Detailed information of oriT

oriT

The information of the oriT region


oriTDB ID   101785
Name   oriT_pKPC_VG380 in_silico
Organism   Klebsiella pneumoniae strain VG 3.80
Sequence Completeness      -
NCBI accession of oriT (coordinates [strand])   NZ_JAKYLS010000078 (30185..30284 [+], 100 nt)
oriT length   100 nt
IRs (inverted repeats)      77..82, 90..95  (AAAAAA..TTTTTT)
 78..83, 90..95  (AAAAAA..TTTTTT)
 79..84, 90..95  (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: 100 nt

>oriT_pKPC_VG380
TATTTATTTTTTTATCTTTTAAATCAGTACGATAGCGTGATTTATCGCGCTGCGTTAGGTGTATAGCAGGTTAAGGAAAAAAAATCATCTTTTTTGGTAG

Visualization of oriT structure

  oriT secondary structure

Predicted by RNAfold.

Download structure file


Relaxase

ID   1498 GenBank   WP_012561142
Name   mobF_MJO49_RS16685_pKPC_VG380 insolico UniProt ID   A0A1S6KKJ9
Length   1078 a.a. PDB ID   
Note   Predicted by oriTfinder 2.0

  Relaxase protein sequence


Download         Length: 1078 a.a.        Molecular weight: 120195.37 Da        Isoelectric Point: 6.5230

>WP_012561142.1 MULTISPECIES: MobF family relaxase [Enterobacterales]
MLDITTITRQNVTSVVGYYSDAKDDYYSKDSSFTSWQGTGAEALGLSGDVESARFKELLVGEIDTFTHMQ
RHVGDAKKERLGYDLTFSAPKGVSMQALIHGDKTIIEAHEKAVAAAVREAEKLAQARTTRQGKSVTQNTN
NLVVATFRHETSRALDPDLHTHAFVMNMTQREDGQWRALKNDELMRNKMHLGDVYKQELALELTKAGYEL
RYNSKNNTFDMAHFSDEQIRAFSRRSEQIEKGLAAMGLTRETADAQTKSRVSMATREKKTEHSREEIHQE
WASRAKTLGIDFDNREWQGHGKPLEADIARNMAPDFTSPEVKADRAIQFAVKSLSERDASFERQKLIQIA
NKQVLGHATIADVEKAYLKAVQKGAIIEGEARYQSTLKVGASVMAETLTRKEWIDSLTNSGMRADKARFA
VDDGIKNGRLKKTSHRVTTVEGIRLERSILTIESRGRGQMPRQLTAEIAGQLLAGKTLKKEQMRAVTEIV
TSKDRFVAAHGYAGTGKSYMTMAAKELLESQGLKVTALAPYGTQKKALEDDGLPARTVAAFLKAKDKKLD
EKSVVFIDEAGVIPARQMKQLMEVIEKHNARAVFLGDTSQTKAVEAGKPFEQLIKADMQTSYMKDIQRQK
NEVLLEAVKYAAEGNAARALKNITGVNELKEEAPRLAQLADRYLSLSSEQQDATLIISGTNASRKTLNDY
IRGNLGLAGTGETFTLLDRVDSTQAERRDSRYFSKGQIIIPEQDYKNGMKRGESYQVLDTGPGNKLTVES
SSGEQIAFSPRTHTKLSVYQAVSAELAPGDKVMVTRNDKTLDVANGDRFTVKTVEGEKLTLEDKKGRTVE
LDKKQASYLSYAYATTVHKSQGLTCDRVLFNIDTKSLTTSKDVFYVGISRARHEVEIFTDDKKSLASSVS
RDSPKTTAAEIDRFFGLEARFKDIGRDTSLETRSAEKGLPEATGESMAFNQKPDEHNMTTGTDYQPVSNA
EDAFHLKQNPMDDSVGLRRHEAQQNDAELAHDYAAADDQQWSAQEYADYEHYAEASDYDFDSSIYDDYAM
PQTSQAEQSHTGKEHTHEHEHEEGGHEI

  Protein domains


Predicted by InterproScan.

UvrD-like helicase C-terminal domain (UvrD_C_2)

(851-895)

AAA domain (AAA_30)

(477-653)

TrwC relaxase (TrwC)

(16-287)


  Protein structure


Source ID Structure
AlphaFold DB A0A1S6KKJ9


Auxiliary protein

ID   601 GenBank   WP_001749975
Name   WP_001749975_pKPC_VG380 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   1175 GenBank   WP_000342688
Name   t4cp2_MJO49_RS16690_pKPC_VG380 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: 1810..12139

Locus tag Coordinates Strand Size (bp) Protein ID Product Description
MJO49_RS16535 (MJO49_16535) 1..238 + 238 WP_207890555 hypothetical protein -
MJO49_RS16540 (MJO49_16540) 378..689 - 312 WP_013279382 hypothetical protein -
MJO49_RS16545 (MJO49_16545) 725..1039 - 315 WP_016338363 TrbM/KikA/MpfK family conjugal transfer protein -
MJO49_RS16550 (MJO49_16550) 1036..1380 - 345 WP_012561155 hypothetical protein -
MJO49_RS16555 (MJO49_16555) 1396..1773 - 378 WP_193567606 H-NS family nucleoid-associated regulatory protein -
MJO49_RS16560 (MJO49_16560) 1810..2547 + 738 WP_013279384 lytic transglycosylase domain-containing protein virB1
MJO49_RS16565 (MJO49_16565) 2556..2837 + 282 WP_016338364 transcriptional repressor KorA -
MJO49_RS16570 (MJO49_16570) 2847..3140 + 294 WP_001749962 hypothetical protein virB2
MJO49_RS16575 (MJO49_16575) 3191..3508 + 318 WP_000496058 VirB3 family type IV secretion system protein virB3
MJO49_RS16580 (MJO49_16580) 3508..6108 + 2601 WP_012561149 VirB4 family type IV secretion/conjugal transfer ATPase virb4
MJO49_RS16585 (MJO49_16585) 6126..6839 + 714 WP_001749960 type IV secretion system protein virB5
MJO49_RS16590 (MJO49_16590) 6847..7074 + 228 WP_001749959 IncN-type entry exclusion lipoprotein EexN -
MJO49_RS16595 (MJO49_16595) 7090..8130 + 1041 WP_001749958 type IV secretion system protein virB6
MJO49_RS27765 8231..8359 + 129 WP_071882546 conjugal transfer protein TraN -
MJO49_RS16600 (MJO49_16600) 8349..9047 + 699 WP_000646594 type IV secretion system protein virB8
MJO49_RS16605 (MJO49_16605) 9058..9942 + 885 WP_000735066 TrbG/VirB9 family P-type conjugative transfer protein virB9
MJO49_RS16610 (MJO49_16610) 9942..11102 + 1161 WP_000101710 type IV secretion system protein VirB10 virB10
MJO49_RS16615 (MJO49_16615) 11144..12139 + 996 WP_012561144 ATPase, T2SS/T4P/T4SS family virB11
MJO49_RS16620 (MJO49_16620) 12139..12243 + 105 Protein_18 phospholipase D family protein -
MJO49_RS16625 (MJO49_16625) 12595..13914 + 1320 WP_004152397 IS1182-like element ISKpn6 family transposase -
MJO49_RS16630 (MJO49_16630) 14164..15045 - 882 WP_004152396 carbapenem-hydrolyzing class A beta-lactamase KPC-3 -
MJO49_RS27770 15074..15367 - 294 WP_305953344 hypothetical protein -
MJO49_RS16635 (MJO49_16635) 15364..16143 - 780 WP_004152394 IS21-like element ISKpn7 family helper ATPase IstB -

Host bacterium

ID   2229 GenBank   NZ_JAKYLS010000078
Plasmid name   pKPC_VG380 Incompatibility group   IncN
Plasmid size   44768 bp Coordinate of oriT [Strand]   30185..30284 [+]
Host baterium   Klebsiella pneumoniae strain VG 3.80

Cargo genes

Drug resistance gene   blaKPC-3
Virulence gene   -
Metal resistance gene   -
Degradation gene   -
Symbiosis gene   -
Anti-CRISPR   -