Detailed information of oriT

oriT

The information of the oriT region


oriTDB ID   100307
Name   oriT_pKP12 in_silico
Organism   Klebsiella pneumoniae
Sequence Completeness      intact
NCBI accession of oriT (coordinates [strand])   NC_011385 (14796..15422 [-], 627 nt)
oriT length   627 nt
IRs (inverted repeats)      IR1: 198..207, 211..220  (ATTGGGTGTT..AATACCTAAT)
 IR2:319..324, 330..335  (AAAAAA..TTTTTT)
  IR3: 393..402, 405..414  (GTATTCATGC..GCATGAATAC)
Location of nic site      301..302
Conserved sequence flanking the
  nic site    		  GGTGT|ATAGC
Note   predicted by the oriTfinder

  oriT sequence  


Download         Length: 627 nt

>oriT_pKP12
AGCGCCGCAGATAATCTGACCGATTACCTCCTGAAACCAGGTCTATATAGGCCAAAAGTTCATCTGATACTTTTGCGGTTATTATTGGCATTCAGTCCTCACATTGTGCATTTTTTAAACAAAAAATTGGGATCTAACAAGCTGAAATCTTAGTATTACCAAAGTAATAAAGCAAACTCATTATAAAACAATGAGTTATTGGGTGTTTTTAATACCTAATTATTACCGAATATTGTTGCTATTTATTTTTTTATCTTTTAAATCAGTATGATAGCGTGATTTATCGCGCTGCGTTAGGTGTATAGCAGGTTAAGGGATAAAAAATCATCTTTTTTGGTAGGGGCGATCTACGTAGGTTAAGGACTAACTGGCTAAAAAGCGTTCAATATTCCGTATTCATGCTTGCATGAATACCAGTACAACAAAAGTACATCAAAATTACATCAAAATTACATCACTTGAAGGTTGACAGTACAACAAAATTACATCATTCTTTGGTCATGAGGTAGCCAGTACAACAAAAGTACATCAAAAGTACATCAAAATTACATCAAAATTACATCATTCTAAATGAGGGTACTATGAAGCCCAAAAGTATCAGGGCGGCACTTCAGTTGATGTTGCCGG

Visualization of oriT structure

  oriT secondary structure

Predicted by RNAfold.

Download structure file


Relaxase

ID   378 GenBank   YP_002286953
Name   TraI_pKP12 insolico UniProt ID   _
Length   1078 a.a. PDB ID   
Note   putative relaxase

  Relaxase protein sequence


Download         Length: 1078 a.a.        Molecular weight: 120141.30 Da        Isoelectric Point: 6.5229

>YP_002286953.1 TraI (plasmid) [Klebsiella pneumoniae]
MLDITTITRQNVTSVVGYYSDAKDDYYSKDSSFTSWQGTGAEALGLSGDVESARFKELLVGEIDTFTHMQ
RHVGDAKKERLGYDLTFSAPKGVSMQALIHGDKTIIEAHEKAVAAAVREAEKLAQARTTRQGKSVTQNTN
NLVVATFRHETSRALDPDLHTHAFVMNMTQREDGQWRALKNDELMRNKMHLGDVYKQELALELTKAGYEL
RYNSKNNTFDMAHFSDEQIRAFSRRSEQIEKGLAAMGLTRETADAQTKSRVSMATREKKTEHSREEIHQE
WASRAKTLGIDFDNREWQGHGKPLEADIARNMAPDFTSPEVKADRAIQFAVKSLSERDASFERQKLIQIA
NKQVLGHATMADVEKAYLKAVQKGAIIEGEARYQSTLKVGASVMAETLTRKEWIDSLTNSGMRADKARFA
VDDGIKNGRLKKTSHRVTTVEGIRLERSILTIESRGRGQMPRQLTAEIAGQLLAGKTLKNEQMRAVTEIV
TSKDRFVAAHGYAGTGKSYMTMAAKELLESQGLKVTALAPYGTQKKALEDDGLPARTVAAFLKAKDKKLD
EKSVVFIDEAGVIPARQMKQLMEVIEKHNARAVFLGDTSQTKAVEAGKPFEQLIKAGMQTSYMKDIQRQK
NEVLLEAVKYAAEGNAARALKNITGVNELKEEAPRLAQLADRYLSLSSEQQDATLIISGTNASRKTLNDY
IRGNLGLAGTGETFTLLDRVDSTQAERRDSRYFSKGQIIIPEQDYKNGMKRGESYQVLDTGPGNKLTVES
SSGEQIAFSPRTHTKLSVYQAVSAELAPGDKVMVTRNDKTLDVANGDRFTVKTVEGEKLTLEDKKGRTVE
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



No available structure.




T4SS

T4SS were predicted by using oriTfinder2.

Region 1: 51591..70728

Locus tag Coordinates Strand Size (bp) Protein ID Product Description
HS579_RS00250 (pKlebpneu12_p58) 47395..49506 + 2112 Protein_50 Tn3-like element Tn3 family transposase -
HS579_RS00255 49526..50086 - 561 Protein_51 IS6-like element IS26 family transposase -
HS579_RS00260 50151..50330 - 180 Protein_52 helix-turn-helix domain-containing protein -
HS579_RS00450 50597..50884 + 288 Protein_53 DUF6710 family protein -
HS579_RS00275 (pKlebpneu12_p62) 51058..51591 - 534 WP_000792636 phospholipase D family protein -
HS579_RS00280 (pKlebpneu12_p63) 51591..52586 - 996 WP_000128596 ATPase, T2SS/T4P/T4SS family virB11
HS579_RS00285 (pKlebpneu12_p64) 52628..53788 - 1161 WP_000101710 type IV secretion system protein VirB10 virB10
HS579_RS00290 (pKlebpneu12_p65) 53788..54672 - 885 WP_000735066 TrbG/VirB9 family P-type conjugative transfer protein virB9
HS579_RS00295 (pKlebpneu12_p66) 54683..55381 - 699 WP_000646594 type IV secretion system protein virB8
HS579_RS00300 (pKlebpneu12_p67) 55371..55529 - 159 WP_012561180 hypothetical protein -
HS579_RS00305 (pKlebpneu12_p68) 55600..56640 - 1041 WP_001749958 type IV secretion system protein virB6
HS579_RS00310 (pKlebpneu12_p69) 56656..56883 - 228 WP_001749959 IncN-type entry exclusion lipoprotein EexN -
HS579_RS00315 (pKlebpneu12_p70) 56891..57655 - 765 WP_013149461 type IV secretion system protein virB5
HS579_RS00320 (pKlebpneu12_p71) 57622..59106 - 1485 WP_012561181 hypothetical protein virb4
HS579_RS00325 (pKlebpneu12_p72) 59124..62132 - 3009 WP_012561182 Tn3 family transposase -
HS579_RS00330 (pKlebpneu12_p73) 62296..62868 + 573 WP_001556711 recombinase family protein -
HS579_RS00335 (pKlebpneu12_p74) 62988..63281 + 294 Protein_66 ArsA-related P-loop ATPase -
HS579_RS00340 (pKlebpneu12_p75) 63312..63737 - 426 WP_000065758 glutaredoxin-dependent arsenate reductase -
HS579_RS00345 (pKlebpneu12_p76) 63750..65039 - 1290 WP_000922630 arsenite efflux transporter membrane subunit ArsB -
HS579_RS00350 (pKlebpneu12_p77) 65088..66839 - 1752 WP_001556710 arsenite efflux transporter ATPase subunit ArsA -
HS579_RS00355 (pKlebpneu12_p78) 66857..67219 - 363 WP_000783215 arsenite efflux transporter metallochaperone ArsD -
HS579_RS00360 (pKlebpneu12_p79) 67267..67620 - 354 WP_001114073 As(III)-sensing metalloregulatory transcriptional repressor ArsR -
HS579_RS00365 (pKlebpneu12_p80) 67859..69034 - 1176 WP_012561183 VirB4 family type IV secretion system protein virb4
HS579_RS00370 (pKlebpneu12_p81) 69034..69351 - 318 WP_000496058 VirB3 family type IV secretion system protein virB3
HS579_RS00375 (pKlebpneu12_p82) 69401..69694 - 294 WP_001749962 hypothetical protein virB2
HS579_RS00380 (pKlebpneu12_p83) 69704..69985 - 282 WP_000440698 transcriptional repressor KorA -
HS579_RS00385 (pKlebpneu12_p84) 69994..70728 - 735 WP_001749963 lytic transglycosylase domain-containing protein virB1
HS579_RS00390 (pKlebpneu12_p85) 70771..71142 + 372 WP_011867773 H-NS family nucleoid-associated regulatory protein -
HS579_RS00395 (pKlebpneu12_p86) 71158..71502 + 345 WP_001749964 hypothetical protein -
HS579_RS00400 (pKlebpneu12_p87) 71499..71813 + 315 WP_001749965 TrbM/KikA/MpfK family conjugal transfer protein -
HS579_RS00405 (pKlebpneu12_p88) 71927..72160 + 234 WP_001191790 hypothetical protein -
HS579_RS00410 (pKlebpneu12_p89) 72210..72857 + 648 WP_012561184 restriction endonuclease -
HS579_RS00415 (pKlebpneu12_p90) 72862..73068 + 207 WP_001749967 hypothetical protein -
HS579_RS00420 (pKlebpneu12_p91) 73079..73351 - 273 Protein_83 IS1 family transposase -
HS579_RS00425 (pKlebpneu12_p92) 73450..74883 + 1434 WP_001288432 DNA cytosine methyltransferase -

Host bacterium

ID   769 GenBank   NC_011385
Plasmid name   pKP12 Incompatibility group   IncN
Plasmid size   75617 bp Coordinate of oriT [Strand]   14796..15422 [-]
Host baterium   Klebsiella pneumoniae

Cargo genes

Drug resistance gene   dfrA14, sul2, aph(3'')-Ib, aph(6)-Id, blaTEM-1A, blaOXA-9, ant(3'')-Ia, aac(6')-Ib, blaKPC-3
Virulence gene   -
Metal resistance gene   arsC, arsB, arsA, arsD, arsR
Degradation gene   -
Symbiosis gene   -
Anti-CRISPR   -