Detailed information of oriT

oriT

The information of the oriT region


oriTDB ID   121733
Name   oriT_pCRE4_1 in_silico
Organism   Klebsiella michiganensis strain S4_CRE4
Sequence Completeness      -
NCBI accession of oriT (coordinates [strand])   NZ_CP074450 (48207..48307 [+], 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_pCRE4_1
TATTTATTTTTTTATCTTTTAAATCAGTATGATAGCGTGATTTATCGCGCTGCGTTAGGTGTATAGCAGGTTAAGGGATAAAAAATCATCTTTTTTGGTAG

Visualization of oriT structure

  oriT secondary structure

Predicted by RNAfold.

Download structure file


Relaxase

ID   13715 GenBank   WP_001749977
Name   mobF_KHV91_RS28330_pCRE4_1 insolico UniProt ID   A0A5C2CVP7
Length   1080 a.a. PDB ID   
Note   Predicted by oriTfinder 2.0

  Relaxase protein sequence


Download         Length: 1080 a.a.        Molecular weight: 120419.59 Da        Isoelectric Point: 6.5483

>WP_001749977.1 MULTISPECIES: MobF family relaxase [Gammaproteobacteria]
MLDITTITRQNVTSVVGYYSDAKDDYYSKDSSFTSWQGTGAEALGLSGDVESARFKELLVGEIDTFTHMQ
RHVGDAKKERLGYDLTFSAPKGVSMQALIHGDKTIIEAHEKAVAAAVREAEKLAQARTTRQGKSVTQNTN
NLVVATFRHETSRALDPDLHTHAFVMNMTQREDGQWRALKNDELMRNKMHLGDVYKQELALELTKAGYEL
RYNSKNNTFDMAHFSDEQIRAFSRRSEQIEKGLAAMGLTRETADAQTKSRVSMATREKKTEHSREEIHQE
WASRAKTLGIDFDNREWQGHGKPLEADIARNMAPDFTSPEVKADRAIQFAVKSLSERDASFERQKLIQIA
NKQVLGHATIADVEKAYLKAVQKGAIIEGEARYQSTLKVGASVMAETLTRKEWIDSLTNSGMRADKARFA
VDDGIKNGRLKKTSHRVTTVEGIRLERSILTIESRGRGQMPRQLTAEIAGQLLAGKTLKKEQMRAVTEIV
TSKDRFVAAHGYAGTGKSYMTMAAKELLESQGLKVTALAPYGTQKKALEDDGLPARTVAAFLKAKDKKLD
EKSVVFIDEAGVIPARQMKQLMEVIEKHNARAVFLGDTSQTKAVEAGKPFEQLIKAGMQTSYMKDIQRQK
NEVLLEAVKYAAEGNAARALKNITGVNELKEEAPRLSQLADRYLSLSSEQQDATLIISGTNASRKTLNDY
IRGNLGLAGTGETFTLLDRVDSTQAERRDSRYFSKGQIIIPEQDYKNGMKRGESYQVLDTGPGNKLTVES
SSGEQIAFSPRTHTKLSVYQAVSAELAPGDKVMVTRNDKTLDVANGDRFTVKTVEGEKLTLEDKKGRTVE
LDKKQASYLSYAYATTVHKSQGLTCDRVLFNIDTKSLTTSKDVFYVGISRARHEVEIFTDDKKSLASSVS
RDSPKTTAAEIDRFFGLEARFKDIGRDTSLETRSAEKGLPEATGESMAFNQKPDEHNMTTGTDYQPVSNA
EDAFHLKQNPMDDSVGLRRHEAQQNDAELAHDYAAADDQQWSAQEYADYEHYAEASDYDFDSSIYDDYAM
PQTSQAEQSHTGKEHTHEHEHEHEEGGHEI

  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 A0A5C2CVP7


Auxiliary protein

ID   7552 GenBank   WP_001749975
Name   WP_001749975_pCRE4_1 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   16026 GenBank   WP_001749976
Name   t4cp2_KHV91_RS28335_pCRE4_1 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: 57679.73 Da        Isoelectric Point: 9.5788

>WP_001749976.1 MULTISPECIES: type IV secretion system DNA-binding domain-containing protein [Gammaproteobacteria]
MDDRERGLAFLFAITLPPVMVWFLVAKFTYGIDPSTAKYLIPYLVKNTFSLWPLWSALIAGWFIGVGGLI
AFIIYDKSRVFKGERFKKIYRGTELVSARTLADKTRERGVNQLTVANIPIPTYAENLHFSIAGTTGTGKT
TIFNELLFKSIIRGGKNIALDPNGGFLKNFYRPGDVILNAYDKRTEGWVFFNEIRRSYDYERLVNSIVQE
SPDMATEEWFGYGRLIFSEVSKKLHSLYSTVTMEEVIHWACNVDQKKLKEFLMGTPAEAIFSGSEKAVGS
ARFVLSKNLAPHLKMPEGNFSLRDWLDDGKPGTLFITWQEEMKRSLNPLISCWLDSIFSIVLGMGEKESR
INVFIDELESLQFLPNLNDALTKGRKSGLCVYAGYQTYSQLVKVYGRDMAQTILANMRSNIVLGGSRLGD
ETLDQMSRSLGEIEGEVERKESDPQKPWIVRKRRDVKVVRAVTPTEISMLPNLTGYLALPGDMPVAKFKA
KHVKYHRKNPVPGIELRDI

  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: 24123..34448

Locus tag Coordinates Strand Size (bp) Protein ID Product Description
KHV91_RS28185 (KHV91_28125) 19968..21401 - 1434 WP_001288432 DNA cytosine methyltransferase -
KHV91_RS28190 (KHV91_28130) 21500..21772 + 273 Protein_25 IS1 family transposase -
KHV91_RS28195 (KHV91_28135) 21783..21989 - 207 WP_001749967 hypothetical protein -
KHV91_RS28200 (KHV91_28140) 21994..22641 - 648 WP_015344958 restriction endonuclease -
KHV91_RS28205 (KHV91_28145) 22691..23002 - 312 WP_001452736 hypothetical protein -
KHV91_RS28210 (KHV91_28150) 23038..23352 - 315 WP_001749965 TrbM/KikA/MpfK family conjugal transfer protein -
KHV91_RS28215 (KHV91_28155) 23349..23693 - 345 WP_001749964 hypothetical protein -
KHV91_RS28220 (KHV91_28160) 23709..24080 - 372 WP_011867773 H-NS family nucleoid-associated regulatory protein -
KHV91_RS28225 (KHV91_28165) 24123..24857 + 735 WP_001749963 lytic transglycosylase domain-containing protein virB1
KHV91_RS28230 (KHV91_28170) 24866..25147 + 282 WP_000440698 transcriptional repressor KorA -
KHV91_RS28235 (KHV91_28175) 25157..25450 + 294 WP_001749962 hypothetical protein virB2
KHV91_RS28240 (KHV91_28180) 25500..25817 + 318 WP_000496058 VirB3 family type IV secretion system protein virB3
KHV91_RS28245 (KHV91_28185) 25817..28417 + 2601 WP_001749961 VirB4 family type IV secretion/conjugal transfer ATPase virb4
KHV91_RS28250 (KHV91_28190) 28435..29148 + 714 WP_001749960 type IV secretion system protein virB5
KHV91_RS28255 (KHV91_28195) 29156..29383 + 228 WP_001749959 IncN-type entry exclusion lipoprotein EexN -
KHV91_RS28260 (KHV91_28200) 29399..30439 + 1041 WP_001749958 type IV secretion system protein virB6
KHV91_RS29160 30540..30668 + 129 WP_071882546 conjugal transfer protein TraN -
KHV91_RS28265 (KHV91_28205) 30658..31356 + 699 WP_000646594 virB8 family protein virB8
KHV91_RS28270 (KHV91_28210) 31367..32251 + 885 WP_000735066 TrbG/VirB9 family P-type conjugative transfer protein virB9
KHV91_RS28275 (KHV91_28215) 32251..33411 + 1161 WP_000101710 type IV secretion system protein VirB10 virB10
KHV91_RS28280 (KHV91_28220) 33453..34448 + 996 WP_000128596 ATPase, T2SS/T4P/T4SS family virB11
KHV91_RS28285 (KHV91_28225) 34448..34981 + 534 WP_000792636 phospholipase D family protein -
KHV91_RS29165 35155..35607 - 453 WP_001749956 DUF6710 family protein -
KHV91_RS28295 (KHV91_28240) 35881..36534 + 654 Protein_47 EamA family transporter -
KHV91_RS28300 (KHV91_28245) 36566..37765 - 1200 WP_012579085 tetracycline efflux MFS transporter Tet(A) -
KHV91_RS28305 (KHV91_28250) 37871..38521 + 651 WP_000164043 tetracycline resistance transcriptional repressor TetR(A) -
KHV91_RS28310 (KHV91_28255) 38553..38795 - 243 WP_000844627 transposase -

Host bacterium

ID   22160 GenBank   NZ_CP074450
Plasmid name   pCRE4_1 Incompatibility group   IncN
Plasmid size   61376 bp Coordinate of oriT [Strand]   48207..48307 [+]
Host baterium   Klebsiella michiganensis strain S4_CRE4

Cargo genes

Drug resistance gene   aac(6')-Ib-cr, ARR-3, dfrA27, aadA16, qacE, sul1, qnrB6, tet(A)
Virulence gene   -
Metal resistance gene   -
Degradation gene   -
Symbiosis gene   -
Anti-CRISPR   -