Detailed information of oriT

oriT

The information of the oriT region


oriTDB ID   115867
Name   oriT_pK342-KPC in_silico
Organism   Klebsiella michiganensis strain K342
Sequence Completeness      -
NCBI accession of oriT (coordinates [strand])   NZ_OM938015 (197736..197836 [+], 101 nt)
oriT length   101 nt
IRs (inverted repeats)      80..85, 91..96  (AAAAAA..TTTTTT)
 20..26, 38..44  (TAAATCA..TGATTTA)
Location of nic site      62..63
Conserved sequence flanking the
  nic site    		  GGTGTATAGC
Note   Predicted by oriTfinder 2.0

  oriT sequence  


Download         Length: 101 nt

>oriT_pK342-KPC
TATTTATTTTTTTATTTTTTAAATCAGTGTGATAGCGTGATTTATCGCGCTGCGTTAGGTGTATAGCAGGTTAAGGGATAAAAAATCATCTTTTTTGGTAG

Visualization of oriT structure

  oriT secondary structure

Predicted by RNAfold.

Download structure file


Relaxase

ID   10161 GenBank   WP_000884352
Name   mobF_N6X25_RS01080_pK342-KPC insolico UniProt ID   A8R732
Length   1078 a.a. PDB ID   
Note   Predicted by oriTfinder 2.0

  Relaxase protein sequence


Download         Length: 1078 a.a.        Molecular weight: 120163.41 Da        Isoelectric Point: 6.5766

>WP_000884352.1 MULTISPECIES: MobF family relaxase [Enterobacterales]
MLDITTITRQNVTSVVGYYSDAKDDYYSKDSSFTSWQGTGAEALGLSGDVESARFKELLVGEIDTFTHMQ
RHVGDAKKERLGYDLTFSAPKGVSMQALIHGDKTIIEAHEKAVAAAVREAEKLAQARTTRQGKSVTQNTN
NLVVATFRHETSRALDPDLHTHAFVMNMTQREDGQWRALKNDELMRNKMHLGDVYKQELALELTKAGYEL
RYNSKNNTFDMAHFSDEQIRAFSRRSEQIEKGLAAMGLTRETADAQTKSRVSMATREKKTEHSREEIHQE
WASRAKTLGIDFDNREWQGHGKPLEADIARNMAPDFTSPEVKADRAIQFAVKSLSERDASFERQKLIQIA
NKQVLGHATIADVEKAYLKAVQKGAIIEGEARYQSTLKVGASVMAETLTRKEWIDSLTNSGMRADKARFA
VDDGIKNGRLKKTSHRVTTVEGIRLERSILTIESRGRGQMPRQLTAEIAGQLLAGKTLKKEQMRAVTEIV
TSKDRFVAAHGYAGTGKSYMTMAAKELLESQGLKVTALAPYGTQKKALEDDGLPARTVAAFLKAKDKKLD
EKSVVFIDEAGVIPARQMKQLMEVIEKHNARAVFLGDTSQTKAVEAGKPFEQLIKAGMQTSYMKDIQRQK
NEVLLEAVKYAAEGNAARALKNITGVNELKEEAPRLAQLADRYLSLSSEQQDATLIISGTNASRKTLNDY
IRGNLGLAGTGETFTLLDRVDSTQAERRDSRYFSKGQIIIPEQDYKNGMKRGESYQVLDTGPGNKLTVES
ISGEQIAFSPRTHTKLSVYQAVSAELAPGDKVMVTRNDKTLDVANGDRFTVKTVEGEKLTLEDKKGRTVE
LDKKQASYLSYAYATTVHKSQGLTCDRVLFNIDTKSLTTSKDVFYVGISRARHEVEIFTDDKKSLASSVS
RDSPKTTAAEIDRFFGLEARFKDIGRDTSLETRSAEKGLPEATGESMAFNQKPDEHNMTTGTDYQPVSNA
EDAFHLKQNPMDDSVGLRRHEAQQNDAELAHDYAAADDQQWSAQEYADYEHYAEASDYDFDSSIYDDYAM
PQTSQAEQSHTGKEHTHEHEHEEGGHEI

  Protein domains


Predicted by InterproScan.

UvrD-like helicase C-terminal domain (UvrD_C_2)

(851-895)

TrwC relaxase (TrwC)

(16-287)

AAA domain (AAA_30)

(477-653)


  Protein structure


Source ID Structure
AlphaFold DB A8R732


Auxiliary protein

ID   5971 GenBank   WP_001532083
Name   WP_001532083_pK342-KPC insolico UniProt ID   A8R734
Length   138 a.a. PDB ID   _
Note   Predicted by oriTfinder 2.0

  Auxiliary protein sequence


Download         Length: 138 a.a.        Molecular weight: 15332.60 Da        Isoelectric Point: 5.9670

>WP_001532083.1 MULTISPECIES: hypothetical protein [Enterobacterales]
MPIITAKVSDELLAYIDLVSGGNRSDYLRRCLEAGPGDRESGLKIVADRLSDVNRKLDYLFDRASDADFG
PLRDELKAITETLSGVKFPPAGQMMLHESLAIETLILLRSIAEPGKTKAAKAEVERNGYKVWEPKKER

  Protein domains



No domain identified.



  Protein structure


Source ID Structure
AlphaFold DB A8R734


T4CP

ID   11869 GenBank   WP_000342688
Name   t4cp2_N6X25_RS01085_pK342-KPC insolico UniProt ID   _
Length   509 a.a. PDB ID   _
Note   Predicted by oriTfinder 2.0

  T4CP protein sequence


Download         Length: 509 a.a.        Molecular weight: 57762.87 Da        Isoelectric Point: 9.6551

>WP_000342688.1 MULTISPECIES: type IV secretion system DNA-binding domain-containing protein [Enterobacterales]
MDDRERGLAFLFAITLPPVMVWFLVAKFTYGIDPSTAKYLIPYLVKNTFSLWPLWSALIAGWFIGVGGLI
AFIIYDKSRVFKGERFKKIYRGTELVRARTLADKTRERGVNQLTVANIPIPTYAENLHFSIAGTTGTGKT
TIFNELLFKSIIRGGKNIALDPNGGFLKNFYRPGDVILNAYDKRTEGWVFFNEIRRSYDYERLVNSIVQE
SPDMATEEWFGYGRLIFSEVSKKLHSLYSTVTMEEVIHWACNVDQKKLKEFLMGTPAEAIFSGSEKAVGS
ARFVLSKNLAPHLKMPEGNFSLRDWLDDGKPGTLFITWQEEMKRSLNPLISCWLDSIFSIVLGMGEKESR
INVFIDELESLQFLPNLNDALTKGRKSGLCVYAGYQTYSQLVKVYGRDMAQTILANMRSNIVLGGSRLGD
ETLDQMSRSLGEIEGEVERKESDPQKPWIVRKRRDVKVVRAVTPTEISMLPNLTGYLALPGDMPVAKFKA
KHVKYHRKNPVPGIELREI

  Protein domains


Predicted by InterproScan.

Type IV secretion-system coupling protein DNA-binding domain (TrwB_AAD_bind)

(113-489)

  Protein structure



No available structure.




T4SS

T4SS were predicted by using oriTfinder2.

Region 1: 180747..197170

Locus tag Coordinates Strand Size (bp) Protein ID Product Description
N6X25_RS00965 176873..177445 - 573 WP_001493762 recombinase family protein -
N6X25_RS00970 177582..178127 - 546 WP_001493763 plasmid pRiA4b ORF-3 family protein -
N6X25_RS00975 178236..178397 + 162 WP_260630687 IS1 family transposase -
N6X25_RS00980 178417..178614 - 198 WP_000844102 hypothetical protein -
N6X25_RS00985 178619..179260 - 642 WP_001694850 restriction endonuclease -
N6X25_RS00990 179316..179549 - 234 WP_001191790 hypothetical protein -
N6X25_RS00995 179663..179977 - 315 WP_000734776 TrbM/KikA/MpfK family conjugal transfer protein -
N6X25_RS01000 179940..180317 - 378 WP_000504251 hypothetical protein -
N6X25_RS01005 180333..180704 - 372 WP_011867773 H-NS family nucleoid-associated regulatory protein -
N6X25_RS01010 180747..181481 + 735 WP_000033783 lytic transglycosylase domain-containing protein virB1
N6X25_RS01015 181490..181771 + 282 WP_000440698 transcriptional repressor KorA -
N6X25_RS01020 181781..182074 + 294 WP_000209137 TrbC/VirB2 family protein virB2
N6X25_RS01025 182124..182441 + 318 WP_000496058 VirB3 family type IV secretion system protein virB3
N6X25_RS01030 182441..185041 + 2601 WP_001200711 VirB4 family type IV secretion/conjugal transfer ATPase virb4
N6X25_RS01035 185059..185772 + 714 WP_000749362 type IV secretion system protein virB5
N6X25_RS01040 185780..186007 + 228 WP_000734973 IncN-type entry exclusion lipoprotein EexN -
N6X25_RS01045 186023..187063 + 1041 WP_000886022 type IV secretion system protein virB6
N6X25_RS01050 187282..187980 + 699 WP_000646594 virB8 family protein virB8
N6X25_RS01055 187991..188875 + 885 WP_000735067 TrbG/VirB9 family P-type conjugative transfer protein virB9
N6X25_RS01060 188875..190035 + 1161 WP_000101711 type IV secretion system protein VirB10 virB10
N6X25_RS01065 190077..191072 + 996 WP_000128596 ATPase, T2SS/T4P/T4SS family virB11
N6X25_RS01070 191072..191605 + 534 WP_000731968 phospholipase D family protein -
N6X25_RS01185 191779..192405 - 627 WP_000434930 DUF6710 family protein -
N6X25_RS01080 192405..195641 - 3237 WP_000884352 MobF family relaxase -
N6X25_RS01085 195641..197170 - 1530 WP_000342688 type IV secretion system DNA-binding domain-containing protein virb4
N6X25_RS01090 197172..197588 - 417 WP_001532083 hypothetical protein -
N6X25_RS01095 198100..198519 + 420 WP_000802909 plasmid stabilization protein StbA -
N6X25_RS01100 198528..199244 + 717 WP_000861577 StbB family protein -
N6X25_RS01105 199246..199614 + 369 WP_000414913 plasmid stabilization protein StbC -
N6X25_RS01110 199796..200140 + 345 WP_000999874 hypothetical protein -
N6X25_RS01115 200251..200571 - 321 WP_000211833 protein CcgAII -
N6X25_RS01120 200626..200805 - 180 WP_000214483 protein CcgAI -
N6X25_RS01125 201637..202146 - 510 WP_000129958 antirestriction protein ArdA -

Host bacterium

ID   16300 GenBank   NZ_OM938015
Plasmid name   pK342-KPC Incompatibility group   IncN
Plasmid size   209340 bp Coordinate of oriT [Strand]   197736..197836 [+]
Host baterium   Klebsiella michiganensis strain K342

Cargo genes

Drug resistance gene   blaKPC-2, qnrS1
Virulence gene   -
Metal resistance gene   arsH, arsC, arsB, pcoE, pcoS, pcoR, pcoD, pcoC, pcoB, pcoA, silP, silA, silB, silF, silC, silR, silS, silE, arsR, arsD, arsA
Degradation gene   -
Symbiosis gene   -
Anti-CRISPR   -