Detailed information of oriT

oriT

The information of the oriT region


oriTDB ID   108826
Name   oriT_PS_Mu_6_2021|pESI in_silico
Organism   Salmonella enterica subsp. enterica serovar Muenchen strain PS_Mu_6_2021
Sequence Completeness      -
NCBI accession of oriT (coordinates [strand])   NZ_CP120338 (230842..230930 [+], 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_6_2021|pESI
GGGGTGTCGGGGCGAAGCCCTGACCAGATGGCAATTGTAATAGCGTCGCGTGTGACGGTATTACAATTGCACATCCTGTCCCGTTTTTC

Visualization of oriT structure

  oriT secondary structure

Predicted by RNAfold.

Download structure file


Relaxase

ID   5913 GenBank   WP_001299212
Name   nikB_P1833_RS24900_PS_Mu_6_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   2933 GenBank   WP_001283947
Name   WP_001283947_PS_Mu_6_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   6365 GenBank   WP_001289276
Name   trbC_P1833_RS24895_PS_Mu_6_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: 189322..225464

Locus tag Coordinates Strand Size (bp) Protein ID Product Description
P1833_RS24685 (P1833_24685) 184385..185452 + 1068 WP_001360287 type IV pilus biogenesis lipoprotein PilL -
P1833_RS24690 (P1833_24690) 185452..185889 + 438 WP_000539807 type IV pilus biogenesis protein PilM -
P1833_RS24695 (P1833_24695) 185903..187584 + 1682 Protein_177 PilN family type IVB pilus formation outer membrane protein -
P1833_RS24700 (P1833_24700) 187577..188872 + 1296 WP_001545757 type 4b pilus protein PilO2 -
P1833_RS24705 (P1833_24705) 188859..189311 + 453 WP_001247331 type IV pilus biogenesis protein PilP -
P1833_RS24710 (P1833_24710) 189322..190875 + 1554 WP_000362206 ATPase, T2SS/T4P/T4SS family virB11
P1833_RS24715 (P1833_24715) 190888..191973 + 1086 WP_001208802 type II secretion system F family protein -
P1833_RS24720 (P1833_24720) 191990..192604 + 615 WP_000908226 type 4 pilus major pilin -
P1833_RS24725 (P1833_24725) 192614..193174 + 561 WP_000014005 lytic transglycosylase domain-containing protein virB1
P1833_RS24730 (P1833_24730) 193159..193815 + 657 WP_001193549 A24 family peptidase -
P1833_RS24735 (P1833_24735) 193815..195107 + 1293 WP_001350014 shufflon system plasmid conjugative transfer pilus tip adhesin PilV -
P1833_RS24740 (P1833_24740) 195163..195288 - 126 Protein_186 RNA-guided endonuclease TnpB family protein -
P1833_RS24745 (P1833_24745) 195496..196320 + 825 WP_001238942 conjugal transfer protein TraE traE
P1833_RS24750 (P1833_24750) 196406..197608 + 1203 WP_000976348 conjugal transfer protein TraF -
P1833_RS24755 (P1833_24755) 197668..198252 + 585 WP_000977522 histidine phosphatase family protein -
P1833_RS24760 (P1833_24760) 198647..199105 + 459 WP_001079808 IncI1-type conjugal transfer lipoprotein TraH -
P1833_RS24765 (P1833_24765) 199102..199920 + 819 WP_000646097 IncI1-type conjugal transfer lipoprotein TraI traI
P1833_RS24770 (P1833_24770) 199917..201065 + 1149 WP_001024972 plasmid transfer ATPase TraJ virB11
P1833_RS24775 (P1833_24775) 201062..201352 + 291 WP_001299214 hypothetical protein traK
P1833_RS24780 (P1833_24780) 201367..201918 + 552 WP_000014584 phospholipase D family protein -
P1833_RS24785 (P1833_24785) 202008..205775 + 3768 WP_001141542 LPD7 domain-containing protein -
P1833_RS24790 (P1833_24790) 205793..206140 + 348 WP_001055900 conjugal transfer protein traL
P1833_RS24795 (P1833_24795) 206137..206829 + 693 WP_000138552 DotI/IcmL family type IV secretion protein -
P1833_RS24800 (P1833_24800) 206840..207823 + 984 WP_001191878 IncI1-type conjugal transfer protein TraN traN
P1833_RS24805 (P1833_24805) 207826..209115 + 1290 WP_001271997 conjugal transfer protein TraO traO
P1833_RS24810 (P1833_24810) 209115..209819 + 705 WP_000801920 IncI1-type conjugal transfer protein TraP traP
P1833_RS24815 (P1833_24815) 209819..210346 + 528 WP_001055569 conjugal transfer protein TraQ traQ
P1833_RS24820 (P1833_24820) 210397..210801 + 405 WP_000086961 IncI1-type conjugal transfer protein TraR traR
P1833_RS24825 (P1833_24825) 210865..211053 + 189 WP_001277255 putative conjugal transfer protein TraS -
P1833_RS24830 (P1833_24830) 211037..211837 + 801 WP_001164788 IncI1-type conjugal transfer protein TraT traT
P1833_RS24835 (P1833_24835) 211927..214971 + 3045 WP_001024780 IncI1-type conjugal transfer protein TraU traU
P1833_RS24840 (P1833_24840) 214971..215585 + 615 WP_000337400 IncI1-type conjugal transfer protein TraV traV
P1833_RS24845 (P1833_24845) 215552..216754 + 1203 WP_001189156 IncI1-type conjugal transfer protein TraW traW
P1833_RS24850 (P1833_24850) 216783..217367 + 585 WP_001037987 IncI1-type conjugal transfer protein TraX -
P1833_RS24855 (P1833_24855) 217464..219632 + 2169 WP_000698357 DotA/TraY family protein traY
P1833_RS24860 (P1833_24860) 219706..220356 + 651 WP_001178506 plasmid IncI1-type surface exclusion protein ExcA -
P1833_RS24865 (P1833_24865) 220428..220637 - 210 WP_000062603 HEAT repeat domain-containing protein -
P1833_RS24870 (P1833_24870) 221029..221205 + 177 WP_001054904 hypothetical protein -
P1833_RS24875 (P1833_24875) 221270..221365 - 96 WP_001303310 DinQ-like type I toxin DqlB -
P1833_RS24880 (P1833_24880) 221997..222905 + 909 WP_000055084 hypothetical protein -
P1833_RS24885 (P1833_24885) 223167..224375 + 1209 WP_000121273 IncI1-type conjugal transfer protein TrbA trbA
P1833_RS24890 (P1833_24890) 224394..225464 + 1071 WP_000151577 IncI1-type conjugal transfer protein TrbB trbB
P1833_RS24895 (P1833_24895) 225457..227748 + 2292 WP_001289276 F-type conjugative transfer protein TrbC -

Host bacterium

ID   9261 GenBank   NZ_CP120338
Plasmid name   PS_Mu_6_2021|pESI Incompatibility group   IncFIB
Plasmid size   285085 bp Coordinate of oriT [Strand]   230842..230930 [+]
Host baterium   Salmonella enterica subsp. enterica serovar Muenchen strain PS_Mu_6_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   -