Detailed information of oriT

oriT

The information of the oriT region


oriTDB ID   101406
Name   oriT_pPVT01_P3 in_silico
Organism   Klebsiella pneumoniae strain PVT01
Sequence Completeness      -
NCBI accession of oriT (coordinates [strand])   NZ_JABSUB010000003 (19439..19538 [-], 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_pPVT01_P3
TATTTATTTTTTTATCTTTTAAATCAGTACGATAGCGTGATTTATCGCGCTGCGTTAGGTGTATAGCAGGTTAAGGAAAAAAAATCATCTTTTTTGGTAG

Visualization of oriT structure

  oriT secondary structure

Predicted by RNAfold.

Download structure file


Relaxase

ID   1286 GenBank   WP_012561142
Name   mobF_HQN42_RS01455_pPVT01_P3 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   455 GenBank   WP_001749975
Name   WP_001749975_pPVT01_P3 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   899 GenBank   WP_000342688
Name   t4cp2_HQN42_RS01450_pPVT01_P3 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: 37652..47981

Locus tag Coordinates Strand Size (bp) Protein ID Product Description
HQN42_RS01505 (HQN42_01505) 33580..34359 + 780 WP_004152394 IS21-like element ISKpn7 family helper ATPase IstB -
HQN42_RS01510 (HQN42_01510) 34746..35627 + 882 WP_004199234 carbapenem-hydrolyzing class A beta-lactamase KPC-2 -
HQN42_RS01515 (HQN42_01515) 35877..37196 - 1320 WP_004152397 IS1182-like element ISKpn6 family transposase -
HQN42_RS01520 (HQN42_01520) 37548..37652 - 105 Protein_35 phospholipase D family protein -
HQN42_RS01525 (HQN42_01525) 37652..38647 - 996 WP_012561144 ATPase, T2SS/T4P/T4SS family virB11
HQN42_RS01530 (HQN42_01530) 38689..39849 - 1161 WP_000101710 type IV secretion system protein VirB10 virB10
HQN42_RS01535 (HQN42_01535) 39849..40733 - 885 WP_000735066 TrbG/VirB9 family P-type conjugative transfer protein virB9
HQN42_RS01540 (HQN42_01540) 40744..41442 - 699 WP_000646594 type IV secretion system protein virB8
HQN42_RS28165 41432..41590 - 159 WP_012561180 hypothetical protein -
HQN42_RS01545 (HQN42_01545) 41661..42701 - 1041 WP_001749958 type IV secretion system protein virB6
HQN42_RS01550 (HQN42_01550) 42717..42944 - 228 WP_001749959 IncN-type entry exclusion lipoprotein EexN -
HQN42_RS01555 (HQN42_01555) 42952..43665 - 714 WP_001749960 type IV secretion system protein virB5
HQN42_RS01560 (HQN42_01560) 43683..46283 - 2601 WP_012561149 VirB4 family type IV secretion/conjugal transfer ATPase virb4
HQN42_RS01565 (HQN42_01565) 46283..46600 - 318 WP_000496058 VirB3 family type IV secretion system protein virB3
HQN42_RS01570 (HQN42_01570) 46651..46944 - 294 WP_001749962 hypothetical protein virB2
HQN42_RS01575 (HQN42_01575) 46954..47235 - 282 WP_016338364 transcriptional repressor KorA -
HQN42_RS01580 (HQN42_01580) 47244..47981 - 738 WP_013279384 lytic transglycosylase domain-containing protein virB1
HQN42_RS01585 (HQN42_01585) 48024..48395 + 372 WP_223174968 H-NS family nucleoid-associated regulatory protein -
HQN42_RS01590 (HQN42_01590) 48411..48755 + 345 WP_012561155 hypothetical protein -
HQN42_RS01595 (HQN42_01595) 48752..49066 + 315 WP_016338363 TrbM/KikA/MpfK family conjugal transfer protein -
HQN42_RS01600 (HQN42_01600) 49102..49413 + 312 WP_013279382 hypothetical protein -
HQN42_RS27835 49469..49729 + 261 WP_016359294 hypothetical protein -
HQN42_RS01610 (HQN42_01610) 49771..50739 - 969 WP_162821909 IS5 family transposase -
HQN42_RS01615 (HQN42_01615) 50823..51176 + 354 WP_225622145 restriction endonuclease -
HQN42_RS01620 (HQN42_01620) 51181..51387 + 207 WP_001749967 hypothetical protein -
HQN42_RS01625 (HQN42_01625) 51398..51670 - 273 Protein_57 IS1 family transposase -

Host bacterium

ID   1850 GenBank   NZ_JABSUB010000003
Plasmid name   pPVT01_P3 Incompatibility group   IncN
Plasmid size   54609 bp Coordinate of oriT [Strand]   19439..19538 [-]
Host baterium   Klebsiella pneumoniae strain PVT01

Cargo genes

Drug resistance gene   blaKPC-2
Virulence gene   -
Metal resistance gene   -
Degradation gene   -
Symbiosis gene   -
Anti-CRISPR   -