Detailed information of oriT

oriT

The information of the oriT region


oriTDB ID   100660
Name   oriT_pKPC-e4e in_silico
Organism   Klebsiella pneumoniae subsp. pneumoniae strain KPNIH29
Sequence Completeness      intact
NCBI accession of oriT (coordinates [strand])   NZ_CP009864 (48706..49332 [+], 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_pKPC-e4e
AGCGCCGCAGATAATCTGACCGATTACCTCCTGAAACCAGGTCTATATAGGCCAAAAGTTCATCTGATACTTTTGCGGTTATTATTGGCATTCAGTCCTCACATTGTGCATTTTTTAAACAAAAAATTGGGATCTAACAAGCTGAAATCTTAGTATTACCAAAGTAATAAAGCAAACTCATTATAAAACAATGAGTTATTGGGTGTTTTTAATACCTAATTATTACCGAATATTGTTGCTATTTATTTTTTTATCTTTTAAATCAGTATGATAGCGTGATTTATCGCGCTGCGTTAGGTGTATAGCAGGTTAAGGGATAAAAAATCATCTTTTTTGGTAGGGGCGATCTACGTAGGTTAAGGACTAACTGGCTAAAAAGCGTTCAATATTCCGTATTCATGCTTGCATGAATACCAGTACAACAAAAGTACATCAAAATTACATCAAAATTACATCACTTGAAGGTTGACAGTACAACAAAATTACATCATTCTTTGGTCATGAGGTAGCCAGTACAACAAAAGTACATCAAAAGTACATCAAAATTACATCAAAATTACATCATTCTAAATGAGGGTACTATGAAGCCCAAAAGTATCAGGGCGGCACTTCAGTTGATGTTGCCGG

Visualization of oriT structure

  oriT secondary structure

Predicted by RNAfold.

Download structure file


Relaxase

ID   732 GenBank   WP_012561166
Name   Relaxase_pKPC-e4e insolico UniProt ID   A0A023UF58
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

>WP_012561166.1 MULTISPECIES: MobF family relaxase [Gammaproteobacteria]
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


Source ID Structure
AlphaFold DB A0A023UF58


T4SS

T4SS were predicted by using oriTfinder2.

Region 1: 11795..22120

Locus tag Coordinates Strand Size (bp) Protein ID Product Description
KPNIH29_RS26460 (KPNIH29_26460) 7640..9073 - 1434 WP_001288432 DNA cytosine methyltransferase -
KPNIH29_RS26465 (KPNIH29_26465) 9172..9444 + 273 Protein_10 IS1 family transposase -
KPNIH29_RS28995 9455..9661 - 207 WP_001749967 hypothetical protein -
KPNIH29_RS26470 (KPNIH29_26470) 9666..10313 - 648 WP_012561184 restriction endonuclease -
KPNIH29_RS26475 (KPNIH29_26475) 10363..10596 - 234 WP_001191790 hypothetical protein -
KPNIH29_RS26480 (KPNIH29_26480) 10710..11024 - 315 WP_001749965 TrbM/KikA/MpfK family conjugal transfer protein -
KPNIH29_RS26485 (KPNIH29_26485) 11021..11365 - 345 WP_001749964 hypothetical protein -
KPNIH29_RS26490 (KPNIH29_26490) 11381..11686 - 306 WP_000960954 H-NS family nucleoid-associated regulatory protein -
KPNIH29_RS26495 (KPNIH29_26495) 11795..12529 + 735 WP_001749963 lytic transglycosylase domain-containing protein virB1
KPNIH29_RS26500 (KPNIH29_26500) 12538..12819 + 282 WP_000440698 transcriptional repressor KorA -
KPNIH29_RS26505 (KPNIH29_26505) 12829..13122 + 294 WP_001749962 hypothetical protein virB2
KPNIH29_RS26510 (KPNIH29_26510) 13172..13489 + 318 WP_000496058 VirB3 family type IV secretion system protein virB3
KPNIH29_RS26515 (KPNIH29_26515) 13489..16089 + 2601 WP_001749961 VirB4 family type IV secretion/conjugal transfer ATPase virb4
KPNIH29_RS26520 (KPNIH29_26520) 16107..16820 + 714 WP_001749960 type IV secretion system protein virB5
KPNIH29_RS26525 (KPNIH29_26525) 16828..17055 + 228 WP_001749959 IncN-type entry exclusion lipoprotein EexN -
KPNIH29_RS26530 (KPNIH29_26530) 17071..18111 + 1041 WP_001749958 type IV secretion system protein virB6
KPNIH29_RS26535 (KPNIH29_26535) 18330..19028 + 699 WP_000646594 type IV secretion system protein virB8
KPNIH29_RS26540 (KPNIH29_26540) 19039..19923 + 885 WP_000735066 TrbG/VirB9 family P-type conjugative transfer protein virB9
KPNIH29_RS26545 (KPNIH29_26545) 19923..21083 + 1161 WP_000101710 type IV secretion system protein VirB10 virB10
KPNIH29_RS26550 (KPNIH29_26550) 21125..22120 + 996 WP_000128596 ATPase, T2SS/T4P/T4SS family virB11
KPNIH29_RS26555 (KPNIH29_26555) 22120..22653 + 534 WP_000792636 phospholipase D family protein -
KPNIH29_RS30950 22827..23114 - 288 Protein_30 DUF6710 family protein -
KPNIH29_RS26565 (KPNIH29_26565) 23381..23560 + 180 Protein_31 helix-turn-helix domain-containing protein -
KPNIH29_RS29005 23625..24185 + 561 Protein_32 IS6-like element IS26 family transposase -
KPNIH29_RS26575 (KPNIH29_26575) 24205..26316 - 2112 Protein_33 Tn3-like element Tn3 family transposase -

Host bacterium

ID   1120 GenBank   NZ_CP009864
Plasmid name   pKPC-e4e Incompatibility group   IncN
Plasmid size   62589 bp Coordinate of oriT [Strand]   48706..49332 [+]
Host baterium   Klebsiella pneumoniae subsp. pneumoniae strain KPNIH29

Cargo genes

Drug resistance gene   dfrA14, blaKPC-3, aac(6')-Ib, ant(3'')-Ia, blaOXA-9
Virulence gene   -
Metal resistance gene   -
Degradation gene   -
Symbiosis gene   -
Anti-CRISPR   -