Detailed information of oriT

oriT

The information of the oriT region


oriTDB ID   114691
Name   oriT_pRSM7756_p1 in_silico
Organism   Klebsiella michiganensis strain RSM7756
Sequence Completeness      -
NCBI accession of oriT (coordinates [strand])   NZ_CP132017 (13925..14025 [-], 101 nt)
oriT length   101 nt
IRs (inverted repeats)      80..85, 91..96  (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: 101 nt

>oriT_pRSM7756_p1
TATTTATTTTTTTATCTTTTAAATCAGTATGATAGCGTGATTTATCGCGCTGCGTTAGGTGTATAGCAGGTTAAGGGATAAAAAATCATCTTTTTTGGTAG

Visualization of oriT structure

  oriT secondary structure

Predicted by RNAfold.

Download structure file


Relaxase

ID   9425 GenBank   WP_012561166
Name   mobF_Q8725_RS26750_pRSM7756_p1 insolico UniProt ID   D7RU03
Length   1078 a.a. PDB ID   
Note   Predicted by oriTfinder 2.0

  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 D7RU03


Auxiliary protein

ID   5520 GenBank   WP_001749975
Name   WP_001749975_pRSM7756_p1 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   10957 GenBank   WP_000342688
Name   t4cp2_Q8725_RS26745_pRSM7756_p1 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: 29100..39425

Locus tag Coordinates Strand Size (bp) Protein ID Product Description
Q8725_RS26780 (Q8725_26785) 24549..24929 + 381 Protein_27 recombinase family protein -
Q8725_RS26785 (Q8725_26790) 25248..25904 - 657 WP_001516695 quinolone resistance pentapeptide repeat protein QnrS1 -
Q8725_RS26790 (Q8725_26795) 26409..27113 - 705 WP_001067855 IS6-like element IS26 family transposase -
Q8725_RS26795 (Q8725_26800) 27176..27259 - 84 Protein_30 IS6 family transposase -
Q8725_RS26800 (Q8725_26805) 27660..27839 - 180 Protein_31 ArsR/SmtB family transcription factor -
Q8725_RS27105 28106..28393 + 288 Protein_32 DUF6710 family protein -
Q8725_RS26810 (Q8725_26815) 28567..29100 - 534 WP_000792636 phospholipase D family protein -
Q8725_RS26815 (Q8725_26820) 29100..30095 - 996 WP_000128596 ATPase, T2SS/T4P/T4SS family virB11
Q8725_RS26820 (Q8725_26825) 30137..31297 - 1161 WP_000101710 type IV secretion system protein VirB10 virB10
Q8725_RS26825 (Q8725_26830) 31297..32181 - 885 WP_000735066 TrbG/VirB9 family P-type conjugative transfer protein virB9
Q8725_RS26830 (Q8725_26835) 32192..32890 - 699 WP_000646594 virB8 family protein virB8
Q8725_RS27110 32880..33038 - 159 WP_012561180 hypothetical protein -
Q8725_RS26835 (Q8725_26840) 33109..34149 - 1041 WP_001749958 type IV secretion system protein virB6
Q8725_RS26840 (Q8725_26845) 34165..34392 - 228 WP_001749959 IncN-type entry exclusion lipoprotein EexN -
Q8725_RS26845 (Q8725_26850) 34400..35113 - 714 WP_001749960 type IV secretion system protein virB5
Q8725_RS26850 (Q8725_26855) 35131..37731 - 2601 WP_001749961 VirB4 family type IV secretion/conjugal transfer ATPase virb4
Q8725_RS26855 (Q8725_26860) 37731..38048 - 318 WP_000496058 VirB3 family type IV secretion system protein virB3
Q8725_RS26860 (Q8725_26865) 38098..38391 - 294 WP_001749962 hypothetical protein virB2
Q8725_RS26865 (Q8725_26870) 38401..38682 - 282 WP_000440698 transcriptional repressor KorA -
Q8725_RS26870 (Q8725_26875) 38691..39425 - 735 WP_001749963 lytic transglycosylase domain-containing protein virB1
Q8725_RS26875 (Q8725_26880) 39468..39839 + 372 WP_011867773 H-NS family nucleoid-associated regulatory protein -
Q8725_RS26880 (Q8725_26885) 39855..40199 + 345 WP_001749964 hypothetical protein -
Q8725_RS26885 (Q8725_26890) 40196..40510 + 315 WP_001749965 TrbM/KikA/MpfK family conjugal transfer protein -
Q8725_RS26890 (Q8725_26895) 40624..40857 + 234 WP_001191790 hypothetical protein -
Q8725_RS26895 (Q8725_26900) 40907..41554 + 648 WP_015344958 restriction endonuclease -
Q8725_RS26900 (Q8725_26905) 41559..41765 + 207 WP_001749967 hypothetical protein -
Q8725_RS26905 (Q8725_26910) 41776..42048 - 273 Protein_53 IS1 family transposase -
Q8725_RS26910 (Q8725_26915) 42147..43580 + 1434 WP_001288432 DNA cytosine methyltransferase -

Host bacterium

ID   15126 GenBank   NZ_CP132017
Plasmid name   pRSM7756_p1 Incompatibility group   IncN
Plasmid size   52526 bp Coordinate of oriT [Strand]   13925..14025 [-]
Host baterium   Klebsiella michiganensis strain RSM7756

Cargo genes

Drug resistance gene   blaCTX-M-15, qnrS1, dfrA14
Virulence gene   -
Metal resistance gene   -
Degradation gene   -
Symbiosis gene   -
Anti-CRISPR   -