885 conjugal transfer protein TrbC -
QPR53_RS24340 (QPR53_24335) 16383..17333 - 951 WP_004206886 DsbC family protein trbB
QPR53_RS24345 (QPR53_24340) 17344..18651 - 1308 WP_015059988 hypothetical protein trbA
QPR53_RS24350 (QPR53_24345) 18651..19046 - 396 WP_004187436 lytic transglycosylase domain-containing protein -
QPR53_RS24355 (QPR53_24350) 19151..19534 - 384 WP_019725042 DUF1496 domain-containing protein -
QPR53_RS24360 (QPR53_24355) 19614..20048 + 435 Protein_18 CPBP family intramembrane glutamate endopeptidase -
QPR53_RS24365 (QPR53_24360) 20063..21271 - 1209 WP_001206290 IS4-like element IS10A family transposase -
QPR53_RS24370 (QPR53_24365) 21574..22485 + 912 WP_015586033 LysR family transcriptional regulator -
QPR53_RS24375 (QPR53_24370) 22787..23584 - 798 WP_015059991 OXA-48 family carbapenem-hydrolyzing class D beta-lactamase OXA-48 -

Region 2: 54897..63576

Locus tag Coordinates Strand Size (bp) Protein ID Product Description
QPR53_RS24610 (QPR53_24605) 49981..50292 + 312 WP_004187333 hypothetical protein -
QPR53_RS24615 (QPR53_24610) 50425..50961 + 537 WP_004187332 hypothetical protein -
QPR53_RS24620 (QPR53_24615) 51463..51858 - 396 WP_019725163 hypothetical protein -
QPR53_RS24625 (QPR53_24620) 51893..52420 + 528 WP_172740549 plasmid mobilization protein MobA -
QPR53_RS24630 (QPR53_24625) 52407..54386 + 1980 WP_004187323 TraI/MobA(P) family conjugative relaxase -
QPR53_RS24635 (QPR53_24630) 54400..54900 + 501 WP_004187320 DotD/TraH family lipoprotein -
QPR53_RS24640 (QPR53_24635) 54897..55676 + 780 WP_004187315 type IV secretory system conjugative DNA transfer family protein traI
QPR53_RS24645 (QPR53_24640) 55687..56850 + 1164 WP_004187313 plasmid transfer ATPase TraJ virB11
QPR53_RS24650 (QPR53_24645) 56840..57100 + 261 WP_004187310 IcmT/TraK family protein traK
QPR53_RS24655 (QPR53_24650) 57125..60562 + 3438 WP_015586048 LPD7 domain-containing protein -
QPR53_RS24660 (QPR53_24655) 60528..61040 + 513 WP_011091071 hypothetical protein traL
QPR53_RS24665 (QPR53_24660) 61041..61253 - 213 WP_305953721 Hha/YmoA family nucleoid-associated regulatory protein -
QPR53_RS24670 (QPR53_24665) 61225..61635 - 411 WP_004187465 H-NS family nucleoid-associated regulatory protein -
QPR53_RS24675 (QPR53_24670) 61703..62416 + 714 WP_004187467 DotI/IcmL family type IV secretion protein traM
QPR53_RS24680 (QPR53_24675) 62425..63576 + 1152 WP_004187471 DotH/IcmK family type IV secretion protein traN

Host bacterium

ID   16265 GenBank   NZ_CP126826
Plasmid name   pKM00_OXA48 Incompatibility group   IncL/M
Plasmid size   63589 bp Coordinate of oriT [Strand]   51996..52101 [+]
Host baterium   Enterobacter hormaechei strain 21KM1500

Cargo genes

Drug resistance gene   blaOXA-48
Virulence gene   -
Metal resistance gene   -
Degradation gene   -
Symbiosis gene   -
Anti-CRISPR   -