Detailed information of oriT

oriT

The information of the oriT region


oriTDB ID   105425
Name   oriT_p24392 in_silico
Organism   Salmonella enterica subsp. enterica serovar Hadar strain CVM 24392
Sequence Completeness      -
NCBI accession of oriT (coordinates [strand])   NZ_CP051371 (11983..12069 [-], 87 nt)
oriT length   87 nt
IRs (inverted repeats)     _
Location of nic site      _
Conserved sequence flanking the
  nic site    		  _
Note   Predicted by oriTfinder 2.0

  oriT sequence  


Download         Length: 87 nt

>oriT_p24392
GGGGTGTCGGGGCGAAGCCCTGACCAGGAGGCAATTGTATAATCGCGCGTGCGCGGTTATACAATTGCACATCCTGTCCCGTTTTTC

Visualization of oriT structure

  oriT secondary structure

Predicted by RNAfold.

Download structure file


Relaxase

ID   3698 GenBank   WP_001354015
Name   nikB_HFS18_RS23595_p24392 insolico UniProt ID   E8XLT1
Length   899 a.a. PDB ID   
Note   Predicted by oriTfinder 2.0

  Relaxase protein sequence


Download         Length: 899 a.a.        Molecular weight: 104018.47 Da        Isoelectric Point: 7.3526

>WP_001354015.1 MULTISPECIES: IncI1-type relaxase NikB [Enterobacteriaceae]
MNAVIPKKRRDGKSSFEDLVSYVSVRDDMTDEELDLSSSSQAEQPHRSRFSRLVDYATRLRNESFVALVD
VMKDGCEWVNFYGVTCFHNCTSLETAAADMEYIARQAHYAKDDTDPVFHYILSWQSHESPRPEQIYDSVR
HTLKSLGLADHQYVSAVHTDTDNLHVHVAVNRVHPETGYLNRLSWSQEKLSRACRELELKHGFAPDNGCW
VHAPGNRIVRKTAVERDRQNAWTRGKKQTFREYVAQTAVAGLRSEPVHDWLSLHRRLAEDGLYLSQMDGK
FLVMDGWDRNREGVQLDSFGPSWCAEKLMKKMGDYTPVPKDIFSQVEAPGRYNPDFIAADVRPEKIAETE
SLQQYACRHLGERLPEMAREGRLENCLAIHRTLAEAGLWMRVQHGHLVICDGYDHNQTPVRADSVWSLLT
LDNVNQLDGGWQPVPTDIFRQVTPTERFRGRRMESCPATDKEWHRMRTGTGPQGAIKRELFSDKESLWGY
SISHCSPQIEEMITQGEFTWQRCHELFAQQGLMLQKQHHGLVVVDAFNHEQTPVKASSIHPDLTLGRAEP
QAGPFVSAPADLFDRVQPENRYNPELAVSDRYGVSSKRDPMLRRQRREARAEARADLRARYLAWREQWRK
PDLRYGERCREIHQACRLRKSHIRAQYDDPALRKLHYHIAEVQRMQALIRLKEDIRDERQKLIADGKWYP
PSYRQWVEIQAAQGDRAAVSQLRGWDYRDRRKDKSRTTTTDRCVVLCEPGGTPVYGNTGDLEARLQKNGS
VRFRDRRTGEFVCTDYGDRVVFRNHHDRNALADKLDLIAPVLFGRDPRMGFEPEGNDKQFNQVFAEMVAW
HNVTGRTGHEDYRITRPDVDHHREGSERYYRDYIAANSNDDASLPPPEQDKRWEPPSPG

  Protein domains


Predicted by InterproScan.

Relaxase/Mobilisation nuclease domain (Relaxase)

(62-314)


  Protein structure


Source ID Structure
AlphaFold DB E8XLT1


Auxiliary protein

ID   1671 GenBank   WP_001281051
Name   WP_001281051_p24392 insolico UniProt ID   A0A3U8I0C6
Length   110 a.a. PDB ID   _
Note   Predicted by oriTfinder 2.0

  Auxiliary protein sequence


Download         Length: 110 a.a.        Molecular weight: 12646.44 Da        Isoelectric Point: 10.4030

>WP_001281051.1 MULTISPECIES: plasmid mobilization protein MobA [Enterobacteriaceae]
MSDKRQRSGSERRQKTILRAVRFSPDEDETICKNAEDSGLTVSAYIRNAALNKRINSRTDDAFLKELMRL
GRMQKHLFVQGKRTGDKEYAEVLVAITELTNTLRKQLMEG

  Protein domains



No domain identified.



  Protein structure


Source ID Structure
AlphaFold DB A0A3U8I0C6


T4CP

ID   3684 GenBank   WP_001289276
Name   trbC_HFS18_RS23600_p24392 insolico UniProt ID   _
Length   763 a.a. PDB ID   _
Note   Predicted by oriTfinder 2.0

  T4CP protein sequence


Download         Length: 763 a.a.        Molecular weight: 86941.11 Da        Isoelectric Point: 6.7713

>WP_001289276.1 MULTISPECIES: F-type conjugative transfer protein TrbC [Enterobacteriaceae]
MSEHRVNPELLHRTAWGNPVWNALQSLNIYGFCLVASLVASFIWPLALPACLLFTLITMLVFSLQRWRCP
LRMPMTLECADPSQDRMIKRSLFSFWPTLFQYEVILESPASGIFYVGYQRVRDIGRELWLSMDDLTRHIM
FFATTGGGKTETIFAWAINPLCWARGFTLVDGKAQNDTARTIWYLARRFGREDDVEVINFMNGGKSRSEI
ILSGEKTRPQSNTWNPFCYSTEAFTAETMQSMLPQNVQGGEWQSRAIAMNKALVFGTKFWCVREGKTMSL
QMLREHMTLEGMAKLYCRGLDDQWPEEAIAPLRNYLQDVPGFDLSLVRTPSAWTEEPRKQHAYLSGQFSE
TFSTFTEAFGDIFAEDSGDIDIRDSIHSDRILMVMIPALDTSAHTTSALGRMFITQKSMILARDLGYRLE
GTDSDALEVKKYKGRFPYLCFLDEVGAYYTDRIAVEATQVRSLDFALILMAQDQERIEGQTTATNTATLM
QNTGTKFAGRIVSEGSTARTLKSAAGEEARARMNNLQRQDGIFGESWIDSPQISILMESKINVQELIELH
PGEFFSIFRGETVPSASFFIPDDEKSCSSDPVVINRYISVDAPRLDRLRRLVPRTTQRRIPSPENVSAII
GVLTAKPSRKRRKIRTEPHTIVDTFQQRIAGRQAAMAMLEEYDTDINARESALWETAVNTLKTTTREERR
IRYITLNRPELPETKEENQISVRAERAGINLLTLPQDNNHPTGRPVNGFHHKKTNRPDWDGMY

  Protein domains



No domain identified.


  Protein structure



No available structure.




T4SS

T4SS were predicted by using oriTfinder2.

Region 1: 17448..55745

Locus tag Coordinates Strand Size (bp) Protein ID Product Description
HFS18_RS23600 (HFS18_23600) 15164..17455 - 2292 WP_001289276 F-type conjugative transfer protein TrbC -
HFS18_RS23605 (HFS18_23605) 17448..18518 - 1071 WP_000151583 IncI1-type conjugal transfer protein TrbB trbB
HFS18_RS23610 (HFS18_23610) 18537..19745 - 1209 WP_000121274 IncI1-type conjugal transfer protein TrbA trbA
HFS18_RS23615 (HFS18_23615) 20037..20189 + 153 WP_001331364 Hok/Gef family protein -
HFS18_RS24475 20261..20452 - 192 WP_174715448 hypothetical protein -
HFS18_RS24415 21013..21108 + 96 WP_000609148 DinQ-like type I toxin DqlB -
HFS18_RS23625 (HFS18_23625) 21173..21349 - 177 WP_001054904 hypothetical protein -
HFS18_RS23630 (HFS18_23630) 21741..21950 + 210 WP_000062603 HEAT repeat domain-containing protein -
HFS18_RS23635 (HFS18_23635) 22022..22684 - 663 WP_000653334 plasmid IncI1-type surface exclusion protein ExcA -
HFS18_RS23640 (HFS18_23640) 22749..24911 - 2163 WP_000698351 DotA/TraY family protein traY
HFS18_RS23645 (HFS18_23645) 25008..25592 - 585 WP_001037987 IncI1-type conjugal transfer protein TraX -
HFS18_RS23650 (HFS18_23650) 25621..26823 - 1203 WP_024261752 IncI1-type conjugal transfer protein TraW traW
HFS18_RS23655 (HFS18_23655) 26790..27404 - 615 WP_000337398 IncI1-type conjugal transfer protein TraV traV
HFS18_RS23660 (HFS18_23660) 27404..30448 - 3045 WP_001024780 IncI1-type conjugal transfer protein TraU traU
HFS18_RS23665 (HFS18_23665) 30538..31338 - 801 WP_001164788 IncI1-type conjugal transfer protein TraT traT
HFS18_RS23670 (HFS18_23670) 31322..31510 - 189 WP_001277255 putative conjugal transfer protein TraS -
HFS18_RS23675 (HFS18_23675) 31574..31978 - 405 WP_000086957 IncI1-type conjugal transfer protein TraR traR
HFS18_RS23680 (HFS18_23680) 32029..32556 - 528 WP_001055569 conjugal transfer protein TraQ traQ
HFS18_RS23685 (HFS18_23685) 32556..33260 - 705 WP_000801920 IncI1-type conjugal transfer protein TraP traP
HFS18_RS23690 (HFS18_23690) 33260..34549 - 1290 WP_001272005 conjugal transfer protein TraO traO
HFS18_RS23695 (HFS18_23695) 34552..35535 - 984 WP_001191877 IncI1-type conjugal transfer protein TraN traN
HFS18_RS23700 (HFS18_23700) 35546..36238 - 693 WP_000138548 DotI/IcmL family type IV secretion protein traM
HFS18_RS23705 (HFS18_23705) 36235..36582 - 348 WP_001055900 conjugal transfer protein traL
HFS18_RS23710 (HFS18_23710) 36600..40366 - 3767 Protein_43 LPD7 domain-containing protein -
HFS18_RS23715 (HFS18_23720) 40456..41007 - 552 WP_000014583 phospholipase D family protein -
HFS18_RS23720 (HFS18_23725) 41022..41312 - 291 WP_001299214 hypothetical protein traK
HFS18_RS23725 (HFS18_23730) 41309..42457 - 1149 WP_001024972 plasmid transfer ATPase TraJ virB11
HFS18_RS23730 (HFS18_23735) 42454..43272 - 819 WP_000646098 IncI1-type conjugal transfer lipoprotein TraI traI
HFS18_RS23735 (HFS18_23740) 43269..43727 - 459 WP_001079808 IncI1-type conjugal transfer lipoprotein TraH -
HFS18_RS23740 (HFS18_23745) 44122..44706 - 585 WP_000977522 histidine phosphatase family protein -
HFS18_RS23745 (HFS18_23750) 44766..45968 - 1203 WP_000976351 conjugal transfer protein TraF -
HFS18_RS23750 (HFS18_23755) 46053..46877 - 825 WP_001238939 conjugal transfer protein TraE traE
HFS18_RS23755 (HFS18_23760) 47028..48182 - 1155 WP_001139957 site-specific integrase -
HFS18_RS24375 48181..48465 + 285 WP_187642572 pilus assembly protein PilV -
HFS18_RS24480 49330..49586 - 257 Protein_54 hypothetical protein -
HFS18_RS24485 49594..49818 + 225 Protein_55 hypothetical protein -
HFS18_RS23765 (HFS18_23770) 49815..51239 - 1425 WP_001389385 shufflon system plasmid conjugative transfer pilus tip adhesin PilV -
HFS18_RS23770 (HFS18_23775) 51239..51895 - 657 WP_001193553 prepilin peptidase -
HFS18_RS23775 (HFS18_23780) 51880..52440 - 561 WP_000014116 lytic transglycosylase domain-containing protein virB1
HFS18_RS23780 (HFS18_23785) 52450..53064 - 615 WP_000959785 type 4 pilus major pilin -
HFS18_RS23785 (HFS18_23790) 53082..54179 - 1098 WP_001208805 type II secretion system F family protein -
HFS18_RS23790 (HFS18_23795) 54192..55745 - 1554 WP_000362202 ATPase, T2SS/T4P/T4SS family virB11
HFS18_RS23795 (HFS18_23800) 55756..56208 - 453 WP_001247336 type IV pilus biogenesis protein PilP -
HFS18_RS23800 (HFS18_23805) 56195..57490 - 1296 WP_000752774 type 4b pilus protein PilO2 -
HFS18_RS23805 (HFS18_23810) 57483..59165 - 1683 WP_000748143 PilN family type IVB pilus formation outer membrane protein -
HFS18_RS23810 (HFS18_23815) 59179..59616 - 438 WP_000539807 type IV pilus biogenesis protein PilM -
HFS18_RS23815 (HFS18_23820) 59616..60683 - 1068 WP_000742600 type IV pilus biogenesis lipoprotein PilL -

Host bacterium

ID   5863 GenBank   NZ_CP051371
Plasmid name   p24392 Incompatibility group   IncI1
Plasmid size   101673 bp Coordinate of oriT [Strand]   11983..12069 [-]
Host baterium   Salmonella enterica subsp. enterica serovar Hadar strain CVM 24392

Cargo genes

Drug resistance gene   sul1, qacE, ant(3'')-Ia, dfrA15
Virulence gene   -
Metal resistance gene   -
Degradation gene   -
Symbiosis gene   -
Anti-CRISPR   -