Detailed information of oriT

oriT

The information of the oriT region


oriTDB ID   101377
Name   oriT_pIncN_C1-94_KPC in_silico
Organism   Klebsiella pneumoniae strain C1-94
Sequence Completeness      -
NCBI accession of oriT (coordinates [strand])   NZ_SWIQ01000257 (20889..20989 [-], 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_pIncN_C1-94_KPC
TATTTATTTTTTTATCTTTTAAATCAGTATGATAGCGTGATTTATCGCGCTGCGTTAGGTGTATAGCAGGTTAAGGGATAAAAAATCATCTTTTTTGGTAG

Visualization of oriT structure

  oriT secondary structure

Predicted by RNAfold.

Download structure file


Relaxase

ID   1263 GenBank   WP_001749977
Name   mobF_F7Q03_RS26670_pIncN_C1-94_KPC 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   448 GenBank   WP_001749975
Name   WP_001749975_pIncN_C1-94_KPC 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   873 GenBank   WP_001749976
Name   t4cp2_F7Q03_RS26665_pIncN_C1-94_KPC 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: 21556..37484

Locus tag Coordinates Strand Size (bp) Protein ID Product Description
F7Q03_RS26630 17942..18121 + 180 WP_000214483 protein CcgAI -
F7Q03_RS26635 18176..18496 + 321 WP_001749971 protein CcgAII -
F7Q03_RS26640 18607..18951 - 345 WP_000999874 hypothetical protein -
F7Q03_RS26645 19133..19501 - 369 WP_001749972 plasmid stabilization protein StbC -
F7Q03_RS26650 19503..20219 - 717 WP_001749973 StbB family protein -
F7Q03_RS27255 20228..20647 - 420 WP_001749974 plasmid stabilization protein StbA -
F7Q03_RS26660 21138..21554 + 417 WP_001749975 hypothetical protein -
F7Q03_RS26665 21556..23085 + 1530 WP_001749976 type IV secretion system DNA-binding domain-containing protein virb4
F7Q03_RS26670 23085..26327 + 3243 WP_001749977 MobF family relaxase -
F7Q03_RS26675 26327..26500 + 174 WP_001749978 hypothetical protein -
F7Q03_RS26680 26710..27159 - 450 Protein_26 phospholipase D family protein -
F7Q03_RS26685 27159..28154 - 996 WP_000128596 ATPase, T2SS/T4P/T4SS family virB11
F7Q03_RS26690 28196..29356 - 1161 WP_000101710 type IV secretion system protein VirB10 virB10
F7Q03_RS26695 29356..30240 - 885 WP_000735066 TrbG/VirB9 family P-type conjugative transfer protein virB9
F7Q03_RS26700 30251..30949 - 699 WP_000646594 type IV secretion system protein virB8
F7Q03_RS27345 30939..31097 - 159 WP_012561180 hypothetical protein -
F7Q03_RS26705 31168..32208 - 1041 WP_001749958 type IV secretion system protein virB6
F7Q03_RS26710 32224..32451 - 228 WP_001749959 IncN-type entry exclusion lipoprotein EexN -
F7Q03_RS26715 32459..33172 - 714 WP_001749960 type IV secretion system protein virB5
F7Q03_RS26720 33190..35790 - 2601 WP_001749961 VirB4 family type IV secretion/conjugal transfer ATPase virb4
F7Q03_RS26725 35790..36107 - 318 WP_000496058 VirB3 family type IV secretion system protein virB3
F7Q03_RS26730 36157..36450 - 294 WP_001749962 hypothetical protein virB2
F7Q03_RS26735 36460..36741 - 282 WP_000440698 transcriptional repressor KorA -
F7Q03_RS26740 36750..37484 - 735 WP_001749963 lytic transglycosylase domain-containing protein virB1
F7Q03_RS26745 37527..37898 + 372 WP_011867773 H-NS family nucleoid-associated regulatory protein -
F7Q03_RS26750 37914..38258 + 345 WP_001749964 hypothetical protein -
F7Q03_RS26755 38255..38569 + 315 WP_001749965 TrbM/KikA/MpfK family conjugal transfer protein -
F7Q03_RS26760 38683..38916 + 234 WP_001191790 hypothetical protein -
F7Q03_RS26765 38966..39613 + 648 WP_015344958 restriction endonuclease -
F7Q03_RS26770 39618..39824 + 207 WP_001749967 hypothetical protein -
F7Q03_RS26775 39835..40107 - 273 Protein_46 IS1 family transposase -
F7Q03_RS26780 40206..41639 + 1434 WP_001288432 DNA cytosine methyltransferase -

Host bacterium

ID   1821 GenBank   NZ_SWIQ01000257
Plasmid name   pIncN_C1-94_KPC Incompatibility group   IncN
Plasmid size   56321 bp Coordinate of oriT [Strand]   20889..20989 [-]
Host baterium   Klebsiella pneumoniae strain C1-94

Cargo genes

Drug resistance gene   sul1, qacE, aac(6')-Ib-cr, blaKPC-2
Virulence gene   -
Metal resistance gene   -
Degradation gene   -
Symbiosis gene   -
Anti-CRISPR   -