Detailed information of oriT

oriT

The information of the oriT region


oriTDB ID   113996
Name   oriT_P04408-5-KPC40 in_silico
Organism   Enterobacter hormaechei strain 1-RC-17-04408-5
Sequence Completeness      -
NCBI accession of oriT (coordinates [strand])   NZ_MK862125 (41907..42007 [+], 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_P04408-5-KPC40
TATTTATTTTTTTATCTTTTAAATCAGTATGATAGCGTGATTTATCGCGCTGCGTTAGGTGTATAGCAGGTTAAGGGATAAAAAATCATCTTTTTTGGTAG

Visualization of oriT structure

  oriT secondary structure

Predicted by RNAfold.

Download structure file


Relaxase

ID   8991 GenBank   WP_012561166
Name   mobF_HTW92_RS00225_P04408-5-KPC40 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   5243 GenBank   WP_001749975
Name   WP_001749975_P04408-5-KPC40 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   10426 GenBank   WP_000342688
Name   t4cp2_HTW92_RS00230_P04408-5-KPC40 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: 11558..21883

Locus tag Coordinates Strand Size (bp) Protein ID Product Description
HTW92_RS00045 7403..8836 - 1434 WP_001288432 DNA cytosine methyltransferase -
HTW92_RS00050 8935..9207 + 273 Protein_10 IS1 family transposase -
HTW92_RS00055 9218..9424 - 207 WP_001749967 hypothetical protein -
HTW92_RS00060 9429..10076 - 648 WP_012561184 restriction endonuclease -
HTW92_RS00065 10126..10359 - 234 WP_001191790 hypothetical protein -
HTW92_RS00070 10473..10787 - 315 WP_001749965 TrbM/KikA/MpfK family conjugal transfer protein -
HTW92_RS00075 10784..11128 - 345 WP_001749964 hypothetical protein -
HTW92_RS00080 11144..11515 - 372 WP_011867773 H-NS family nucleoid-associated regulatory protein -
HTW92_RS00085 11558..12292 + 735 WP_001749963 lytic transglycosylase domain-containing protein virB1
HTW92_RS00090 12301..12582 + 282 WP_000440698 transcriptional repressor KorA -
HTW92_RS00095 12592..12885 + 294 WP_001749962 hypothetical protein virB2
HTW92_RS00100 12935..13252 + 318 WP_000496058 VirB3 family type IV secretion system protein virB3
HTW92_RS00105 13252..15852 + 2601 WP_001749961 VirB4 family type IV secretion/conjugal transfer ATPase virb4
HTW92_RS00110 15870..16583 + 714 WP_001749960 type IV secretion system protein virB5
HTW92_RS00115 16591..16818 + 228 WP_001749959 IncN-type entry exclusion lipoprotein EexN -
HTW92_RS00120 16834..17874 + 1041 WP_001749958 type IV secretion system protein virB6
HTW92_RS00125 17945..18103 + 159 WP_012561180 hypothetical protein -
HTW92_RS00130 18093..18791 + 699 WP_000646594 virB8 family protein virB8
HTW92_RS00135 18802..19686 + 885 WP_000735066 TrbG/VirB9 family P-type conjugative transfer protein virB9
HTW92_RS00140 19686..20846 + 1161 WP_000101710 type IV secretion system protein VirB10 virB10
HTW92_RS00145 20888..21883 + 996 WP_000128596 ATPase, T2SS/T4P/T4SS family virB11
HTW92_RS00150 21883..22416 + 534 WP_000792636 phospholipase D family protein -
HTW92_RS00350 22590..22877 - 288 Protein_31 DUF6710 family protein -
HTW92_RS00160 23144..23323 + 180 Protein_32 helix-turn-helix domain-containing protein -
HTW92_RS00165 23388..23948 + 561 Protein_33 IS6-like element IS26 family transposase -
HTW92_RS00170 23968..26079 - 2112 Protein_34 Tn3-like element Tn3 family transposase -

Host bacterium

ID   14431 GenBank   NZ_MK862125
Plasmid name   P04408-5-KPC40 Incompatibility group   IncN
Plasmid size   55076 bp Coordinate of oriT [Strand]   41907..42007 [+]
Host baterium   Enterobacter hormaechei strain 1-RC-17-04408-5

Cargo genes

Drug resistance gene   dfrA14, blaKPC-40
Virulence gene   -
Metal resistance gene   -
Degradation gene   -
Symbiosis gene   -
Anti-CRISPR   -