Detailed information of oriT

oriT

The information of the oriT region


oriTDB ID   105382
Name   oriT_p24359-2 in_silico
Organism   Salmonella enterica subsp. enterica serovar Heidelberg strain CVM 24359
Sequence Completeness      -
NCBI accession of oriT (coordinates [strand])   NZ_CP051383 (56576..56662 [-], 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_p24359-2
GGGGTGTCGGGGCGAAGCCCTGACCAGGAGGCAATTGTATAATCGCGCGTGCGCGGTTATACAATTGCACATCCTGTCCCGTTTTTC

Visualization of oriT structure

  oriT secondary structure

Predicted by RNAfold.

Download structure file


Relaxase

ID   3674 GenBank   WP_001354015
Name   nikB_HFS04_RS24735_p24359-2 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   1661 GenBank   WP_001281051
Name   WP_001281051_p24359-2 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   3651 GenBank   WP_001289276
Name   trbC_HFS04_RS24740_p24359-2 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: 62041..100340

Locus tag Coordinates Strand Size (bp) Protein ID Product Description
HFS04_RS24740 (HFS04_24760) 59757..62048 - 2292 WP_001289276 F-type conjugative transfer protein TrbC -
HFS04_RS24745 (HFS04_24765) 62041..63111 - 1071 WP_000151583 IncI1-type conjugal transfer protein TrbB trbB
HFS04_RS24750 (HFS04_24770) 63130..64338 - 1209 WP_000121274 IncI1-type conjugal transfer protein TrbA trbA
HFS04_RS24755 (HFS04_24775) 64630..64782 + 153 WP_001331364 Hok/Gef family protein -
HFS04_RS25405 64854..65045 - 192 WP_174715448 hypothetical protein -
HFS04_RS25345 65606..65701 + 96 WP_000609148 DinQ-like type I toxin DqlB -
HFS04_RS24765 (HFS04_24785) 65766..65942 - 177 WP_001054904 hypothetical protein -
HFS04_RS24770 (HFS04_24790) 66334..66543 + 210 WP_000062603 HEAT repeat domain-containing protein -
HFS04_RS24775 (HFS04_24795) 66615..67277 - 663 WP_000653334 plasmid IncI1-type surface exclusion protein ExcA -
HFS04_RS24780 (HFS04_24800) 67342..69504 - 2163 WP_000698351 DotA/TraY family protein traY
HFS04_RS24785 (HFS04_24805) 69601..70185 - 585 WP_001037987 IncI1-type conjugal transfer protein TraX -
HFS04_RS24790 (HFS04_24810) 70214..71416 - 1203 WP_001189160 IncI1-type conjugal transfer protein TraW traW
HFS04_RS24795 (HFS04_24815) 71383..71997 - 615 WP_000337398 IncI1-type conjugal transfer protein TraV traV
HFS04_RS24800 (HFS04_24820) 71997..75041 - 3045 WP_001024780 IncI1-type conjugal transfer protein TraU traU
HFS04_RS24805 (HFS04_24825) 75131..75931 - 801 WP_001164788 IncI1-type conjugal transfer protein TraT traT
HFS04_RS24810 (HFS04_24830) 75915..76103 - 189 WP_001277255 putative conjugal transfer protein TraS -
HFS04_RS24815 (HFS04_24835) 76167..76571 - 405 WP_000086957 IncI1-type conjugal transfer protein TraR traR
HFS04_RS24820 (HFS04_24840) 76622..77149 - 528 WP_001055569 conjugal transfer protein TraQ traQ
HFS04_RS24825 (HFS04_24845) 77149..77853 - 705 WP_000801920 IncI1-type conjugal transfer protein TraP traP
HFS04_RS24830 (HFS04_24850) 77853..79142 - 1290 WP_001272005 conjugal transfer protein TraO traO
HFS04_RS24835 (HFS04_24855) 79145..80128 - 984 WP_001191877 IncI1-type conjugal transfer protein TraN traN
HFS04_RS24840 (HFS04_24860) 80139..80831 - 693 WP_000138548 DotI/IcmL family type IV secretion protein traM
HFS04_RS24845 (HFS04_24865) 80828..81175 - 348 WP_001055900 conjugal transfer protein traL
HFS04_RS24850 (HFS04_24870) 81193..84960 - 3768 WP_001141528 LPD7 domain-containing protein -
HFS04_RS24855 (HFS04_24875) 85050..85601 - 552 WP_000014583 phospholipase D family protein -
HFS04_RS24860 (HFS04_24880) 85616..85906 - 291 WP_001299214 hypothetical protein traK
HFS04_RS24865 (HFS04_24885) 85903..87051 - 1149 WP_001024972 plasmid transfer ATPase TraJ virB11
HFS04_RS24870 (HFS04_24890) 87048..87866 - 819 WP_000646098 IncI1-type conjugal transfer lipoprotein TraI traI
HFS04_RS24875 (HFS04_24895) 87863..88321 - 459 WP_001079808 IncI1-type conjugal transfer lipoprotein TraH -
HFS04_RS24880 (HFS04_24900) 88716..89300 - 585 WP_000977522 histidine phosphatase family protein -
HFS04_RS24885 (HFS04_24905) 89360..90562 - 1203 WP_000976351 conjugal transfer protein TraF -
HFS04_RS24890 (HFS04_24910) 90647..91471 - 825 WP_001238939 conjugal transfer protein TraE traE
HFS04_RS24895 (HFS04_24915) 91622..92776 - 1155 WP_001139957 site-specific integrase -
HFS04_RS25280 92775..93059 + 285 WP_187642572 pilus assembly protein PilV -
HFS04_RS25410 94189..94413 + 225 Protein_105 hypothetical protein -
HFS04_RS24910 (HFS04_24925) 94410..95834 - 1425 WP_001389385 shufflon system plasmid conjugative transfer pilus tip adhesin PilV -
HFS04_RS24915 (HFS04_24930) 95834..96490 - 657 WP_001193553 prepilin peptidase -
HFS04_RS24920 (HFS04_24935) 96475..97035 - 561 WP_000014116 lytic transglycosylase domain-containing protein virB1
HFS04_RS24925 (HFS04_24940) 97045..97659 - 615 WP_000959785 type 4 pilus major pilin -
HFS04_RS24930 (HFS04_24945) 97677..98774 - 1098 WP_001208805 type II secretion system F family protein -
HFS04_RS24935 (HFS04_24950) 98787..100340 - 1554 WP_000362202 ATPase, T2SS/T4P/T4SS family virB11
HFS04_RS24940 (HFS04_24955) 100351..100803 - 453 WP_001247336 type IV pilus biogenesis protein PilP -
HFS04_RS24945 (HFS04_24960) 100790..102085 - 1296 WP_000752774 type 4b pilus protein PilO2 -
HFS04_RS24950 (HFS04_24965) 102078..103760 - 1683 WP_000748143 PilN family type IVB pilus formation outer membrane protein -
HFS04_RS24955 (HFS04_24970) 103774..104211 - 438 WP_000539807 type IV pilus biogenesis protein PilM -
HFS04_RS24960 (HFS04_24975) 104211..105278 - 1068 WP_000742600 type IV pilus biogenesis lipoprotein PilL -

Host bacterium

ID   5820 GenBank   NZ_CP051383
Plasmid name   p24359-2 Incompatibility group   IncI1
Plasmid size   112349 bp Coordinate of oriT [Strand]   56576..56662 [-]
Host baterium   Salmonella enterica subsp. enterica serovar Heidelberg strain CVM 24359

Cargo genes

Drug resistance gene   sul1, qacE, aac(3)-VIa, ant(3'')-Ia
Virulence gene   htpB
Metal resistance gene   merR, merT, merP, merA, merD, merE
Degradation gene   -
Symbiosis gene   -
Anti-CRISPR   -