Detailed information of oriT

oriT

The information of the oriT region


oriTDB ID   101335
Name   oriT_pS89 in_silico
Organism   Salmonella enterica subsp. enterica serovar Infantis strain S89
Sequence Completeness      -
NCBI accession of oriT (coordinates [strand])   NZ_JAKNRB010000002 (230831..230919 [+], 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_pS89
GGGGTGTCGGGGCGAAGCCCTGACCAGATGGCAATTGTAATAGCGTCGCGTGTGACGGTATTACAATTGCACATCCTGTCCCGTTTTTC

Visualization of oriT structure

  oriT secondary structure

Predicted by RNAfold.

Download structure file


Relaxase

ID   1250 GenBank   WP_001299212
Name   nikB_MBG43_RS22845_pS89 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   438 GenBank   WP_001283947
Name   WP_001283947_pS89 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   857 GenBank   WP_001289276
Name   trbC_MBG43_RS22840_pS89 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: 189311..225453

Locus tag Coordinates Strand Size (bp) Protein ID Product Description
MBG43_RS22635 (MBG43_22635) 184373..185440 + 1068 WP_001360287 type IV pilus biogenesis lipoprotein PilL -
MBG43_RS22640 (MBG43_22640) 185440..185877 + 438 WP_000539807 type IV pilus biogenesis protein PilM -
MBG43_RS22645 (MBG43_22645) 185891..187573 + 1683 WP_000748143 PilN family type IVB pilus formation outer membrane protein -
MBG43_RS22650 (MBG43_22650) 187566..188861 + 1296 WP_001545757 type 4b pilus protein PilO2 -
MBG43_RS22655 (MBG43_22655) 188848..189300 + 453 WP_001247331 type IV pilus biogenesis protein PilP -
MBG43_RS22660 (MBG43_22660) 189311..190864 + 1554 WP_000362206 ATPase, T2SS/T4P/T4SS family virB11
MBG43_RS22665 (MBG43_22665) 190877..191962 + 1086 WP_001208802 type II secretion system F family protein -
MBG43_RS22670 (MBG43_22670) 191979..192593 + 615 WP_000908226 type 4 pilus major pilin -
MBG43_RS22675 (MBG43_22675) 192603..193163 + 561 WP_000014005 lytic transglycosylase domain-containing protein virB1
MBG43_RS22680 (MBG43_22680) 193148..193804 + 657 WP_001193549 A24 family peptidase -
MBG43_RS22685 (MBG43_22685) 193804..195096 + 1293 WP_001350014 shufflon system plasmid conjugative transfer pilus tip adhesin PilV -
MBG43_RS22690 (MBG43_22690) 195152..195277 - 126 Protein_182 transposase -
MBG43_RS22695 (MBG43_22695) 195485..196309 + 825 WP_001238942 conjugal transfer protein TraE traE
MBG43_RS22700 (MBG43_22700) 196395..197597 + 1203 WP_000976348 conjugal transfer protein TraF -
MBG43_RS22705 (MBG43_22705) 197657..198241 + 585 WP_000977522 histidine phosphatase family protein -
MBG43_RS22710 (MBG43_22710) 198636..199094 + 459 WP_001079808 IncI1-type conjugal transfer lipoprotein TraH -
MBG43_RS22715 (MBG43_22715) 199091..199909 + 819 WP_000646097 IncI1-type conjugal transfer lipoprotein TraI traI
MBG43_RS22720 (MBG43_22720) 199906..201054 + 1149 WP_001024972 plasmid transfer ATPase TraJ virB11
MBG43_RS22725 (MBG43_22725) 201051..201341 + 291 WP_001299214 hypothetical protein traK
MBG43_RS22730 (MBG43_22730) 201356..201907 + 552 WP_000014584 phospholipase D family protein -
MBG43_RS22735 (MBG43_22735) 201997..205764 + 3768 WP_001141542 LPD7 domain-containing protein -
MBG43_RS22740 (MBG43_22740) 205782..206129 + 348 WP_001055900 conjugal transfer protein traL
MBG43_RS22745 (MBG43_22745) 206126..206818 + 693 WP_000138552 DotI/IcmL family type IV secretion protein traM
MBG43_RS22750 (MBG43_22750) 206829..207812 + 984 WP_001191878 IncI1-type conjugal transfer protein TraN traN
MBG43_RS22755 (MBG43_22755) 207815..209104 + 1290 WP_001271997 conjugal transfer protein TraO traO
MBG43_RS22760 (MBG43_22760) 209104..209808 + 705 WP_000801920 IncI1-type conjugal transfer protein TraP traP
MBG43_RS22765 (MBG43_22765) 209808..210335 + 528 WP_001055569 conjugal transfer protein TraQ traQ
MBG43_RS22770 (MBG43_22770) 210386..210790 + 405 WP_000086961 IncI1-type conjugal transfer protein TraR traR
MBG43_RS22775 (MBG43_22775) 210854..211042 + 189 WP_001277255 putative conjugal transfer protein TraS -
MBG43_RS22780 (MBG43_22780) 211026..211826 + 801 WP_001164788 IncI1-type conjugal transfer protein TraT traT
MBG43_RS22785 (MBG43_22785) 211916..214960 + 3045 WP_001024780 IncI1-type conjugal transfer protein TraU traU
MBG43_RS22790 (MBG43_22790) 214960..215574 + 615 WP_000337400 IncI1-type conjugal transfer protein TraV traV
MBG43_RS22795 (MBG43_22795) 215541..216743 + 1203 WP_001189156 IncI1-type conjugal transfer protein TraW traW
MBG43_RS22800 (MBG43_22800) 216772..217356 + 585 WP_001037987 IncI1-type conjugal transfer protein TraX -
MBG43_RS22805 (MBG43_22805) 217453..219621 + 2169 WP_000698357 DotA/TraY family protein traY
MBG43_RS22810 (MBG43_22810) 219695..220345 + 651 WP_001178506 plasmid IncI1-type surface exclusion protein ExcA -
MBG43_RS22815 (MBG43_22815) 220417..220626 - 210 WP_000062603 HEAT repeat domain-containing protein -
MBG43_RS22820 (MBG43_22820) 221018..221194 + 177 WP_001054904 hypothetical protein -
MBG43_RS24095 221259..221354 - 96 WP_001303310 DinQ-like type I toxin DqlB -
MBG43_RS22825 (MBG43_22825) 221986..222894 + 909 WP_000055084 hypothetical protein -
MBG43_RS22830 (MBG43_22830) 223156..224364 + 1209 WP_000121273 IncI1-type conjugal transfer protein TrbA trbA
MBG43_RS22835 (MBG43_22835) 224383..225453 + 1071 WP_000151577 IncI1-type conjugal transfer protein TrbB trbB
MBG43_RS22840 (MBG43_22840) 225446..227737 + 2292 WP_001289276 F-type conjugative transfer protein TrbC -

Host bacterium

ID   1779 GenBank   NZ_JAKNRB010000002
Plasmid name   pS89 Incompatibility group   IncFIB
Plasmid size   278560 bp Coordinate of oriT [Strand]   230831..230919 [+]
Host baterium   Salmonella enterica subsp. enterica serovar Infantis strain S89

Cargo genes

Drug resistance gene   ant(3'')-Ia, qacE, sul1, tet(A)
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   -