Detailed information of oriT

oriT

The information of the oriT region


oriTDB ID   101606
Name   oriT_pEW608 in_silico
Organism   Klebsiella pneumoniae strain EW608
Sequence Completeness      -
NCBI accession of oriT (coordinates [strand])   NZ_JAQIIS010000001 (12621..12720 [-], 100 nt)
oriT length   100 nt
IRs (inverted repeats)      77..82, 90..95  (AAAAAA..TTTTTT)
 78..83, 90..95  (AAAAAA..TTTTTT)
 79..84, 90..95  (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: 100 nt

>oriT_pEW608
TATTTATTTTTTTATCTTTTAAATCAGTACGATAGCGTGATTTATCGCGCTGCGTTAGGTGTATAGCAGGTTAAGGAAAAAAAATCATCTTTTTTGGTAG

Visualization of oriT structure

  oriT secondary structure

Predicted by RNAfold.

Download structure file


Relaxase

ID   1422 GenBank   WP_012561142
Name   mobF_PGO26_RS00100_pEW608 insolico UniProt ID   A0A1S6KKJ9
Length   1078 a.a. PDB ID   
Note   Predicted by oriTfinder 2.0

  Relaxase protein sequence


Download         Length: 1078 a.a.        Molecular weight: 120195.37 Da        Isoelectric Point: 6.5230

>WP_012561142.1 MULTISPECIES: MobF family relaxase [Enterobacterales]
MLDITTITRQNVTSVVGYYSDAKDDYYSKDSSFTSWQGTGAEALGLSGDVESARFKELLVGEIDTFTHMQ
RHVGDAKKERLGYDLTFSAPKGVSMQALIHGDKTIIEAHEKAVAAAVREAEKLAQARTTRQGKSVTQNTN
NLVVATFRHETSRALDPDLHTHAFVMNMTQREDGQWRALKNDELMRNKMHLGDVYKQELALELTKAGYEL
RYNSKNNTFDMAHFSDEQIRAFSRRSEQIEKGLAAMGLTRETADAQTKSRVSMATREKKTEHSREEIHQE
WASRAKTLGIDFDNREWQGHGKPLEADIARNMAPDFTSPEVKADRAIQFAVKSLSERDASFERQKLIQIA
NKQVLGHATIADVEKAYLKAVQKGAIIEGEARYQSTLKVGASVMAETLTRKEWIDSLTNSGMRADKARFA
VDDGIKNGRLKKTSHRVTTVEGIRLERSILTIESRGRGQMPRQLTAEIAGQLLAGKTLKKEQMRAVTEIV
TSKDRFVAAHGYAGTGKSYMTMAAKELLESQGLKVTALAPYGTQKKALEDDGLPARTVAAFLKAKDKKLD
EKSVVFIDEAGVIPARQMKQLMEVIEKHNARAVFLGDTSQTKAVEAGKPFEQLIKADMQTSYMKDIQRQK
NEVLLEAVKYAAEGNAARALKNITGVNELKEEAPRLAQLADRYLSLSSEQQDATLIISGTNASRKTLNDY
IRGNLGLAGTGETFTLLDRVDSTQAERRDSRYFSKGQIIIPEQDYKNGMKRGESYQVLDTGPGNKLTVES
SSGEQIAFSPRTHTKLSVYQAVSAELAPGDKVMVTRNDKTLDVANGDRFTVKTVEGEKLTLEDKKGRTVE
LDKKQASYLSYAYATTVHKSQGLTCDRVLFNIDTKSLTTSKDVFYVGISRARHEVEIFTDDKKSLASSVS
RDSPKTTAAEIDRFFGLEARFKDIGRDTSLETRSAEKGLPEATGESMAFNQKPDEHNMTTGTDYQPVSNA
EDAFHLKQNPMDDSVGLRRHEAQQNDAELAHDYAAADDQQWSAQEYADYEHYAEASDYDFDSSIYDDYAM
PQTSQAEQSHTGKEHTHEHEHEEGGHEI

  Protein domains


Predicted by InterproScan.

UvrD-like helicase C-terminal domain (UvrD_C_2)

(851-895)

AAA domain (AAA_30)

(477-653)

TrwC relaxase (TrwC)

(16-287)


  Protein structure


Source ID Structure
AlphaFold DB A0A1S6KKJ9


Auxiliary protein

ID   554 GenBank   WP_001749975
Name   WP_001749975_pEW608 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   1081 GenBank   WP_000342688
Name   t4cp2_PGO26_RS00095_pEW608 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: 30834..41163

Locus tag Coordinates Strand Size (bp) Protein ID Product Description
PGO26_RS00150 (PGO26_00150) 26762..27541 + 780 WP_004152394 IS21-like element ISKpn7 family helper ATPase IstB -
PGO26_RS00155 (PGO26_00155) 27928..28809 + 882 WP_004199234 carbapenem-hydrolyzing class A beta-lactamase KPC-2 -
PGO26_RS00160 (PGO26_00160) 29059..30378 - 1320 WP_004152397 IS1182-like element ISKpn6 family transposase -
PGO26_RS00165 (PGO26_00165) 30730..30834 - 105 Protein_32 phospholipase D family protein -
PGO26_RS00170 (PGO26_00170) 30834..31829 - 996 WP_012561144 ATPase, T2SS/T4P/T4SS family virB11
PGO26_RS00175 (PGO26_00175) 31871..33031 - 1161 WP_000101710 type IV secretion system protein VirB10 virB10
PGO26_RS00180 (PGO26_00180) 33031..33915 - 885 WP_000735066 TrbG/VirB9 family P-type conjugative transfer protein virB9
PGO26_RS00185 (PGO26_00185) 33926..34624 - 699 WP_000646594 type IV secretion system protein virB8
PGO26_RS29425 34614..34772 - 159 WP_012561180 hypothetical protein -
PGO26_RS00190 (PGO26_00190) 34843..35883 - 1041 WP_001749958 type IV secretion system protein virB6
PGO26_RS00195 (PGO26_00195) 35899..36126 - 228 WP_001749959 IncN-type entry exclusion lipoprotein EexN -
PGO26_RS00200 (PGO26_00200) 36134..36847 - 714 WP_001749960 type IV secretion system protein virB5
PGO26_RS00205 (PGO26_00205) 36865..39465 - 2601 WP_012561149 VirB4 family type IV secretion/conjugal transfer ATPase virb4
PGO26_RS00210 (PGO26_00210) 39465..39782 - 318 WP_000496058 VirB3 family type IV secretion system protein virB3
PGO26_RS00215 (PGO26_00215) 39833..40126 - 294 WP_001749962 hypothetical protein virB2
PGO26_RS00220 (PGO26_00220) 40136..40417 - 282 WP_016338364 transcriptional repressor KorA -
PGO26_RS00225 (PGO26_00225) 40426..41163 - 738 WP_013279384 lytic transglycosylase domain-containing protein virB1
PGO26_RS00230 (PGO26_00230) 41206..41577 + 372 WP_223174968 H-NS family nucleoid-associated regulatory protein -
PGO26_RS00235 (PGO26_00235) 41593..41937 + 345 WP_012561155 hypothetical protein -
PGO26_RS00240 (PGO26_00240) 41934..42248 + 315 WP_016338363 TrbM/KikA/MpfK family conjugal transfer protein -
PGO26_RS00245 (PGO26_00245) 42284..42595 + 312 WP_013279382 hypothetical protein -
PGO26_RS00250 (PGO26_00250) 42651..42911 + 261 WP_016359294 hypothetical protein -
PGO26_RS00255 (PGO26_00255) 42953..43921 - 969 WP_162821909 IS5 family transposase -
PGO26_RS00260 (PGO26_00260) 44005..44358 + 354 WP_225622145 restriction endonuclease -
PGO26_RS00265 (PGO26_00265) 44363..44569 + 207 WP_001749967 hypothetical protein -
PGO26_RS00270 (PGO26_00270) 44580..44852 - 273 Protein_54 IS1 family transposase -

Host bacterium

ID   2050 GenBank   NZ_JAQIIS010000001
Plasmid name   pEW608 Incompatibility group   IncN
Plasmid size   53267 bp Coordinate of oriT [Strand]   12621..12720 [-]
Host baterium   Klebsiella pneumoniae strain EW608

Cargo genes

Drug resistance gene   blaKPC-2
Virulence gene   -
Metal resistance gene   -
Degradation gene   -
Symbiosis gene   -
Anti-CRISPR   -