Detailed information of oriT

oriT

The information of the oriT region


oriTDB ID   101387
Name   oriT_p33Kpn16-KPC in_silico
Organism   Klebsiella variicola strain 33Kva16
Sequence Completeness      -
NCBI accession of oriT (coordinates [strand])   NZ_JAGTWT010000009 (44938..45038 [+], 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_p33Kpn16-KPC
TATTTATTTTTTTATCTTTTAAATCAGTATGATAGCGTGATTTATCGCGCTGCGTTAGGTGTATAGCAGGTTAAGGGATAAAAAATCATCTTTTTTGGTAG

Visualization of oriT structure

  oriT secondary structure

Predicted by RNAfold.

Download structure file


Relaxase

ID   1270 GenBank   WP_001749977
Name   mobF_J0X08_RS27175_p33Kpn16-KPC insolico UniProt ID   A0A5C2CVP7
Length   1080 a.a. PDB ID   
Note   Predicted by oriTfinder 2.0

  Relaxase protein sequence


Download         Length: 1080 a.a.        Molecular weight: 120419.59 Da        Isoelectric Point: 6.5483

>WP_001749977.1 MULTISPECIES: MobF family relaxase [Gammaproteobacteria]
MLDITTITRQNVTSVVGYYSDAKDDYYSKDSSFTSWQGTGAEALGLSGDVESARFKELLVGEIDTFTHMQ
RHVGDAKKERLGYDLTFSAPKGVSMQALIHGDKTIIEAHEKAVAAAVREAEKLAQARTTRQGKSVTQNTN
NLVVATFRHETSRALDPDLHTHAFVMNMTQREDGQWRALKNDELMRNKMHLGDVYKQELALELTKAGYEL
RYNSKNNTFDMAHFSDEQIRAFSRRSEQIEKGLAAMGLTRETADAQTKSRVSMATREKKTEHSREEIHQE
WASRAKTLGIDFDNREWQGHGKPLEADIARNMAPDFTSPEVKADRAIQFAVKSLSERDASFERQKLIQIA
NKQVLGHATIADVEKAYLKAVQKGAIIEGEARYQSTLKVGASVMAETLTRKEWIDSLTNSGMRADKARFA
VDDGIKNGRLKKTSHRVTTVEGIRLERSILTIESRGRGQMPRQLTAEIAGQLLAGKTLKKEQMRAVTEIV
TSKDRFVAAHGYAGTGKSYMTMAAKELLESQGLKVTALAPYGTQKKALEDDGLPARTVAAFLKAKDKKLD
EKSVVFIDEAGVIPARQMKQLMEVIEKHNARAVFLGDTSQTKAVEAGKPFEQLIKAGMQTSYMKDIQRQK
NEVLLEAVKYAAEGNAARALKNITGVNELKEEAPRLSQLADRYLSLSSEQQDATLIISGTNASRKTLNDY
IRGNLGLAGTGETFTLLDRVDSTQAERRDSRYFSKGQIIIPEQDYKNGMKRGESYQVLDTGPGNKLTVES
SSGEQIAFSPRTHTKLSVYQAVSAELAPGDKVMVTRNDKTLDVANGDRFTVKTVEGEKLTLEDKKGRTVE
LDKKQASYLSYAYATTVHKSQGLTCDRVLFNIDTKSLTTSKDVFYVGISRARHEVEIFTDDKKSLASSVS
RDSPKTTAAEIDRFFGLEARFKDIGRDTSLETRSAEKGLPEATGESMAFNQKPDEHNMTTGTDYQPVSNA
EDAFHLKQNPMDDSVGLRRHEAQQNDAELAHDYAAADDQQWSAQEYADYEHYAEASDYDFDSSIYDDYAM
PQTSQAEQSHTGKEHTHEHEHEHEEGGHEI

  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 A0A5C2CVP7


Auxiliary protein

ID   453 GenBank   WP_001749975
Name   WP_001749975_p33Kpn16-KPC insolico UniProt ID   A0A5C2CVS6
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_001749975.1 MULTISPECIES: hypothetical protein [Gammaproteobacteria]
MPIITAKVSDELLAYIDLVSGGNRSDYLRRCIEAGPGDRESGLKIVADRLSDVNRKLDYLFDRASDADFG
PLRDELKAITETLSGVKFPPAGQMMLHESLAIETLILLRSIAEPGKTKAAKAEVERNGYKVWEPKKER

  Protein domains



No domain identified.



  Protein structure


Source ID Structure
AlphaFold DB A0A5C2CVS6


T4CP

ID   881 GenBank   WP_001749976
Name   t4cp2_J0X08_RS27180_p33Kpn16-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: 57679.73 Da        Isoelectric Point: 9.5788

>WP_001749976.1 MULTISPECIES: type IV secretion system DNA-binding domain-containing protein [Gammaproteobacteria]
MDDRERGLAFLFAITLPPVMVWFLVAKFTYGIDPSTAKYLIPYLVKNTFSLWPLWSALIAGWFIGVGGLI
AFIIYDKSRVFKGERFKKIYRGTELVSARTLADKTRERGVNQLTVANIPIPTYAENLHFSIAGTTGTGKT
TIFNELLFKSIIRGGKNIALDPNGGFLKNFYRPGDVILNAYDKRTEGWVFFNEIRRSYDYERLVNSIVQE
SPDMATEEWFGYGRLIFSEVSKKLHSLYSTVTMEEVIHWACNVDQKKLKEFLMGTPAEAIFSGSEKAVGS
ARFVLSKNLAPHLKMPEGNFSLRDWLDDGKPGTLFITWQEEMKRSLNPLISCWLDSIFSIVLGMGEKESR
INVFIDELESLQFLPNLNDALTKGRKSGLCVYAGYQTYSQLVKVYGRDMAQTILANMRSNIVLGGSRLGD
ETLDQMSRSLGEIEGEVERKESDPQKPWIVRKRRDVKVVRAVTPTEISMLPNLTGYLALPGDMPVAKFKA
KHVKYHRKNPVPGIELRDI

  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: 21790..32115

Locus tag Coordinates Strand Size (bp) Protein ID Product Description
J0X08_RS27040 17639..19072 - 1434 Protein_20 DNA cytosine methyltransferase -
J0X08_RS27045 (J0X08_05279) 19170..19442 + 273 Protein_21 IS1 family transposase -
J0X08_RS27580 19743..19976 - 234 WP_323129687 restriction endonuclease -
J0X08_RS27645 20055..20452 - 398 Protein_23 hypothetical protein -
J0X08_RS27055 (J0X08_05280) 20358..20669 - 312 WP_001452736 hypothetical protein -
J0X08_RS27060 (J0X08_05281) 20705..21019 - 315 WP_001749965 TrbM/KikA/MpfK family conjugal transfer protein -
J0X08_RS27065 21016..21360 - 345 WP_001749964 hypothetical protein -
J0X08_RS27070 21376..21747 - 372 WP_011867773 H-NS family nucleoid-associated regulatory protein -
J0X08_RS27075 (J0X08_05283) 21790..22524 + 735 WP_001749963 lytic transglycosylase domain-containing protein virB1
J0X08_RS27080 (J0X08_05284) 22533..22814 + 282 WP_000440698 transcriptional repressor KorA -
J0X08_RS27085 (J0X08_05285) 22824..23117 + 294 WP_001749962 hypothetical protein virB2
J0X08_RS27090 (J0X08_05286) 23167..23484 + 318 WP_000496058 VirB3 family type IV secretion system protein virB3
J0X08_RS27095 (J0X08_05287) 23484..26084 + 2601 WP_001749961 VirB4 family type IV secretion/conjugal transfer ATPase virb4
J0X08_RS27100 (J0X08_05288) 26102..26815 + 714 WP_001749960 type IV secretion system protein virB5
J0X08_RS27105 (J0X08_05289) 26823..27050 + 228 WP_001749959 IncN-type entry exclusion lipoprotein EexN -
J0X08_RS27110 (J0X08_05290) 27066..28106 + 1041 WP_001749958 type IV secretion system protein virB6
J0X08_RS27650 28207..28335 + 129 WP_071882546 conjugal transfer protein TraN -
J0X08_RS27115 (J0X08_05291) 28325..29023 + 699 WP_000646594 type IV secretion system protein virB8
J0X08_RS27120 (J0X08_05292) 29034..29918 + 885 WP_000735066 TrbG/VirB9 family P-type conjugative transfer protein virB9
J0X08_RS27125 (J0X08_05293) 29918..31078 + 1161 WP_000101710 type IV secretion system protein VirB10 virB10
J0X08_RS27130 (J0X08_05294) 31120..32115 + 996 WP_000128596 ATPase, T2SS/T4P/T4SS family virB11
J0X08_RS27135 32115..32360 + 246 Protein_41 phospholipase D-like domain-containing protein -
J0X08_RS27140 32841..33152 + 312 Protein_42 transposase -
J0X08_RS27145 (J0X08_05296) 33402..34283 - 882 WP_004199234 carbapenem-hydrolyzing class A beta-lactamase KPC-2 -
J0X08_RS27150 34505..35155 - 651 WP_045286946 class A beta-lactamase -
J0X08_RS27155 (J0X08_05297) 35247..35804 - 558 WP_001217881 recombinase family protein -

Host bacterium

ID   1831 GenBank   NZ_JAGTWT010000009
Plasmid name   p33Kpn16-KPC Incompatibility group   IncN
Plasmid size   57529 bp Coordinate of oriT [Strand]   44938..45038 [+]
Host baterium   Klebsiella variicola strain 33Kva16

Cargo genes

Drug resistance gene   aac(6')-Ib-cr, ARR-3, dfrA27, aadA16, qacE, sul1, qnrB6, blaKPC-2
Virulence gene   -
Metal resistance gene   -
Degradation gene   -
Symbiosis gene   -
Anti-CRISPR   -