Detailed information of oriT

oriT

The information of the oriT region


oriTDB ID   104976
Name   oriT_pESI in_silico
Organism   Salmonella enterica subsp. enterica serovar Infantis strain 119944
Sequence Completeness      -
NCBI accession of oriT (coordinates [strand])   NZ_CP047882 (230843..230931 [+], 89 nt)
oriT length   89 nt
IRs (inverted repeats)     _
Location of nic site      _
Conserved sequence flanking the
  nic site    		  _
Note   Predicted by oriTfinder 2.0

  oriT sequence  


Download         Length: 89 nt

>oriT_pESI
GGGGTGTCGGGGCGAAGCCCTGACCAGATGGCAATTGTAATAGCGTCGCGTGTGACGGTATTACAATTGCACATCCTGTCCCGTTTTTC

Visualization of oriT structure

  oriT secondary structure

Predicted by RNAfold.

Download structure file


Relaxase

ID   3495 GenBank   WP_001299212
Name   nikB_GVI52_RS23865_pESI insolico UniProt ID   A0A5T4AK12
Length   899 a.a. PDB ID   
Note   Predicted by oriTfinder 2.0

  Relaxase protein sequence


Download         Length: 899 a.a.        Molecular weight: 103956.40 Da        Isoelectric Point: 7.2642

>WP_001299212.1 MULTISPECIES: IncI1-type relaxase NikB [Enterobacteriaceae]
MNAVIPKKRRDGKSSFEDLVSYVSVRDDMTDEELDLSSSSQAEQPHRSRFSRLVDYATRLRNESFVALVD
VMKDGCEWINFYGVTCFHNCTSLETAAADMEYIALQAHYAKDDTDPVFHYILSWQSHESPRPEQIYDSVR
HTLKSLGLADHQYVSAVHTDTDNLHVHVAVNRVHPETGYLNRLSWSQEKLSRACRELELKHGFAPDNGCW
VHAPGNRIVRKTAVERDRQNAWTRGKKQTFREYVAQTAVAGLRSEPVSDWLSLHRRLAEDGLYLSQMDGK
YLVMDGWDRNREGVQLDSFGPSWCAEKLMKKMGDYTPVPKDIFSQVEAPGRYNPDFIAADVRPEKIAETE
SLQQYACRHLGERLPEMAREGRLENCQAIHRTLAEAGLWMRVQHGHLVICDGYDHNQTPVRADSVWSLLT
LDNVNQLDGGWLPVPTDIFRQVTPTERFRGRRMESCPATDKEWHRMRTGTGPQGAIKRELFSDKESLWGY
SISHCSPQIEEMITQGEFTWQRCHELFAQQGLMLQKQHHGLVVVDAFNHEQTPVKASSIHPDLTLGRAEP
QAGPFVSAPADLFDRVQPESRYNPELAVSDRYGVSSKRDPMLRRQRREARAEARADLRARYLAWREQWRK
PDLRYGERCREIHQACRLRKSHIRAQYDDPALRKLHYHIAEVQRMQALIRLKEDIRDERQKLIADGKWYP
PSYRQWVEIQAAQGDRAAVSQLRGWDYRDRRKDRSRTTTTDRCVVLCEPGGTPVYGNTGDLEARLQKNGS
VRFRDRRTGEFVCTDYGDRVVFRNHHDRNALADKLDLIAPVLFGRDPRMGFEPEGNDKQFNQVFAEMVAW
HNVTGRTGHEDYRITRPDVDHHREGSERYYRDYIAANSNDDASLPPPEQDKRWEPPSPG

  Protein domains


Predicted by InterproScan.

Relaxase/Mobilisation nuclease domain (Relaxase)

(62-314)


  Protein structure


Source ID Structure
AlphaFold DB A0A5T4AK12


Auxiliary protein

ID   579 GenBank   WP_001283947
Name   WP_001283947_pESI insolico UniProt ID   A0A142CMC2
Length   110 a.a. PDB ID   _
Note   Predicted by oriTfinder 2.0

  Auxiliary protein sequence


Download         Length: 110 a.a.        Molecular weight: 12613.57 Da        Isoelectric Point: 10.7463

>WP_001283947.1 MULTISPECIES: IncI1-type relaxosome accessory protein NikA [Enterobacteriaceae]
MSDSAVRKKSEVRQKTVVRTLRFSPVEDETIRKKAEDSGLTVSAYIRNAALNKRINSRTDDAFLKELMRL
GRMQKHLFVQGKRTGDKEYAEVLVAITELTNTLRKQLMEG

  Protein domains



No domain identified.



  Protein structure


Source ID Structure
AlphaFold DB A0A142CMC2


T4CP

ID   3445 GenBank   WP_001289276
Name   trbC_GVI52_RS23860_pESI 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: 189323..225465

Locus tag Coordinates Strand Size (bp) Protein ID Product Description
GVI52_RS23660 (GVI52_23715) 184385..185452 + 1068 WP_001360287 type IV pilus biogenesis lipoprotein PilL -
GVI52_RS23665 (GVI52_23720) 185452..185889 + 438 WP_000539807 type IV pilus biogenesis protein PilM -
GVI52_RS23670 (GVI52_23725) 185903..187585 + 1683 WP_000748143 PilN family type IVB pilus formation outer membrane protein -
GVI52_RS23675 (GVI52_23730) 187578..188873 + 1296 WP_001545757 type 4b pilus protein PilO2 -
GVI52_RS23680 (GVI52_23735) 188860..189312 + 453 WP_001247331 type IV pilus biogenesis protein PilP -
GVI52_RS23685 (GVI52_23740) 189323..190876 + 1554 WP_000362206 ATPase, T2SS/T4P/T4SS family virB11
GVI52_RS23690 (GVI52_23745) 190889..191974 + 1086 WP_001208802 type II secretion system F family protein -
GVI52_RS23695 (GVI52_23750) 191991..192605 + 615 WP_000908226 type 4 pilus major pilin -
GVI52_RS23700 (GVI52_23755) 192615..193175 + 561 WP_000014005 lytic transglycosylase domain-containing protein virB1
GVI52_RS23705 (GVI52_23760) 193160..193816 + 657 WP_001193549 A24 family peptidase -
GVI52_RS23710 (GVI52_23765) 193816..195108 + 1293 WP_001350014 shufflon system plasmid conjugative transfer pilus tip adhesin PilV -
GVI52_RS23715 (GVI52_23770) 195164..195289 - 126 Protein_182 RNA-guided endonuclease TnpB family protein -
GVI52_RS23720 (GVI52_23775) 195497..196321 + 825 WP_001238942 conjugal transfer protein TraE traE
GVI52_RS23725 (GVI52_23780) 196407..197609 + 1203 WP_000976348 conjugal transfer protein TraF -
GVI52_RS23730 (GVI52_23785) 197669..198253 + 585 WP_000977522 histidine phosphatase family protein -
GVI52_RS23735 (GVI52_23790) 198648..199106 + 459 WP_001079808 IncI1-type conjugal transfer lipoprotein TraH -
GVI52_RS23740 (GVI52_23795) 199103..199921 + 819 WP_000646097 IncI1-type conjugal transfer lipoprotein TraI traI
GVI52_RS23745 (GVI52_23800) 199918..201066 + 1149 WP_001024972 plasmid transfer ATPase TraJ virB11
GVI52_RS23750 (GVI52_23805) 201063..201353 + 291 WP_001299214 hypothetical protein traK
GVI52_RS23755 (GVI52_23810) 201368..201919 + 552 WP_000014584 phospholipase D family protein -
GVI52_RS23760 (GVI52_23815) 202009..205776 + 3768 WP_001141542 LPD7 domain-containing protein -
GVI52_RS23765 (GVI52_23820) 205794..206141 + 348 WP_001055900 conjugal transfer protein traL
GVI52_RS23770 (GVI52_23825) 206138..206830 + 693 WP_000138552 DotI/IcmL family type IV secretion protein traM
GVI52_RS23775 (GVI52_23830) 206841..207824 + 984 WP_001191878 IncI1-type conjugal transfer protein TraN traN
GVI52_RS23780 (GVI52_23835) 207827..209116 + 1290 WP_001271997 conjugal transfer protein TraO traO
GVI52_RS23785 (GVI52_23840) 209116..209820 + 705 WP_000801920 IncI1-type conjugal transfer protein TraP traP
GVI52_RS23790 (GVI52_23845) 209820..210347 + 528 WP_001055569 conjugal transfer protein TraQ traQ
GVI52_RS23795 (GVI52_23850) 210398..210802 + 405 WP_000086961 IncI1-type conjugal transfer protein TraR traR
GVI52_RS23800 (GVI52_23855) 210866..211054 + 189 WP_001277255 putative conjugal transfer protein TraS -
GVI52_RS23805 (GVI52_23860) 211038..211838 + 801 WP_001164788 IncI1-type conjugal transfer protein TraT traT
GVI52_RS23810 (GVI52_23865) 211928..214972 + 3045 WP_001024780 IncI1-type conjugal transfer protein TraU traU
GVI52_RS23815 (GVI52_23870) 214972..215586 + 615 WP_000337400 IncI1-type conjugal transfer protein TraV traV
GVI52_RS23820 (GVI52_23875) 215553..216755 + 1203 WP_001189156 IncI1-type conjugal transfer protein TraW traW
GVI52_RS23825 (GVI52_23880) 216784..217368 + 585 WP_001037987 IncI1-type conjugal transfer protein TraX -
GVI52_RS23830 (GVI52_23885) 217465..219633 + 2169 WP_000698357 DotA/TraY family protein traY
GVI52_RS23835 (GVI52_23890) 219707..220357 + 651 WP_001178506 plasmid IncI1-type surface exclusion protein ExcA -
GVI52_RS23840 (GVI52_23895) 220429..220638 - 210 WP_000062603 HEAT repeat domain-containing protein -
GVI52_RS24295 221030..221206 + 177 WP_001054904 hypothetical protein -
GVI52_RS24670 221271..221366 - 96 WP_001303310 DinQ-like type I toxin DqlB -
GVI52_RS23845 (GVI52_23900) 221998..222906 + 909 WP_000055084 hypothetical protein -
GVI52_RS23850 (GVI52_23905) 223168..224376 + 1209 WP_000121273 IncI1-type conjugal transfer protein TrbA trbA
GVI52_RS23855 (GVI52_23910) 224395..225465 + 1071 WP_000151577 IncI1-type conjugal transfer protein TrbB trbB
GVI52_RS23860 (GVI52_23915) 225458..227749 + 2292 WP_001289276 F-type conjugative transfer protein TrbC -

Host bacterium

ID   5414 GenBank   NZ_CP047882
Plasmid name   pESI Incompatibility group   IncFIB
Plasmid size   285081 bp Coordinate of oriT [Strand]   230843..230931 [+]
Host baterium   Salmonella enterica subsp. enterica serovar Infantis strain 119944

Cargo genes

Drug resistance gene   ant(3'')-Ia, qacE, sul1, tet(A), dfrA14
Virulence gene   faeC, faeD, faeE, faeF, faeH, faeI, fyuA, ybtE, ybtT, ybtU, irp1, irp2, ybtA, ybtP, ybtQ, ybtX, ybtS
Metal resistance gene   merE, merD, merA, merP, merT, merR
Degradation gene   -
Symbiosis gene   -
Anti-CRISPR   -