Detailed information of oriT

oriT

The information of the oriT region


oriTDB ID   101305
Name   oriT_pDCCK1-KPC in_silico
Organism   Klebsiella pneumoniae strain HA7pKpn
Sequence Completeness      -
NCBI accession of oriT (coordinates [strand])   NZ_JAMPTY010000024 (6066..6170 [+], 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_pDCCK1-KPC
AGTACGGGACAAGATGTGTTTTTGGTACACCGCCGGCACGCCGGCAGTGACGCAAAAACGTCTTGGTCAGGGCAAGCCCCGACACCCCCTAACGAGGTTAGCTAT

Visualization of oriT structure

  oriT secondary structure

Predicted by RNAfold.

Download structure file


Relaxase

ID   1240 GenBank   WP_004206924
Name   traI_NDJ53_RS21780_pDCCK1-KPC 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   850 GenBank   WP_004206885
Name   t4cp2_NDJ53_RS22005_pDCCK1-KPC 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: 8968..28164

Locus tag Coordinates Strand Size (bp) Protein ID Product Description
NDJ53_RS21760 (NDJ53_21705) 4052..4363 + 312 WP_004187333 hypothetical protein -
NDJ53_RS21765 (NDJ53_21710) 4496..5032 + 537 WP_004206920 hypothetical protein -
NDJ53_RS21770 (NDJ53_21715) 5533..5898 - 366 WP_058672219 hypothetical protein -
NDJ53_RS21775 (NDJ53_21720) 6174..6491 + 318 WP_004206923 plasmid mobilization protein MobA -
NDJ53_RS21780 (NDJ53_21725) 6478..8457 + 1980 WP_004206924 TraI/MobA(P) family conjugative relaxase -
NDJ53_RS21785 (NDJ53_21730) 8471..8971 + 501 WP_004206925 DotD/TraH family lipoprotein -
NDJ53_RS21790 (NDJ53_21735) 8968..9747 + 780 WP_004187315 type IV secretory system conjugative DNA transfer family protein traI
NDJ53_RS21795 (NDJ53_21740) 9758..10921 + 1164 WP_004206926 plasmid transfer ATPase TraJ virB11
NDJ53_RS21800 (NDJ53_21745) 10911..11171 + 261 WP_004187310 IcmT/TraK family protein traK
NDJ53_RS21805 (NDJ53_21750) 11196..14501 + 3306 WP_242781107 LPD7 domain-containing protein -
NDJ53_RS21810 (NDJ53_21755) 14467..14979 + 513 WP_011091071 hypothetical protein traL
NDJ53_RS21815 (NDJ53_21760) 14980..15192 - 213 WP_305953721 Hha/YmoA family nucleoid-associated regulatory protein -
NDJ53_RS21820 (NDJ53_21765) 15164..15574 - 411 WP_004187465 H-NS family nucleoid-associated regulatory protein -
NDJ53_RS21825 (NDJ53_21770) 15642..16355 + 714 WP_223294958 DotI/IcmL family type IV secretion protein traM
NDJ53_RS21830 (NDJ53_21775) 16364..17515 + 1152 WP_015062843 DotH/IcmK family type IV secretion protein traN
NDJ53_RS21835 (NDJ53_21780) 17527..18876 + 1350 WP_004206932 conjugal transfer protein TraO traO
NDJ53_RS21840 (NDJ53_21785) 18888..19592 + 705 WP_004206933 conjugal transfer protein TraP traP
NDJ53_RS21845 (NDJ53_21790) 19616..20146 + 531 WP_004187478 conjugal transfer protein TraQ traQ
NDJ53_RS21850 (NDJ53_21795) 20163..20552 + 390 WP_011154472 DUF6750 family protein traR
NDJ53_RS21855 (NDJ53_21800) 20598..21092 + 495 WP_004187480 hypothetical protein -
NDJ53_RS21860 (NDJ53_21805) 21089..24139 + 3051 WP_011154474 conjugative transfer protein traU
NDJ53_RS21865 (NDJ53_21810) 24136..25344 + 1209 WP_004187486 conjugal transfer protein TraW traW
NDJ53_RS21870 (NDJ53_21815) 25341..25991 + 651 WP_004187488 hypothetical protein -
NDJ53_RS21875 (NDJ53_21820) 25984..28164 + 2181 WP_004187492 DotA/TraY family protein traY
NDJ53_RS21880 (NDJ53_21825) 28167..28820 + 654 WP_004206935 hypothetical protein -
NDJ53_RS21885 (NDJ53_21830) 28894..29124 + 231 WP_004187496 IncL/M type plasmid replication protein RepC -
NDJ53_RS21890 (NDJ53_21835) 29421..30476 + 1056 WP_230206039 plasmid replication initiator RepA -
NDJ53_RS21895 (NDJ53_21840) 31368..31823 - 456 WP_001166628 Hg(II)-responsive transcriptional regulator -
NDJ53_RS21900 (NDJ53_21845) 31895..32245 + 351 WP_031623830 mercuric ion transporter MerT -
NDJ53_RS21905 (NDJ53_21850) 32261..32536 + 276 WP_000732275 mercury resistance system periplasmic binding protein MerP -
NDJ53_RS21910 (NDJ53_21855) 32564..32752 + 189 Protein_39 MerC family mercury resistance protein -

Host bacterium

ID   1749 GenBank   NZ_JAMPTY010000024
Plasmid name   pDCCK1-KPC Incompatibility group   IncL/M
Plasmid size   77218 bp Coordinate of oriT [Strand]   6066..6170 [+]
Host baterium   Klebsiella pneumoniae strain HA7pKpn

Cargo genes

Drug resistance gene   blaKPC-2
Virulence gene   -
Metal resistance gene   merR, merT, merP
Degradation gene   -
Symbiosis gene   -
Anti-CRISPR   -