Detailed information of oriT

oriT

The information of the oriT region


oriTDB ID   117511
Name   oriT_pRA35 in_silico
Organism   Raoultella planticola strain RA35
Sequence Completeness      -
NCBI accession of oriT (coordinates [strand])   NZ_LN864821 (34633..34738 [+], 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_pRA35
AGTACGGGACAAGATGTGTTTTTGGAGTACCGCCGACACGCGGCGGCCGTCCAAAAACGTCTTGGTCAGGGCAAGCCCCGACACCCCCTAACGAGGTTAGCTATCT

Visualization of oriT structure

  oriT secondary structure

Predicted by RNAfold.

Download structure file


Relaxase

ID   11156 GenBank   WP_004187323
Name   traI_HXH77_RS00295_pRA35 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   13036 GenBank   WP_004206885
Name   t4cp2_HXH77_RS00410_pRA35 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: 37534..63424

Locus tag Coordinates Strand Size (bp) Protein ID Product Description
HXH77_RS00275 32618..32929 + 312 WP_004187333 hypothetical protein -
HXH77_RS00280 33062..33598 + 537 WP_004187332 hypothetical protein -
HXH77_RS00285 34100..34495 - 396 WP_019725163 hypothetical protein -
HXH77_RS00430 34494..35057 + 564 WP_020277892 plasmid mobilization protein MobA -
HXH77_RS00295 35044..37023 + 1980 WP_004187323 TraI/MobA(P) family conjugative relaxase -
HXH77_RS00300 37037..37537 + 501 WP_004187320 DotD/TraH family lipoprotein -
HXH77_RS00305 37534..38313 + 780 WP_004187315 type IV secretory system conjugative DNA transfer family protein traI
HXH77_RS00310 38324..39487 + 1164 WP_004187313 plasmid transfer ATPase TraJ virB11
HXH77_RS00315 39477..39737 + 261 WP_004187310 IcmT/TraK family protein traK
HXH77_RS00435 39762..43064 + 3303 WP_220388381 LPD7 domain-containing protein -
HXH77_RS00325 43030..43542 + 513 WP_011091071 hypothetical protein traL
HXH77_RS00330 43543..43740 - 198 WP_004187464 Hha/YmoA family nucleoid-associated regulatory protein -
HXH77_RS00335 43727..44137 - 411 WP_004187465 H-NS family nucleoid-associated regulatory protein -
HXH77_RS00340 44136..44918 + 783 WP_015058941 DotI/IcmL family type IV secretion protein traM
HXH77_RS00345 44927..46078 + 1152 WP_004187471 DotH/IcmK family type IV secretion protein traN
HXH77_RS00350 46090..47439 + 1350 WP_004187474 conjugal transfer protein TraO traO
HXH77_RS00355 47451..48155 + 705 WP_015060002 conjugal transfer protein TraP traP
HXH77_RS00360 48179..48709 + 531 WP_004187478 conjugal transfer protein TraQ traQ
HXH77_RS00365 48726..49115 + 390 WP_004187479 DUF6750 family protein traR
HXH77_RS00370 49161..49655 + 495 WP_004187480 hypothetical protein -
HXH77_RS00375 49652..52702 + 3051 WP_004187482 hypothetical protein traU
HXH77_RS00380 52699..53907 + 1209 WP_011091082 conjugal transfer protein TraW traW
HXH77_RS00385 53904..54500 + 597 WP_015060003 hypothetical protein -
HXH77_RS00390 54493..56688 + 2196 WP_015062834 DotA/TraY family protein traY
HXH77_RS00395 56690..57343 + 654 WP_015060005 hypothetical protein -
HXH77_RS00400 57412..57654 + 243 WP_023893611 IncL/M type plasmid replication protein RepC -
HXH77_RS00405 57938..59005 + 1068 WP_019725043 plasmid replication initiator RepA -
HXH77_RS00440 60228..60323 + 96 WP_004206884 DinQ-like type I toxin DqlB -
HXH77_RS00410 60374..62461 - 2088 WP_004206885 conjugal transfer protein TrbC -
HXH77_RS00415 62474..63424 - 951 WP_004206886 DsbC family protein trbB

Host bacterium

ID   17944 GenBank   NZ_LN864821
Plasmid name   pRA35 Incompatibility group   IncL/M
Plasmid size   63434 bp Coordinate of oriT [Strand]   34633..34738 [+]
Host baterium   Raoultella planticola strain RA35

Cargo genes

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