Detailed information of oriT

oriT

The information of the oriT region


oriTDB ID   108832
Name   oriT_PS_Mu_5_2021|pESI in_silico
Organism   Salmonella enterica subsp. enterica serovar Muenchen strain PS_Mu_5_2021
Sequence Completeness      -
NCBI accession of oriT (coordinates [strand])   NZ_CP120340 (230838..230926 [+], 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_PS_Mu_5_2021|pESI
GGGGTGTCGGGGCGAAGCCCTGACCAGATGGCAATTGTAATAGCGTCGCGTGTGACGGTATTACAATTGCACATCCTGTCCCGTTTTTC

Visualization of oriT structure

  oriT secondary structure

Predicted by RNAfold.

Download structure file


Relaxase

ID   5919 GenBank   WP_001299212
Name   nikB_P1826_RS24850_PS_Mu_5_2021|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   2939 GenBank   WP_001283947
Name   WP_001283947_PS_Mu_5_2021|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   6371 GenBank   WP_001289276
Name   trbC_P1826_RS24845_PS_Mu_5_2021|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: 189317..225460

Locus tag Coordinates Strand Size (bp) Protein ID Product Description
P1826_RS24635 (P1826_24635) 184379..185446 + 1068 WP_001360287 type IV pilus biogenesis lipoprotein PilL -
P1826_RS24640 (P1826_24640) 185446..185883 + 438 WP_000539807 type IV pilus biogenesis protein PilM -
P1826_RS24645 (P1826_24645) 185897..187579 + 1683 WP_000748143 PilN family type IVB pilus formation outer membrane protein -
P1826_RS24650 (P1826_24650) 187572..188867 + 1296 WP_001545757 type 4b pilus protein PilO2 -
P1826_RS24655 (P1826_24655) 188854..189306 + 453 WP_001247331 type IV pilus biogenesis protein PilP -
P1826_RS24660 (P1826_24660) 189317..190870 + 1554 WP_000362206 ATPase, T2SS/T4P/T4SS family virB11
P1826_RS24665 (P1826_24665) 190883..191968 + 1086 WP_001208802 type II secretion system F family protein -
P1826_RS24670 (P1826_24670) 191985..192599 + 615 WP_000908226 type 4 pilus major pilin -
P1826_RS24675 (P1826_24675) 192609..193169 + 561 WP_000014005 lytic transglycosylase domain-containing protein virB1
P1826_RS24680 (P1826_24680) 193154..193810 + 657 WP_001193549 A24 family peptidase -
P1826_RS24685 (P1826_24685) 193810..195102 + 1293 WP_001350014 shufflon system plasmid conjugative transfer pilus tip adhesin PilV -
P1826_RS24690 (P1826_24690) 195158..195283 - 126 Protein_183 RNA-guided endonuclease TnpB family protein -
P1826_RS24695 (P1826_24695) 195491..196315 + 825 WP_001238942 conjugal transfer protein TraE traE
P1826_RS24700 (P1826_24700) 196401..197603 + 1203 WP_000976348 conjugal transfer protein TraF -
P1826_RS24705 (P1826_24705) 197663..198247 + 585 WP_000977522 histidine phosphatase family protein -
P1826_RS24710 (P1826_24710) 198642..199100 + 459 WP_001079808 IncI1-type conjugal transfer lipoprotein TraH -
P1826_RS24715 (P1826_24715) 199097..199915 + 819 WP_000646097 IncI1-type conjugal transfer lipoprotein TraI traI
P1826_RS24720 (P1826_24720) 199912..201060 + 1149 WP_001024972 plasmid transfer ATPase TraJ virB11
P1826_RS24725 (P1826_24725) 201057..201347 + 291 WP_001299214 hypothetical protein traK
P1826_RS24730 (P1826_24730) 201362..201913 + 552 WP_000014584 phospholipase D family protein -
P1826_RS24735 (P1826_24735) 202003..205770 + 3768 WP_001141542 LPD7 domain-containing protein -
P1826_RS24740 (P1826_24740) 205788..206135 + 348 WP_001055900 conjugal transfer protein traL
P1826_RS24745 (P1826_24745) 206132..206824 + 693 WP_000138552 DotI/IcmL family type IV secretion protein traM
P1826_RS24750 (P1826_24750) 206835..207819 + 985 Protein_195 IncI1-type conjugal transfer protein TraN -
P1826_RS24755 (P1826_24755) 207822..209111 + 1290 WP_001271997 conjugal transfer protein TraO traO
P1826_RS24760 (P1826_24760) 209111..209815 + 705 WP_000801920 IncI1-type conjugal transfer protein TraP traP
P1826_RS24765 (P1826_24765) 209815..210342 + 528 WP_001055569 conjugal transfer protein TraQ traQ
P1826_RS24770 (P1826_24770) 210393..210797 + 405 WP_000086961 IncI1-type conjugal transfer protein TraR traR
P1826_RS24775 (P1826_24775) 210861..211049 + 189 WP_001277255 putative conjugal transfer protein TraS -
P1826_RS24780 (P1826_24780) 211033..211833 + 801 WP_001164788 IncI1-type conjugal transfer protein TraT traT
P1826_RS24785 (P1826_24785) 211923..214967 + 3045 WP_001024780 IncI1-type conjugal transfer protein TraU traU
P1826_RS24790 (P1826_24790) 214967..215581 + 615 WP_000337400 IncI1-type conjugal transfer protein TraV traV
P1826_RS24795 (P1826_24795) 215548..216750 + 1203 WP_001189156 IncI1-type conjugal transfer protein TraW traW
P1826_RS24800 (P1826_24800) 216779..217363 + 585 WP_001037987 IncI1-type conjugal transfer protein TraX -
P1826_RS24805 (P1826_24805) 217460..219628 + 2169 WP_000698357 DotA/TraY family protein traY
P1826_RS24810 (P1826_24810) 219702..220352 + 651 WP_001178506 plasmid IncI1-type surface exclusion protein ExcA -
P1826_RS24815 (P1826_24815) 220424..220633 - 210 WP_000062603 HEAT repeat domain-containing protein -
P1826_RS24820 (P1826_24820) 221025..221201 + 177 WP_001054904 hypothetical protein -
P1826_RS24825 (P1826_24825) 221266..221361 - 96 WP_001303310 DinQ-like type I toxin DqlB -
P1826_RS24830 (P1826_24830) 221993..222901 + 909 WP_000055084 hypothetical protein -
P1826_RS24835 (P1826_24835) 223163..224371 + 1209 WP_000121273 IncI1-type conjugal transfer protein TrbA trbA
P1826_RS24840 (P1826_24840) 224390..225460 + 1071 WP_000151577 IncI1-type conjugal transfer protein TrbB trbB
P1826_RS24845 (P1826_24845) 225453..227744 + 2292 WP_001289276 F-type conjugative transfer protein TrbC -

Host bacterium

ID   9267 GenBank   NZ_CP120340
Plasmid name   PS_Mu_5_2021|pESI Incompatibility group   IncFIB
Plasmid size   285079 bp Coordinate of oriT [Strand]   230838..230926 [+]
Host baterium   Salmonella enterica subsp. enterica serovar Muenchen strain PS_Mu_5_2021

Cargo genes

Drug resistance gene   ant(3'')-Ia, qacE, sul1, tet(A), dfrA14
Virulence gene   -
Metal resistance gene   merE, merD, merA, merP, merT, merR
Degradation gene   -
Symbiosis gene   -
Anti-CRISPR   -