Detailed information of oriT

oriT

The information of the oriT region


oriTDB ID   119230
Name   oriT_pWLK-IncN in_silico
Organism   Raoultella ornithinolytica strain WLK218
Sequence Completeness      -
NCBI accession of oriT (coordinates [strand])   NZ_CP038278 (42156..42256 [-], 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_pWLK-IncN
TATTTATTTTTTTATCTTTTAAATCATTATGATAGCGTGATTTATCGCGCTGCGTTAGGTGTATAGCAGGTTAAGGGATAAAAAATCATCTTTTTTGGTAG

Visualization of oriT structure

  oriT secondary structure

Predicted by RNAfold.

Download structure file


Relaxase

ID   12169 GenBank   WP_013263790
Name   mobF_E4K08_RS02820_pWLK-IncN insolico UniProt ID   E2EAU3
Length   1078 a.a. PDB ID   
Note   Predicted by oriTfinder 2.0

  Relaxase protein sequence


Download         Length: 1078 a.a.        Molecular weight: 120137.33 Da        Isoelectric Point: 6.5766

>WP_013263790.1 MULTISPECIES: MobF family relaxase [Enterobacteriaceae]
MLDITTITRQNVTSVVGYYSDAKDDYYSKDSSFTSWQGTGAEALGLSGDVESARFKELLVGEIDTFTHMQ
RHVGDAKKERLGYDLTFSAPKGVSMQALIHGDKTIIEAHEKAVAAAVREAEKLAQARTTRQGKSVTQNTN
NLVVATFRHETSRALDPDLHTHAFVMNMTQREDGQWRALKNDELMRNKMHLGDVYKQELALELTKAGYEL
RYNSKNNTFDMAHFSDEQIRAFSRRSEQIEKGLAAMGLTRETADAQTKSRVSMATREKKTEHSREEIHQE
WASRAKTLGIDFDNREWQGHGKPLEADIARNMAPDFTSPEVKADRAIQFAVKSLSERDASFERQKLIQIA
NKQVLGHATIADVEKAYLKAVQKGAIIEGEARYQSTLKVGASVMAETLTRKEWIDSLTNSGMRADKARFA
VDDGIKNGRLKKTSHRVTTVEGIRLERSILTIESRGRGQMPRQLTAEIAGQLLAGKTLKKEQMRAVTEIV
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 E2EAU3


Auxiliary protein

ID   6950 GenBank   WP_001749975
Name   WP_001749975_pWLK-IncN 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   14251 GenBank   WP_137055860
Name   t4cp2_E4K08_RS02815_pWLK-IncN 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: 57822.97 Da        Isoelectric Point: 9.6551

>WP_137055860.1 MULTISPECIES: type IV secretion system DNA-binding domain-containing protein [Enterobacteriaceae]
MDDRERGLAFLFAITLPPVMVWFLVAKFTYGIDPSTAKYLIPYLVKNTFSLWPLWSALIAGWFIGVGGLI
AFIIYDKSRVFKGERFKKIYRGTELVRARTLADKTRERGVNQLTVANIPIPTYAENLHFSIAGTTGTGKT
TIFNELLFKSIIRGGKNIALDPNGGFLKNFYRPGDVILNAYDKRTEGWVFFNEIRRSYDYERLVNSIVQE
SPDMATEEWFGYGRLIFSEVSKKLHSLYSTVTMEEVIHWACNVDQKKLKEFLMGTPAEAIFFGSEKAVGS
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: 42823..54933

Locus tag Coordinates Strand Size (bp) Protein ID Product Description
E4K08_RS02785 (E4K08_02785) 39159..39338 + 180 WP_012561134 protein CcgAI -
E4K08_RS02790 (E4K08_02790) 39800..40144 - 345 WP_227005110 hypothetical protein -
E4K08_RS02795 (E4K08_02795) 40345..40713 - 369 WP_012561138 plasmid stabilization protein StbC -
E4K08_RS02800 (E4K08_02800) 40715..41431 - 717 WP_012561139 StbB family protein -
E4K08_RS02805 (E4K08_02805) 41440..41826 - 387 WP_013279398 plasmid stabilization protein StbA -
E4K08_RS02810 (E4K08_02810) 42405..42821 + 417 WP_001749975 hypothetical protein -
E4K08_RS02815 (E4K08_02815) 42823..44352 + 1530 WP_137055860 type IV secretion system DNA-binding domain-containing protein virb4
E4K08_RS02820 (E4K08_02820) 44352..47588 + 3237 WP_013263790 MobF family relaxase -
E4K08_RS02825 (E4K08_02825) 47588..48214 + 627 WP_053390020 DUF6710 family protein -
E4K08_RS02830 (E4K08_02830) 48387..48920 - 534 WP_000792636 phospholipase D family protein -
E4K08_RS02835 (E4K08_02835) 48920..49915 - 996 WP_012561144 ATPase, T2SS/T4P/T4SS family virB11
E4K08_RS02840 (E4K08_02840) 49957..51117 - 1161 WP_012561145 type IV secretion system protein VirB10 virB10
E4K08_RS02845 (E4K08_02845) 51117..52001 - 885 WP_000735066 TrbG/VirB9 family P-type conjugative transfer protein virB9
E4K08_RS02850 (E4K08_02850) 52012..52710 - 699 WP_000646594 virB8 family protein virB8
E4K08_RS31205 (E4K08_02855) 52700..52858 - 159 WP_012561180 hypothetical protein -
E4K08_RS02860 (E4K08_02860) 52929..53969 - 1041 WP_001749958 type IV secretion system protein virB6
E4K08_RS02865 (E4K08_02865) 53985..54212 - 228 WP_001749959 IncN-type entry exclusion lipoprotein EexN -
E4K08_RS02870 (E4K08_02870) 54220..54933 - 714 WP_001749960 type IV secretion system protein virB5

Host bacterium

ID   19660 GenBank   NZ_CP038278
Plasmid name   pWLK-IncN Incompatibility group   IncN
Plasmid size   55184 bp Coordinate of oriT [Strand]   42156..42256 [-]
Host baterium   Raoultella ornithinolytica strain WLK218

Cargo genes

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