Detailed information of oriT

oriT

The information of the oriT region


oriTDB ID   101674
Name   oriT_p211DT2019_2 in_silico
Organism   Klebsiella michiganensis strain CPE5
Sequence Completeness      -
NCBI accession of oriT (coordinates [strand])   NZ_JACYGO010000003 (56513..56618 [-], 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_p211DT2019_2
AGTACGGGACAAGATGTGTTTTTGGAGTACCGCCGACACGCGGCGGCCGTCCAAAAACGTCTTGGTCAGGGCAAGCCCCGACACCCCCTAACGAGGTTAGCTATCT

Visualization of oriT structure

  oriT secondary structure

Predicted by RNAfold.

Download structure file


Relaxase

ID   1448 GenBank   WP_004187323
Name   Relaxase_IY169_RS01130_p211DT2019_2 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   1123 GenBank   WP_004206885
Name   t4cp2_IY169_RS01015_p211DT2019_2 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: 26374..53717

Locus tag Coordinates Strand Size (bp) Protein ID Product Description
IY169_RS00975 22047..22844 - 798 WP_015059991 OXA-48 family carbapenem-hydrolyzing class D beta-lactamase OXA-48 -
IY169_RS00980 23063..23760 + 698 WP_095033700 IS1-like element IS1B family transposase -
IY169_RS00985 23757..24962 + 1206 WP_025987686 IS4-like element IS10A family transposase -
IY169_RS00990 24977..25411 - 435 Protein_40 CPBP family intramembrane glutamate endopeptidase -
IY169_RS00995 25491..25874 + 384 WP_019725042 DUF1496 domain-containing protein -
IY169_RS01000 26099..26374 + 276 WP_004206888 lytic transglycosylase domain-containing protein -
IY169_RS01005 26374..27681 + 1308 WP_015059988 hypothetical protein trbA
IY169_RS01010 27692..28642 + 951 WP_004206886 DsbC family protein trbB
IY169_RS01015 28655..30742 + 2088 WP_004206885 conjugal transfer protein TrbC -
IY169_RS30480 30793..30888 - 96 WP_004206884 DinQ-like type I toxin DqlB -
IY169_RS01020 32111..33166 - 1056 WP_015060006 plasmid replication initiator RepA -
IY169_RS01025 33462..33692 - 231 WP_011091085 IncL/M type plasmid replication protein RepC -
IY169_RS01030 33773..34426 - 654 WP_015060005 hypothetical protein -
IY169_RS01035 34428..36623 - 2196 WP_015062834 DotA/TraY family protein traY
IY169_RS01040 36616..37212 - 597 WP_015060003 hypothetical protein -
IY169_RS01045 37209..38294 - 1086 WP_228719183 conjugal transfer protein TraW traW
IY169_RS01050 38414..41464 - 3051 WP_004187482 hypothetical protein traU
IY169_RS01055 41461..41955 - 495 WP_004187480 hypothetical protein -
IY169_RS01060 42001..42390 - 390 WP_004187479 DUF6750 family protein traR
IY169_RS01065 42407..42937 - 531 WP_004187478 conjugal transfer protein TraQ traQ
IY169_RS01070 42961..43665 - 705 WP_015060002 conjugal transfer protein TraP traP
IY169_RS01075 43677..45026 - 1350 WP_004187474 conjugal transfer protein TraO traO
IY169_RS01080 45038..46189 - 1152 WP_004187471 DotH/IcmK family type IV secretion protein traN
IY169_RS01085 46198..46911 - 714 WP_004187467 DotI/IcmL family type IV secretion protein traM
IY169_RS01090 46979..47389 + 411 WP_004187465 H-NS family nucleoid-associated regulatory protein -
IY169_RS01095 47418..47573 + 156 WP_172693602 Hha/YmoA family nucleoid-associated regulatory protein -
IY169_RS01100 47574..48086 - 513 WP_011091071 hypothetical protein traL
IY169_RS30080 48052..51489 - 3438 WP_015586048 LPD7 domain-containing protein -
IY169_RS01110 51514..51774 - 261 WP_004187310 IcmT/TraK family protein traK
IY169_RS01115 51764..52927 - 1164 WP_004187313 plasmid transfer ATPase TraJ virB11
IY169_RS01120 52938..53717 - 780 WP_004187315 type IV secretory system conjugative DNA transfer family protein traI
IY169_RS01125 53714..54214 - 501 WP_004187320 DotD/TraH family lipoprotein -
IY169_RS01130 54228..56207 - 1980 WP_004187323 TraI/MobA(P) family conjugative relaxase -
IY169_RS30085 56194..56721 - 528 WP_172740549 plasmid mobilization protein MobA -
IY169_RS01140 56756..57151 + 396 WP_019725163 hypothetical protein -
IY169_RS01145 57653..58189 - 537 WP_004187332 hypothetical protein -
IY169_RS01150 58322..58633 - 312 WP_004187333 hypothetical protein -

Host bacterium

ID   2118 GenBank   NZ_JACYGO010000003
Plasmid name   p211DT2019_2 Incompatibility group   IncL/M
Plasmid size   63589 bp Coordinate of oriT [Strand]   56513..56618 [-]
Host baterium   Klebsiella michiganensis strain CPE5

Cargo genes

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