Detailed information of oriT

oriT

The information of the oriT region


oriTDB ID   103098
Name   oriT_6411TF in_silico
Organism   Klebsiella pneumoniae strain Kp6411
Sequence Completeness      -
NCBI accession of oriT (coordinates [strand])   NZ_KT935445 (55474..55578 [+], 105 nt)
oriT length   105 nt
IRs (inverted repeats)      32..37, 40..45  (GCCGGC..GCCGGC)
Location of nic site      _
Conserved sequence flanking the
  nic site    		  _
Note   Predicted by oriTfinder 2.0

  oriT sequence  


Download         Length: 105 nt

>oriT_6411TF
AGTACGGGACAAGATGTGTTTTTGGTACACCGCCGGCACGCCGGCAGTGACGCAAAAACGTCTTGGTCAGGGCAAGCCCCGACACCCCCTAACGAGGTTAGCTAT

Visualization of oriT structure

  oriT secondary structure

Predicted by RNAfold.

Download structure file


Relaxase

ID   2320 GenBank   WP_004206924
Name   Relaxase_HTG68_RS00395_6411TF insolico UniProt ID   A0A2V4FJ40
Length   659 a.a. PDB ID   
Note   Predicted by oriTfinder 2.0

  Relaxase protein sequence


Download         Length: 659 a.a.        Molecular weight: 75087.84 Da        Isoelectric Point: 10.0285

>WP_004206924.1 MULTISPECIES: TraI/MobA(P) family conjugative relaxase [Enterobacterales]
MVIPKIIEGRRDKKSSFGQLIKYMADKPSQELTDTVQPTPETALAVKSDMFEGLNNYLTRKQKVISTPVD
VEPGVQRVVVGDVTCQYNTFSLDGAAQEMNSVSQQSTRCKDPVMHYVLSWPDYEKPNDDQVFDSVKFTLA
SMGMSDHQYVAAIHRDTDNLHVHVAVNRINPQTYKAASSSFTKDTLHQACRLLELKNGWSHSNGAYVVND
RQQIVRNPHSKKERGNWRSLDRINKMENKEGVETLYRYIVGDEQVGGSRQNLIHVSAGLREAKSWDDVHK
TFAGIGLRVEKAQGKKGYVITHEHQNQKTAVKASLVFNKAQYTLKSMEERFGEYQPSHIEPAKVSVFKTA
YTPGAYRRDANKRLQRKIERAEERMLLKGRYRAYRNNLPIYSPDKDRIADEYRKIAQHTRLVKNNVRHSV
SDPHTRKLMYNLAEFKRLQAVANLRLSLREERNGFRAANPRLSYREWVEQEALKGDKAALSQMRGFAYSS
RKKEKYKQQLVEQIGFNRTFNAITSHDRDDVAVMASARHGVKPRLLKDGTVIFERDGKPVAADRGHIVLT
ESNGIDKEKTADLAIALTIAGKAKSVRVDGDGEFKELCCNRIVDAAVNHNHPVAQGITFTDAAQQAYAQN
EKHRLIREQNNSKNEMQLRSESDDKFNPK

  Protein domains


Predicted by InterproScan.

Relaxase/Mobilisation nuclease domain (Relaxase)

(86-334)


  Protein structure


Source ID Structure
AlphaFold DB A0A2V4FJ40


T4CP

ID   2046 GenBank   WP_004206885
Name   t4cp2_HTG68_RS00025_6411TF 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: 58376..77572

Locus tag Coordinates Strand Size (bp) Protein ID Product Description
HTG68_RS00375 53460..53771 + 312 WP_004187333 hypothetical protein -
HTG68_RS00380 53904..54440 + 537 WP_004206920 hypothetical protein -
HTG68_RS00385 54941..55306 - 366 WP_004206922 hypothetical protein -
HTG68_RS00390 55582..55899 + 318 WP_004206923 plasmid mobilization protein MobA -
HTG68_RS00395 55886..57865 + 1980 WP_004206924 TraI/MobA(P) family conjugative relaxase -
HTG68_RS00400 57879..58379 + 501 WP_004206925 DotD/TraH family lipoprotein -
HTG68_RS00405 58376..59155 + 780 WP_004187315 type IV secretory system conjugative DNA transfer family protein traI
HTG68_RS00410 59166..60329 + 1164 WP_045342066 plasmid transfer ATPase TraJ virB11
HTG68_RS00415 60319..60579 + 261 WP_004187310 IcmT/TraK family protein traK
HTG68_RS00505 60604..63909 + 3306 WP_220035706 LPD7 domain-containing protein -
HTG68_RS00425 63833..64387 + 555 WP_011154467 hypothetical protein traL
HTG68_RS00430 64388..64585 - 198 WP_004187464 Hha/YmoA family nucleoid-associated regulatory protein -
HTG68_RS00435 64572..64982 - 411 WP_004187465 H-NS family nucleoid-associated regulatory protein -
HTG68_RS00440 64981..65763 + 783 WP_113807684 DotI/IcmL family type IV secretion protein traM
HTG68_RS00445 65772..66923 + 1152 WP_015062843 DotH/IcmK family type IV secretion protein traN
HTG68_RS00450 66935..68284 + 1350 WP_004206932 conjugal transfer protein TraO traO
HTG68_RS00455 68296..69000 + 705 WP_045342064 conjugal transfer protein TraP traP
HTG68_RS00460 69024..69554 + 531 WP_004187478 conjugal transfer protein TraQ traQ
HTG68_RS00465 69571..69960 + 390 WP_011154472 DUF6750 family protein traR
HTG68_RS00470 70006..70500 + 495 WP_004187480 hypothetical protein -
HTG68_RS00475 70497..73547 + 3051 WP_011154474 conjugative transfer protein traU
HTG68_RS00480 73544..74752 + 1209 WP_004187486 conjugal transfer protein TraW traW
HTG68_RS00485 74749..75399 + 651 WP_004187488 hypothetical protein -
HTG68_RS00490 75392..77572 + 2181 WP_004187492 DotA/TraY family protein traY
HTG68_RS00495 77575..78228 + 654 WP_004206935 hypothetical protein -
HTG68_RS00500 78302..78532 + 231 WP_004187496 IncL/M type plasmid replication protein RepC -

Host bacterium

ID   3541 GenBank   NZ_KT935445
Plasmid name   6411TF Incompatibility group   IncL/M
Plasmid size   78828 bp Coordinate of oriT [Strand]   55474..55578 [+]
Host baterium   Klebsiella pneumoniae strain Kp6411

Cargo genes

Drug resistance gene   blaTEM-1A, sul1, qacE, dfrA22, rmtD
Virulence gene   -
Metal resistance gene   -
Degradation gene   -
Symbiosis gene   -
Anti-CRISPR   -