Detailed information of oriT

oriT

The information of the oriT region


oriTDB ID   104157
Name   oriT_pKLO00023_3 in_silico
Organism   Klebsiella michiganensis strain KLO00023
Sequence Completeness      -
NCBI accession of oriT (coordinates [strand])   NZ_OP378645 (56582..56682 [-], 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_pKLO00023_3
TATTTATTTTTTTATCTTTTAAATCAGTATGATAGCGTGATTTATCGCGCTGCGTTAGGTGTATAGCAGGTTAAGGGATAAAAAATCATCTTTTTTGGTAG

Visualization of oriT structure

  oriT secondary structure

Predicted by RNAfold.

Download structure file


Relaxase

ID   3054 GenBank   WP_012561166
Name   mobF_PWC07_RS00375_pKLO00023_3 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   1317 GenBank   WP_001749975
Name   WP_001749975_pKLO00023_3 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   2941 GenBank   WP_000342688
Name   t4cp2_PWC07_RS00370_pKLO00023_3 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: 22872..32160

Locus tag Coordinates Strand Size (bp) Protein ID Product Description
PWC07_RS00115 18175..21141 + 2967 WP_160538172 Tn3-like element TnAs3 family transposase -
PWC07_RS00120 21221..22224 + 1004 Protein_23 IS110 family transposase -
PWC07_RS00125 22501..22830 - 330 Protein_24 conjugal transfer protein TraG -
PWC07_RS00130 22872..24032 - 1161 WP_000101710 type IV secretion system protein VirB10 virB10
PWC07_RS00135 24032..24916 - 885 WP_000735066 TrbG/VirB9 family P-type conjugative transfer protein virB9
PWC07_RS00140 24927..25625 - 699 WP_000646594 type IV secretion system protein virB8
PWC07_RS00145 25615..25773 - 159 WP_012561180 hypothetical protein -
PWC07_RS00150 25844..26884 - 1041 WP_001749958 type IV secretion system protein virB6
PWC07_RS00155 26900..27127 - 228 WP_001749959 IncN-type entry exclusion lipoprotein EexN -
PWC07_RS00160 27135..27899 - 765 WP_013149461 type IV secretion system protein virB5
PWC07_RS00165 27866..30466 - 2601 WP_001749961 VirB4 family type IV secretion/conjugal transfer ATPase virb4
PWC07_RS00170 30466..30783 - 318 WP_000496058 VirB3 family type IV secretion system protein virB3
PWC07_RS00175 30833..31126 - 294 WP_001749962 hypothetical protein virB2
PWC07_RS00180 31136..31417 - 282 WP_000440698 transcriptional repressor KorA -
PWC07_RS00185 31426..32160 - 735 WP_001749963 lytic transglycosylase domain-containing protein virB1
PWC07_RS00190 32203..32574 + 372 WP_011867773 H-NS family nucleoid-associated regulatory protein -
PWC07_RS00195 32590..32934 + 345 WP_001749964 hypothetical protein -
PWC07_RS00200 32931..33245 + 315 WP_001749965 TrbM/KikA/MpfK family conjugal transfer protein -
PWC07_RS00205 33359..33592 + 234 WP_001191790 hypothetical protein -
PWC07_RS00210 33642..34289 + 648 WP_012561184 restriction endonuclease -
PWC07_RS00215 34294..34500 + 207 WP_001749967 hypothetical protein -
PWC07_RS00220 34511..34783 - 273 Protein_43 IS1 family transposase -
PWC07_RS00225 34882..36315 + 1434 WP_001288432 DNA cytosine methyltransferase -

Host bacterium

ID   4596 GenBank   NZ_OP378645
Plasmid name   pKLO00023_3 Incompatibility group   IncN
Plasmid size   83450 bp Coordinate of oriT [Strand]   56582..56682 [-]
Host baterium   Klebsiella michiganensis strain KLO00023

Cargo genes

Drug resistance gene   blaKPC-3, dfrA14, sul2, aph(3'')-Ib, aph(6)-Id, blaTEM-1A, blaOXA-9, ant(3'')-Ia, aac(6')-Ib
Virulence gene   -
Metal resistance gene   merR, merT, merP, merA, merD, merE
Degradation gene   -
Symbiosis gene   -
Anti-CRISPR   -