Detailed information of oriT

oriT

The information of the oriT region


oriTDB ID   105108
Name   oriT_pRHBSTW-00133_3 in_silico
Organism   Enterobacter hormaechei strain RHBSTW-00133
Sequence Completeness      -
NCBI accession of oriT (coordinates [strand])   NZ_CP058148 (45813..45913 [+], 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_pRHBSTW-00133_3
TATTTATTTTTTTATCTTTTAAATCAGTACGATAGCGTGATTTATCGCGCTGCGTTAGGTGTATAGCAGGTTAAGGGATAAAAAATCATCTTTTTTGGTAG

Visualization of oriT structure

  oriT secondary structure

Predicted by RNAfold.

Download structure file


Relaxase

ID   3550 GenBank   WP_012561142
Name   mobF_HV088_RS24490_pRHBSTW-00133_3 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   1583 GenBank   WP_001749975
Name   WP_001749975_pRHBSTW-00133_3 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   3517 GenBank   WP_000342688
Name   t4cp2_HV088_RS24495_pRHBSTW-00133_3 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: 19174..33171

Locus tag Coordinates Strand Size (bp) Protein ID Product Description
HV088_RS24340 (HV088_24340) 15019..16452 - 1434 WP_001288432 DNA cytosine methyltransferase -
HV088_RS24345 (HV088_24345) 16551..16823 + 273 Protein_17 IS1 family transposase -
HV088_RS24350 (HV088_24350) 16834..17040 - 207 WP_001749967 hypothetical protein -
HV088_RS24355 (HV088_24355) 17045..17686 - 642 WP_012561158 restriction endonuclease -
HV088_RS24360 (HV088_24360) 17742..18053 - 312 WP_013279382 hypothetical protein -
HV088_RS24365 (HV088_24365) 18089..18403 - 315 WP_016338363 TrbM/KikA/MpfK family conjugal transfer protein -
HV088_RS24370 (HV088_24370) 18400..18744 - 345 WP_012561155 hypothetical protein -
HV088_RS24375 (HV088_24375) 18760..19137 - 378 WP_193567606 H-NS family nucleoid-associated regulatory protein -
HV088_RS24380 (HV088_24380) 19174..19911 + 738 WP_013279384 lytic transglycosylase domain-containing protein virB1
HV088_RS24385 (HV088_24385) 19920..20201 + 282 WP_016338364 transcriptional repressor KorA -
HV088_RS24390 (HV088_24390) 20211..20504 + 294 WP_001749962 hypothetical protein virB2
HV088_RS24395 (HV088_24395) 20554..20871 + 318 WP_000496058 VirB3 family type IV secretion system protein virB3
HV088_RS24400 (HV088_24400) 21003..23471 + 2469 WP_223669807 VirB4 family type IV secretion/conjugal transfer ATPase virb4
HV088_RS24405 (HV088_24405) 23489..24202 + 714 WP_001749960 type IV secretion system protein virB5
HV088_RS24410 (HV088_24410) 24210..24437 + 228 WP_001749959 IncN-type entry exclusion lipoprotein EexN -
HV088_RS24415 (HV088_24415) 24453..25493 + 1041 WP_001749958 type IV secretion system protein virB6
HV088_RS24420 (HV088_24420) 25623..28520 - 2898 WP_001553819 Tn3-like element Tn5403 family transposase -
HV088_RS24425 (HV088_24425) 28615..29220 + 606 WP_000509966 recombinase family protein -
HV088_RS24860 29263..29391 + 129 WP_071882546 conjugal transfer protein TraN -
HV088_RS24430 (HV088_24430) 29381..30079 + 699 WP_000646594 type IV secretion system protein virB8
HV088_RS24435 (HV088_24435) 30090..30974 + 885 WP_000735066 TrbG/VirB9 family P-type conjugative transfer protein virB9
HV088_RS24440 (HV088_24440) 30974..32134 + 1161 WP_012561145 type IV secretion system protein VirB10 virB10
HV088_RS24445 (HV088_24445) 32176..33171 + 996 WP_012561144 ATPase, T2SS/T4P/T4SS family virB11
HV088_RS24450 (HV088_24450) 33171..33704 + 534 WP_000792636 phospholipase D family protein -
HV088_RS24455 (HV088_24455) 33877..34191 - 315 WP_000091613 hypothetical protein -
HV088_RS24460 (HV088_24460) 34446..34802 - 357 WP_000215515 cupin domain-containing protein -
HV088_RS24465 (HV088_24465) 34792..35193 - 402 WP_001293886 DUF86 domain-containing protein -
HV088_RS24470 (HV088_24470) 35190..35480 - 291 WP_001247892 nucleotidyltransferase -

Host bacterium

ID   5546 GenBank   NZ_CP058148
Plasmid name   pRHBSTW-00133_3 Incompatibility group   IncN
Plasmid size   59112 bp Coordinate of oriT [Strand]   45813..45913 [+]
Host baterium   Enterobacter hormaechei strain RHBSTW-00133

Cargo genes

Drug resistance gene   -
Virulence gene   -
Metal resistance gene   ncrY, ncrC, ncrB, ncrA, chrA
Degradation gene   -
Symbiosis gene   -
Anti-CRISPR   -