Detailed information of oriT

oriT

The information of the oriT region


oriTDB ID   100608
Name   oriT_pOW16C2 in_silico
Organism   Klebsiella pneumoniae subsp. pneumoniae
Sequence Completeness      intact
NCBI accession of oriT (coordinates [strand])   NC_025186 (48910..49536 [+], 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_pOW16C2
AGCGCCGCAGATAATCTGACCGATTACCTCCTGAAACCAGGTCTATATAGGCCAAAAGTTCATCTGATACTTTTGCGGTTATTATTGGCATTCAGTCCTCACATTGTGCATTTTTTAAACAAAAAATTGGGATCTAACAAGCTGAAATCTTAGTATTACCAAAGTAATAAAGCAAACTCATTATAAAACAATGAGTTATTGGGTGTTTTTAATACCTAATTATTACCGAATATTGTTGCTATTTATTTTTTTATCTTTTAAATCAGTATGATAGCGTGATTTATCGCGCTGCGTTAGGTGTATAGCAGGTTAAGGGATAAAAAATCATCTTTTTTGGTAGGGGCGATCTACGTAGGTTAAGGACTAACTGGCTAAAAAGCGTTCAATATTCCGTATTCATGCTTGCATGAATACCAGTACAACAAAAGTACATCAAAATTACATCAAAATTACATCACTTGAAGGTTGACAGTACAACAAAATTACATCATTCTTTGGTCATGAGGTAGCCAGTACAACAAAAGTACATCAAAAGTACATCAAAATTACATCAAAATTACATCATTCTAAATGAGGGTACTATGAAGCCCAAAAGTATCAGGGCGGCACTTCAGTTGATGTTGCCGG

Visualization of oriT structure

  oriT secondary structure

Predicted by RNAfold.

Download structure file


Relaxase

ID   680 GenBank   YP_009071821
Name   TraI_pOW16C2 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

>YP_009071821.1 TraI (plasmid) [Klebsiella pneumoniae subsp. 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


Source ID Structure
AlphaFold DB A0A023UF58


T4SS

T4SS were predicted by using oriTfinder2.

Region 1: 12123..22448

Locus tag Coordinates Strand Size (bp) Protein ID Product Description
HTC23_RS00045 (D647_p55009) 7968..9401 - 1434 WP_001288432 DNA cytosine methyltransferase -
HTC23_RS00050 (D647_p55010) 9500..9772 + 273 Protein_10 IS1 family transposase -
HTC23_RS00055 (D647_p55011) 9783..9989 - 207 WP_001749967 hypothetical protein -
HTC23_RS00060 (D647_p55012) 9994..10641 - 648 WP_015344958 restriction endonuclease -
HTC23_RS00065 10691..10924 - 234 WP_001191790 hypothetical protein -
HTC23_RS00070 (D647_p55013) 11038..11352 - 315 WP_001749965 TrbM/KikA/MpfK family conjugal transfer protein -
HTC23_RS00075 (D647_p55014) 11349..11693 - 345 WP_001749964 hypothetical protein -
HTC23_RS00080 (D647_p55015) 11709..12080 - 372 WP_011867773 H-NS family nucleoid-associated regulatory protein -
HTC23_RS00085 (D647_p55016) 12123..12857 + 735 WP_001749963 lytic transglycosylase domain-containing protein virB1
HTC23_RS00090 (D647_p55017) 12866..13147 + 282 WP_000440698 transcriptional repressor KorA -
HTC23_RS00095 (D647_p55018) 13157..13450 + 294 WP_001749962 hypothetical protein virB2
HTC23_RS00100 (D647_p55019) 13500..13817 + 318 WP_000496058 VirB3 family type IV secretion system protein virB3
HTC23_RS00105 (D647_p55020) 13817..16417 + 2601 WP_001749961 VirB4 family type IV secretion/conjugal transfer ATPase virb4
HTC23_RS00110 (D647_p55021) 16435..17148 + 714 WP_001749960 type IV secretion system protein virB5
HTC23_RS00115 (D647_p55022) 17156..17383 + 228 WP_001749959 IncN-type entry exclusion lipoprotein EexN -
HTC23_RS00120 (D647_p55023) 17399..18439 + 1041 WP_001749958 type IV secretion system protein virB6
HTC23_RS00125 (D647_p55024) 18510..18668 + 159 WP_012561180 hypothetical protein -
HTC23_RS00130 (D647_p55025) 18658..19356 + 699 WP_000646594 type IV secretion system protein virB8
HTC23_RS00135 (D647_p55026) 19367..20251 + 885 WP_000735066 TrbG/VirB9 family P-type conjugative transfer protein virB9
HTC23_RS00140 (D647_p55027) 20251..21411 + 1161 WP_000101710 type IV secretion system protein VirB10 virB10
HTC23_RS00145 (D647_p55028) 21453..22448 + 996 WP_000128596 ATPase, T2SS/T4P/T4SS family virB11
HTC23_RS00150 (D647_p55029) 22448..22981 + 534 WP_000792636 phospholipase D family protein -
HTC23_RS00400 23155..23442 - 288 Protein_31 DUF6710 family protein -
HTC23_RS00165 (D647_p55031) 23709..23888 + 180 Protein_32 helix-turn-helix domain-containing protein -
HTC23_RS00170 (D647_p55032) 23953..24657 + 705 WP_001067855 IS6-like element IS26 family transposase -
HTC23_RS00175 (D647_p55033) 25162..25818 + 657 WP_001516695 quinolone resistance pentapeptide repeat protein QnrS1 -
HTC23_RS00180 (D647_p55034) 26137..26751 - 615 WP_014839983 recombinase family protein -
HTC23_RS00185 (D647_p55035) 26913..27095 + 183 Protein_36 DUF4158 domain-containing protein -

Host bacterium

ID   1068 GenBank   NC_025186
Plasmid name   pOW16C2 Incompatibility group   IncN
Plasmid size   59228 bp Coordinate of oriT [Strand]   48910..49536 [+]
Host baterium   Klebsiella pneumoniae subsp. pneumoniae

Cargo genes

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