Detailed information of oriT

oriT

The information of the oriT region


oriTDB ID   114079
Name   oriT_pR18.0872_93k in_silico
Organism   Salmonella enterica subsp. enterica serovar Thompson strain R18.0872
Sequence Completeness      -
NCBI accession of oriT (coordinates [strand])   NZ_CP100704 (34461..34549 [-], 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_pR18.0872_93k
GGGGTGTCGGGGCGAAGCCCTGACCAGATGGTAATTGTAATAGCGTCGCGTGTGACGGTATTACAATTACACATCCTGTCCCGTTTTTC

Visualization of oriT structure

  oriT secondary structure

Predicted by RNAfold.

Download structure file


Relaxase

ID   9043 GenBank   WP_011264053
Name   nikB_NL734_RS24375_pR18.0872_93k insolico UniProt ID   A0A767TAZ8
Length   899 a.a. PDB ID   
Note   Predicted by oriTfinder 2.0

  Relaxase protein sequence


Download         Length: 899 a.a.        Molecular weight: 103882.34 Da        Isoelectric Point: 7.4198

>WP_011264053.1 MULTISPECIES: IncI1-type relaxase NikB [Enterobacteriaceae]
MNAVIPKKRRDGKSSFEDLVSYVSVRDDMTDEELNLSSSSQAEQPHRSRFSRLVDYATRLRNESFVALVD
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 A0A767TAZ8


Auxiliary protein

ID   5268 GenBank   WP_001283947
Name   WP_001283947_pR18.0872_93k 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   10470 GenBank   WP_011264051
Name   trbC_NL734_RS24380_pR18.0872_93k 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: 86954.10 Da        Isoelectric Point: 6.7713

>WP_011264051.1 MULTISPECIES: F-type conjugative transfer protein TrbC [Enterobacteriaceae]
MSEHRVNPELLHRTAWGNPVWNALQSLNIYGFCLVASLVASFIWPLALPACLLFTLITMLVFSLQRWRCP
LRMPMTLECADPSQDRMIKRSLFSFWPTLFQYEVILESPASGIFYVGYQRVRDIGRELWLSMDDLTRHIM
FFATTGGGKTETIFAWAINPLCWARGFTLVDGKAQNDTARTIWYLARRFGREDDVEVINFMNGGKSRSEI
ILSGEKTRPQSNTWNPFCYSTEAFTAETMQSMLPQNVQGGEWQSRAIAMNKALVFGTKFWCVREGKTMSL
QMLREHMTLEGMAKLYCRGLDDQWPEEAIAPLRNYLQDVPGFDLSLVRTPSAWTEEPRKQHAYLSGQFSE
TFSTFTEAFGDIFAEDSGDIDIRDSIHSDRILMVMIPALDTSAHTTSALGRMFITQKSMILARDLGYRLE
GTDSDALEVKKYKGRFPYLCFLDEVGAYYTDRIAVEATQVRSLDFALILMAQDQERIEGQTTATNTATLM
QNTGTKFAGRIVSEGSTARTLKSAAGEEARARMNNLQRQDGIFGESWIDSPQISILMESKINVQELIELH
PGEFFSIFRGETVPSASFFIPDDEKSCSSDPVVINRYISVDAPRLDRLRRLVPRTTQRRIPSPENVSAII
GVLTAKPSRKRRKIRTEPHTIVDTFQQRIAGRQAAMAMLEEYDTDINARESALWETAVNTLKTTTREERR
IRYITLNRPELPETKEENQISVRAERAGINLLTLPQDNNHPTGRPVNGFHHKKNNRPDWDGMY

  Protein domains



No domain identified.


  Protein structure



No available structure.




T4SS

T4SS were predicted by using oriTfinder2.

Region 1: 39928..83411

Locus tag Coordinates Strand Size (bp) Protein ID Product Description
NL734_RS24380 (NL734_24380) 37644..39935 - 2292 WP_011264051 F-type conjugative transfer protein TrbC -
NL734_RS24385 (NL734_24385) 39928..40998 - 1071 WP_011264050 IncI1-type conjugal transfer protein TrbB trbB
NL734_RS24390 (NL734_24390) 41017..42225 - 1209 WP_011264049 IncI1-type conjugal transfer protein TrbA trbA
NL734_RS24395 (NL734_24395) 42532..43314 - 783 WP_023063753 protein FinQ -
NL734_RS24400 (NL734_24400) 43510..43827 + 318 WP_000118520 quaternary ammonium compound efflux SMR transporter SugE -
NL734_RS24405 (NL734_24405) 43824..44357 - 534 WP_001221666 lipocalin family protein -
NL734_RS24410 (NL734_24410) 44451..45596 - 1146 WP_000976514 extended-spectrum class C beta-lactamase CMY-2 -
NL734_RS24415 (NL734_24415) 45920..47182 - 1263 WP_000608644 IS1380-like element ISEcp1 family transposase -
NL734_RS24420 (NL734_24420) 47335..47709 - 375 WP_223349261 hypothetical protein -
NL734_RS24425 (NL734_24425) 48030..48182 + 153 WP_001387489 Hok/Gef family protein -
NL734_RS24430 (NL734_24430) 48254..48505 - 252 WP_001291964 hypothetical protein -
NL734_RS24975 49006..49101 + 96 WP_000609148 DinQ-like type I toxin DqlB -
NL734_RS24440 (NL734_24440) 49166..49342 - 177 WP_001054897 hypothetical protein -
NL734_RS24445 (NL734_24445) 49734..49943 + 210 WP_000062603 HEAT repeat domain-containing protein -
NL734_RS24450 (NL734_24450) 50015..50677 - 663 WP_000644796 plasmid IncI1-type surface exclusion protein ExcA -
NL734_RS24455 (NL734_24455) 50748..52916 - 2169 WP_023518847 DotA/TraY family protein traY
NL734_RS24460 (NL734_24460) 53013..53597 - 585 WP_001746157 IncI1-type conjugal transfer protein TraX -
NL734_RS24465 (NL734_24465) 53626..54828 - 1203 WP_001189160 IncI1-type conjugal transfer protein TraW traW
NL734_RS24470 (NL734_24470) 54795..55409 - 615 WP_000337399 IncI1-type conjugal transfer protein TraV traV
NL734_RS24475 (NL734_24475) 55409..58453 - 3045 WP_023518848 IncI1-type conjugal transfer protein TraU traU
NL734_RS24480 (NL734_24480) 58543..59343 - 801 WP_001164788 IncI1-type conjugal transfer protein TraT traT
NL734_RS24485 (NL734_24485) 59327..59515 - 189 WP_001277255 putative conjugal transfer protein TraS -
NL734_RS24490 (NL734_24490) 59579..59983 - 405 WP_000086965 IncI1-type conjugal transfer protein TraR traR
NL734_RS24495 (NL734_24495) 60034..60561 - 528 WP_001055569 conjugal transfer protein TraQ traQ
NL734_RS24500 (NL734_24500) 60561..61265 - 705 WP_001493811 IncI1-type conjugal transfer protein TraP traP
NL734_RS24505 (NL734_24505) 61265..62554 - 1290 WP_011264042 conjugal transfer protein TraO traO
NL734_RS24510 (NL734_24510) 62557..63540 - 984 WP_001191880 IncI1-type conjugal transfer protein TraN traN
NL734_RS24515 (NL734_24515) 63551..64243 - 693 WP_000138552 DotI/IcmL family type IV secretion protein traM
NL734_RS24520 (NL734_24520) 64240..64587 - 348 WP_001055900 conjugal transfer protein traL
NL734_RS24525 (NL734_24525) 64605..68372 - 3768 WP_023518849 LPD7 domain-containing protein -
NL734_RS24530 (NL734_24530) 68462..69013 - 552 WP_000014584 phospholipase D family protein -
NL734_RS24535 (NL734_24535) 69028..69318 - 291 WP_001299214 hypothetical protein traK
NL734_RS24540 (NL734_24540) 69315..70463 - 1149 WP_001024972 plasmid transfer ATPase TraJ virB11
NL734_RS24545 (NL734_24545) 70460..71278 - 819 WP_167654534 IncI1-type conjugal transfer lipoprotein TraI traI
NL734_RS24550 (NL734_24550) 71275..71733 - 459 WP_001079808 IncI1-type conjugal transfer lipoprotein TraH -
NL734_RS24555 (NL734_24555) 72128..72712 - 585 WP_000977522 histidine phosphatase family protein -
NL734_RS24560 (NL734_24560) 72772..73974 - 1203 WP_000976351 conjugal transfer protein TraF -
NL734_RS24565 (NL734_24565) 74060..74884 - 825 WP_023518851 conjugal transfer protein TraE traE
NL734_RS24570 (NL734_24570) 75035..76189 - 1155 WP_001139955 tyrosine-type recombinase/integrase -
NL734_RS24575 (NL734_24575) 76188..76472 + 285 WP_187642572 pilus assembly protein PilV -
NL734_RS25105 77273..77497 + 225 Protein_87 hypothetical protein -
NL734_RS24580 (NL734_24580) 77494..78930 - 1437 WP_015058206 shufflon system plasmid conjugative transfer pilus tip adhesin PilV -
NL734_RS24585 (NL734_24585) 78918..79574 - 657 WP_001401940 A24 family peptidase -
NL734_RS24590 (NL734_24590) 79559..80119 - 561 WP_000014005 lytic transglycosylase domain-containing protein virB1
NL734_RS24595 (NL734_24595) 80129..80743 - 615 WP_000908227 type 4 pilus major pilin -
NL734_RS24600 (NL734_24600) 80760..81845 - 1086 WP_001208802 type II secretion system F family protein -
NL734_RS24605 (NL734_24605) 81858..83411 - 1554 WP_023518854 GspE/PulE family protein virB11
NL734_RS24610 (NL734_24610) 83422..83874 - 453 WP_001247337 type IV pilus biogenesis protein PilP -
NL734_RS24615 (NL734_24615) 83861..85156 - 1296 WP_023518855 type 4b pilus protein PilO2 -
NL734_RS24620 (NL734_24620) 85149..86831 - 1683 WP_000748143 PilN family type IVB pilus formation outer membrane protein -
NL734_RS24625 (NL734_24625) 86845..87282 - 438 WP_000539806 type IV pilus biogenesis protein PilM -
NL734_RS24630 (NL734_24630) 87282..88349 - 1068 WP_001360287 type IV pilus biogenesis lipoprotein PilL -

Host bacterium

ID   14514 GenBank   NZ_CP100704
Plasmid name   pR18.0872_93k Incompatibility group   IncI1
Plasmid size   93173 bp Coordinate of oriT [Strand]   34461..34549 [-]
Host baterium   Salmonella enterica subsp. enterica serovar Thompson strain R18.0872

Cargo genes

Drug resistance gene   blaCMY-2
Virulence gene   -
Metal resistance gene   -
Degradation gene   -
Symbiosis gene   -
Anti-CRISPR   AcrVA2