Detailed information of oriT

oriT

The information of the oriT region


oriTDB ID   106604
Name   oriT_pST3606-1 in_silico
Organism   Salmonella enterica subsp. enterica strain 3018683606
Sequence Completeness      -
NCBI accession of oriT (coordinates [strand])   NZ_CP094333 (42275..42363 [+], 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_pST3606-1
GGGGTGTCGGGGCGAAGCCCTGACCAGATGGTAATTGTAATAGCGTCGCGTGTGACGGTATTACAATTACACATCCTGTCCCGTTTTTC

Visualization of oriT structure

  oriT secondary structure

Predicted by RNAfold.

Download structure file


Relaxase

ID   4384 GenBank   WP_001405892
Name   nikB_MQF88_RS24645_pST3606-1 insolico UniProt ID   A0A3V4WX06
Length   899 a.a. PDB ID   
Note   Predicted by oriTfinder 2.0

  Relaxase protein sequence


Download         Length: 899 a.a.        Molecular weight: 103883.32 Da        Isoelectric Point: 7.3373

>WP_001405892.1 MULTISPECIES: IncI1-type relaxase NikB [Enterobacteriaceae]
MNAVIPKKRRDGKSSFEDLVSYVSVRDDMTDEELDLSSSSQAEQPHRSRFSRLVDYATRLRNESFVALVD
VMKDGCEWVNFYGVTCFHNCTSLETAAADMEYIAQQAHYAKDNTDPVFHYILSWQAHESPRPEQIYDSVR
HTLKSLGLGEHQYVSAVHTDTDNLHVHVAVNRVHPVTGYLNCLSWSQEKLSRACRELELKHGFAPDNGCW
VHAPGNRIVRKTAVERDRQNAWTRGKKQTFREYVAQTAVAGLRSEPVNDWLSLHRRLAEDGLYLSQMDGK
FLVMDGWDRNREGVQLDSFGPSWCAEKLMKKMGDYTPVPKDIFSQVEAPGRYNPDFIAADVRPEKIAETE
SLQQYACRHLGERLPEMAREGRLENCQAIHRTLAEAGLWMRVQHGHLVICDGYDHNQTPVRADSVWSLLT
LDNVNQLDGGWQPVPTDIFRQVTPTERFRGRRMESCPATDKEWHRMRTGTGPQGAIKRELFSDKESLWGY
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 A0A3V4WX06


Auxiliary protein

ID   1951 GenBank   WP_001283947
Name   WP_001283947_pST3606-1 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   4417 GenBank   WP_001289276
Name   trbC_MQF88_RS24640_pST3606-1 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: 912..36897

Locus tag Coordinates Strand Size (bp) Protein ID Product Description
MQF88_RS24455 (MQF88_24465) 288..902 + 615 WP_000959786 type 4 pilus major pilin -
MQF88_RS24460 (MQF88_24470) 912..1472 + 561 WP_000014116 lytic transglycosylase domain-containing protein virB1
MQF88_RS24465 (MQF88_24475) 1457..2113 + 657 WP_001193553 prepilin peptidase -
MQF88_RS24470 (MQF88_24480) 2113..3405 + 1293 WP_001417545 shufflon system plasmid conjugative transfer pilus tip adhesin PilV -
MQF88_RS24475 (MQF88_24485) 4670..5824 + 1155 WP_001139958 site-specific integrase -
MQF88_RS24480 (MQF88_24490) 5975..6799 + 825 WP_001238929 conjugal transfer protein TraE traE
MQF88_RS24485 (MQF88_24495) 6885..8087 + 1203 WP_000976353 conjugal transfer protein TraF -
MQF88_RS24490 (MQF88_24500) 8147..8731 + 585 WP_000977522 histidine phosphatase family protein -
MQF88_RS24495 (MQF88_24505) 9126..9584 + 459 WP_001079808 IncI1-type conjugal transfer lipoprotein TraH -
MQF88_RS24500 (MQF88_24510) 9581..10399 + 819 WP_000646097 IncI1-type conjugal transfer lipoprotein TraI traI
MQF88_RS24505 (MQF88_24515) 10396..11544 + 1149 WP_001024972 plasmid transfer ATPase TraJ virB11
MQF88_RS24510 (MQF88_24520) 11541..11831 + 291 WP_001372180 hypothetical protein traK
MQF88_RS24515 (MQF88_24525) 11846..12397 + 552 WP_000014584 phospholipase D family protein -
MQF88_RS24520 (MQF88_24530) 12487..16254 + 3768 WP_001579768 LPD7 domain-containing protein -
MQF88_RS24525 (MQF88_24535) 16272..16619 + 348 WP_001055900 conjugal transfer protein traL
MQF88_RS24530 (MQF88_24540) 16616..17308 + 693 WP_000138552 DotI/IcmL family type IV secretion protein traM
MQF88_RS24535 (MQF88_24545) 17319..18302 + 984 WP_001191878 IncI1-type conjugal transfer protein TraN traN
MQF88_RS24540 (MQF88_24550) 18305..19594 + 1290 WP_063074922 conjugal transfer protein TraO traO
MQF88_RS24545 (MQF88_24555) 19594..20298 + 705 WP_000801920 IncI1-type conjugal transfer protein TraP traP
MQF88_RS24550 (MQF88_24560) 20298..20825 + 528 WP_001055569 conjugal transfer protein TraQ traQ
MQF88_RS24555 (MQF88_24565) 20876..21280 + 405 WP_000086960 IncI1-type conjugal transfer protein TraR traR
MQF88_RS24560 (MQF88_24570) 21344..21532 + 189 WP_001277255 putative conjugal transfer protein TraS -
MQF88_RS24565 (MQF88_24575) 21516..22316 + 801 WP_001164788 IncI1-type conjugal transfer protein TraT traT
MQF88_RS24570 (MQF88_24580) 22406..25450 + 3045 WP_001024752 IncI1-type conjugal transfer protein TraU traU
MQF88_RS24575 (MQF88_24585) 25450..26064 + 615 WP_000337394 IncI1-type conjugal transfer protein TraV traV
MQF88_RS24580 (MQF88_24590) 26031..27233 + 1203 WP_001189159 IncI1-type conjugal transfer protein TraW traW
MQF88_RS24585 (MQF88_24595) 27262..27846 + 585 WP_001579774 IncI1-type conjugal transfer protein TraX -
MQF88_RS24590 (MQF88_24600) 27943..30110 + 2168 Protein_28 IncI1-type conjugal transfer membrane protein TraY -
MQF88_RS24595 (MQF88_24605) 30186..30799 + 614 Protein_29 plasmid IncI1-type surface exclusion protein ExcA -
MQF88_RS24600 (MQF88_24610) 30897..31106 + 210 WP_001140545 hemolysin expression modulator Hha -
MQF88_RS24605 (MQF88_24615) 31315..31491 + 177 WP_001054900 hypothetical protein -
MQF88_RS24610 (MQF88_24620) 32415..32666 + 252 WP_001291968 hypothetical protein -
MQF88_RS24615 (MQF88_24625) 32738..32890 - 153 WP_001303307 Hok/Gef family protein -
MQF88_RS24620 (MQF88_24630) 33211..33417 + 207 WP_001387488 hypothetical protein -
MQF88_RS24625 (MQF88_24635) 33516..34293 + 778 Protein_35 protein FinQ -
MQF88_RS24630 (MQF88_24640) 34600..35808 + 1209 WP_000121273 IncI1-type conjugal transfer protein TrbA trbA
MQF88_RS24635 (MQF88_24645) 35827..36897 + 1071 WP_000151582 IncI1-type conjugal transfer protein TrbB trbB
MQF88_RS24640 (MQF88_24650) 36890..39181 + 2292 WP_001289276 F-type conjugative transfer protein TrbC -

Host bacterium

ID   7041 GenBank   NZ_CP094333
Plasmid name   pST3606-1 Incompatibility group   IncI1
Plasmid size   109070 bp Coordinate of oriT [Strand]   42275..42363 [+]
Host baterium   Salmonella enterica subsp. enterica strain 3018683606

Cargo genes

Drug resistance gene   blaNDM-5, sul1, qacE, aadA2, dfrA12
Virulence gene   -
Metal resistance gene   -
Degradation gene   -
Symbiosis gene   -
Anti-CRISPR   -