Detailed information of oriT

oriT

The information of the oriT region


oriTDB ID   103310
Name   oriT_pLimOXA-48 in_silico
Organism   Klebsiella pneumoniae strain 69G1
Sequence Completeness      -
NCBI accession of oriT (coordinates [strand])   NZ_MK370728 (39372..39477 [+], 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_pLimOXA-48
AGTACGGGACAAGATGTGTTTTTGGAGTACCGCCGACACGCGGCGGCCGTCCAAAAACGTCTTGGTCAGGGCAAGCCCCGACACCCCCTAACGAGGTTAGCTATCT

Visualization of oriT structure

  oriT secondary structure

Predicted by RNAfold.

Download structure file


Relaxase

ID   2472 GenBank   WP_004187323
Name   Relaxase_HTV06_RS00305_pLimOXA-48 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   2252 GenBank   WP_004206885
Name   t4cp2_HTV06_RS00010_pLimOXA-48 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: 42273..61416

Locus tag Coordinates Strand Size (bp) Protein ID Product Description
HTV06_RS00285 37357..37668 + 312 WP_004187333 hypothetical protein -
HTV06_RS00290 37801..38337 + 537 WP_011091066 hypothetical protein -
HTV06_RS00295 38839..39234 - 396 WP_019725163 hypothetical protein -
HTV06_RS00435 39233..39796 + 564 WP_020277892 plasmid mobilization protein MobA -
HTV06_RS00305 39783..41762 + 1980 WP_004187323 TraI/MobA(P) family conjugative relaxase -
HTV06_RS00310 41776..42276 + 501 WP_004187320 DotD/TraH family lipoprotein -
HTV06_RS00315 42273..43052 + 780 WP_004187315 type IV secretory system conjugative DNA transfer family protein traI
HTV06_RS00320 43063..44226 + 1164 WP_004187313 plasmid transfer ATPase TraJ virB11
HTV06_RS00325 44216..44476 + 261 WP_004187310 IcmT/TraK family protein traK
HTV06_RS00330 44501..45853 + 1353 WP_172684945 toprim domain-containing protein -
HTV06_RS00335 45816..47792 + 1977 WP_227626110 LPD7 domain-containing protein -
HTV06_RS00340 47758..48270 + 513 WP_011091071 hypothetical protein traL
HTV06_RS00345 48271..48468 - 198 WP_004187464 Hha/YmoA family nucleoid-associated regulatory protein -
HTV06_RS00350 48455..48865 - 411 WP_004187465 H-NS family nucleoid-associated regulatory protein -
HTV06_RS00355 48864..49646 + 783 WP_015058941 DotI/IcmL family type IV secretion protein traM
HTV06_RS00360 49655..50806 + 1152 WP_015060001 DotH/IcmK family type IV secretion protein traN
HTV06_RS00365 50818..52167 + 1350 WP_004187474 conjugal transfer protein TraO traO
HTV06_RS00370 52179..52883 + 705 WP_015060002 conjugal transfer protein TraP traP
HTV06_RS00375 52907..53437 + 531 WP_004187478 conjugal transfer protein TraQ traQ
HTV06_RS00380 53454..53843 + 390 WP_004187479 DUF6750 family protein traR
HTV06_RS00385 53889..54383 + 495 WP_004187480 hypothetical protein -
HTV06_RS00390 54380..57430 + 3051 WP_004187482 hypothetical protein traU
HTV06_RS00395 57427..58635 + 1209 WP_011091082 conjugal transfer protein TraW traW
HTV06_RS00400 58632..59228 + 597 WP_015060003 hypothetical protein -
HTV06_RS00405 59221..61416 + 2196 WP_015062834 DotA/TraY family protein traY
HTV06_RS00410 61418..62071 + 654 WP_015060005 hypothetical protein -
HTV06_RS00415 62140..62382 + 243 WP_023893611 IncL/M type plasmid replication protein RepC -

Host bacterium

ID   3753 GenBank   NZ_MK370728
Plasmid name   pLimOXA-48 Incompatibility group   IncL/M
Plasmid size   62677 bp Coordinate of oriT [Strand]   39372..39477 [+]
Host baterium   Klebsiella pneumoniae strain 69G1

Cargo genes

Drug resistance gene   blaOXA-48
Virulence gene   -
Metal resistance gene   -
Degradation gene   -
Symbiosis gene   -
Anti-CRISPR   AcrIIA8