Detailed information of oriT

oriT

The information of the oriT region


oriTDB ID   105995
Name   oriT_pRHB30-C05_6 in_silico
Organism   Klebsiella pneumoniae strain RHB30-C05
Sequence Completeness      -
NCBI accession of oriT (coordinates [strand])   NZ_CP057318 (35269..35369 [+], 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_pRHB30-C05_6
TATTTATTTTTTTATCTTTTAAATCAGTATGATAGCGTGATTTATCGCGCTGCGTTAGGTGTATAGCAGGTTAAGGGATAAAAAATCATCTTTTTTGGTAG

Visualization of oriT structure

  oriT secondary structure

Predicted by RNAfold.

Download structure file


Relaxase

ID   4030 GenBank   WP_001749977
Name   mobF_HVY73_RS27805_pRHB30-C05_6 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   1784 GenBank   WP_001749975
Name   WP_001749975_pRHB30-C05_6 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   4042 GenBank   WP_001749976
Name   t4cp2_HVY73_RS27810_pRHB30-C05_6 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: 14854..34702

Locus tag Coordinates Strand Size (bp) Protein ID Product Description
HVY73_RS27665 (HVY73_27685) 10699..12132 - 1434 WP_001288432 DNA cytosine methyltransferase -
HVY73_RS27670 (HVY73_27690) 12231..12503 + 273 Protein_14 IS1 family transposase -
HVY73_RS27675 (HVY73_27695) 12514..12720 - 207 WP_001749967 hypothetical protein -
HVY73_RS27680 (HVY73_27700) 12725..13372 - 648 WP_015344958 restriction endonuclease -
HVY73_RS27685 (HVY73_27705) 13422..13733 - 312 WP_001452736 hypothetical protein -
HVY73_RS27690 (HVY73_27710) 13769..14083 - 315 WP_001749965 TrbM/KikA/MpfK family conjugal transfer protein -
HVY73_RS27695 (HVY73_27715) 14080..14424 - 345 WP_001749964 hypothetical protein -
HVY73_RS27700 (HVY73_27720) 14440..14811 - 372 WP_011867773 H-NS family nucleoid-associated regulatory protein -
HVY73_RS27705 (HVY73_27725) 14854..15588 + 735 WP_001749963 lytic transglycosylase domain-containing protein virB1
HVY73_RS27710 (HVY73_27730) 15597..15878 + 282 WP_000440698 transcriptional repressor KorA -
HVY73_RS27715 (HVY73_27735) 15888..16181 + 294 WP_001749962 hypothetical protein virB2
HVY73_RS27720 (HVY73_27740) 16231..16548 + 318 WP_000496058 VirB3 family type IV secretion system protein virB3
HVY73_RS27725 (HVY73_27745) 16548..19148 + 2601 WP_001749961 VirB4 family type IV secretion/conjugal transfer ATPase virb4
HVY73_RS27730 (HVY73_27750) 19166..19879 + 714 WP_001749960 type IV secretion system protein virB5
HVY73_RS27735 (HVY73_27755) 19887..20114 + 228 WP_001749959 IncN-type entry exclusion lipoprotein EexN -
HVY73_RS27740 (HVY73_27760) 20130..21170 + 1041 WP_001749958 type IV secretion system protein virB6
HVY73_RS28315 21271..21399 + 129 WP_071882546 conjugal transfer protein TraN -
HVY73_RS27745 (HVY73_27765) 21389..22087 + 699 WP_000646594 type IV secretion system protein virB8
HVY73_RS27750 (HVY73_27770) 22098..22982 + 885 WP_000735066 TrbG/VirB9 family P-type conjugative transfer protein virB9
HVY73_RS27755 (HVY73_27775) 22982..24142 + 1161 WP_000101710 type IV secretion system protein VirB10 virB10
HVY73_RS27760 (HVY73_27780) 24184..25179 + 996 WP_000128596 ATPase, T2SS/T4P/T4SS family virB11
HVY73_RS27765 (HVY73_27785) 25179..25712 + 534 WP_000792636 phospholipase D family protein -
HVY73_RS28320 25886..26338 - 453 WP_001749956 DUF6710 family protein -
HVY73_RS27780 (HVY73_27800) 26612..27265 + 654 Protein_36 EamA family transporter -
HVY73_RS27785 (HVY73_27805) 27297..28496 - 1200 WP_050918514 tetracycline efflux MFS transporter Tet(A) -
HVY73_RS27790 (HVY73_27810) 28602..29252 + 651 WP_000164043 tetracycline resistance transcriptional repressor TetR(A) -
HVY73_RS27795 (HVY73_27815) 29284..29526 - 243 WP_000844627 transposase -
HVY73_RS27800 (HVY73_27820) 29758..29931 - 174 WP_001749978 hypothetical protein -
HVY73_RS27805 (HVY73_27825) 29931..33173 - 3243 WP_001749977 MobF family relaxase -
HVY73_RS27810 (HVY73_27830) 33173..34702 - 1530 WP_001749976 type IV secretion system DNA-binding domain-containing protein virb4
HVY73_RS27815 (HVY73_27835) 34704..35120 - 417 WP_001749975 hypothetical protein -
HVY73_RS28180 35611..36030 + 420 WP_001749974 plasmid stabilization protein StbA -
HVY73_RS27825 (HVY73_27845) 36039..36755 + 717 WP_001749973 StbB family protein -
HVY73_RS27830 (HVY73_27850) 36757..37125 + 369 WP_000414913 plasmid stabilization protein StbC -
HVY73_RS27835 (HVY73_27855) 37307..37651 + 345 WP_000999874 hypothetical protein -
HVY73_RS27840 (HVY73_27860) 37762..38082 - 321 WP_001749971 protein CcgAII -
HVY73_RS27845 (HVY73_27865) 38137..38316 - 180 WP_000214483 protein CcgAI -
HVY73_RS27850 (HVY73_27870) 39202..39441 - 240 WP_000932975 hypothetical protein -

Host bacterium

ID   6432 GenBank   NZ_CP057318
Plasmid name   pRHB30-C05_6 Incompatibility group   IncN
Plasmid size   44303 bp Coordinate of oriT [Strand]   35269..35369 [+]
Host baterium   Klebsiella pneumoniae strain RHB30-C05

Cargo genes

Drug resistance gene   dfrA1, aadA24, qacE, sul1, tet(A)
Virulence gene   -
Metal resistance gene   -
Degradation gene   -
Symbiosis gene   -
Anti-CRISPR   -