Detailed information of oriT

oriT

The information of the oriT region


oriTDB ID   114095
Name   oriT_pR18.0292_89k in_silico
Organism   Salmonella enterica subsp. enterica serovar Typhimurium strain R18.0292
Sequence Completeness      -
NCBI accession of oriT (coordinates [strand])   NZ_CP100741 (35489..35577 [-], 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_pR18.0292_89k
GGGGTGTCGGGGCGAAGCCCTGACCAGATGGTAATTGTAATAGCGTCGCGTGTGACGGTATTACAATTACACATCCTGTCCCGTTTTTC

Visualization of oriT structure

  oriT secondary structure

Predicted by RNAfold.

Download structure file


Relaxase

ID   9049 GenBank   WP_117064813
Name   nikB_NL736_RS24645_pR18.0292_89k insolico UniProt ID   _
Length   899 a.a. PDB ID   
Note   Predicted by oriTfinder 2.0

  Relaxase protein sequence


Download         Length: 899 a.a.        Molecular weight: 103911.42 Da        Isoelectric Point: 7.5991

>WP_117064813.1 MULTISPECIES: IncI1-type relaxase NikB [Enterobacteriaceae]
MNAVIPKKRRDGKSSFEDLVSYVSVRDDMTDEELNLSSSSQAEQPHRSRFSRLVDYATRLRNESFVALVD
VMKDGCEWVNFYGVTCFHNCTSLETAAADMEYIAQQAHYAKDNTDPVFHYILSWQAHESPRPEQIYDSVR
HTLKSLGLGEHQYVSAVHTDTDNLHVHVAVNRVHPVTGYLNCLSWSQEKLSRACRELELKHGFAPDNGCW
VHAPGNRIVRKTAVERDRQNTWTRGKKQTFREYVAQTAVAGLRSEPVNDWLSLHRRLAEDGLYLSQMDGK
FLVMDGWDRNREGVQLDSFGPSWCAEKLMKKMGDYTPVPKDIFSQVEAPGRYNPDFIAADVRPEKIAETE
SLQQYACRHLGERLPEMAREGRLENCQAIHRTLAEAGLWMRVQHGHLVICDGYDHNQTPVRADSVWSLLT
LDNVNQLDGGWQPVPTDIFRQVTPTERFRGRRMESCPATDKEWHRMRTGTGPQGAIKRELFSDKESLWGY
SISHCSPQIEEMITQGEFTWQRCHELFAQQGLMLQKQHHGLVVVDAFNHEQTPVKASSIHPDLTLGRAEP
QAGPFVSAPADLFDRVQPESRYNPELAVSDRYGVSSKRDPMLRRQRREARAEARADLRARYLAWREQWRK
PDLRYGERCREIHQACRLRKSHIRAQYDDPALRKLHYHIAEVQRMQALIRLKEDIRDERQKLIADGKWYP
PSYRQWVEIQAAQGDRAAVSQLRGWDYRDRRKDRSRTTTTDRCVVLCEPGGTPVYGNTGDLKARLQKNGS
VRFRDRRTGEFVCTDYGDRVVFRNHHDRNALADKLDLIAPVLFGRDPRMGFEPEGNDKQFNQVFAEMVAW
HNVTGRTGHEDYRITRPDVDHHREGSERYYRDYIAANSNDDASLPPPEQDKRWEPPSPG

  Protein domains


Predicted by InterproScan.

Relaxase/Mobilisation nuclease domain (Relaxase)

(62-314)


  Protein structure



No available structure.




Auxiliary protein

ID   5271 GenBank   WP_001283947
Name   WP_001283947_pR18.0292_89k 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   10476 GenBank   WP_077265944
Name   trbC_NL736_RS24650_pR18.0292_89k 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: 86935.02 Da        Isoelectric Point: 6.5717

>WP_077265944.1 MULTISPECIES: F-type conjugative transfer protein TrbC [Enterobacteriaceae]
MSEHRVNPELLHRTAWGNPVWNALQSLNIYGFCLVASLVASFIWPLALPACLLFTLITMLVFSLQRWRCP
LRMPMTLECADPSQDRMIKRSLFSFWPTLFQYEVILESPASGIFYVGYQRVRDIGRELWLSMDDLTRHIM
FFATTGGGKTETIFAWAINPLCWARGFTLVDGKAQNDTARTIWYLARRFGREDDVEVINFMNGGKSRSEI
ILSGEKTRPQSNTWNPFCYSTEAFTAETMQSMLPQNVQGGEWQSRAIAMNKALVFGTKFWCVREGKTMSL
QMLREHMTLEGMAKLYCRGLDDQWPEEAIAPLRNYLQDVPGFDLSLVRTPSAWTEEPRKQHAYLSGQFSE
TFSTFTEAFGDIFAEDSGDIDIRDSIHSDRILMVMIPALDTSAHTTSALGRMFITQKSMILARDLGYRLE
GTDSDALEVKKYKGRFPYLCFLDEVGAYYTDRIAVEATQVRSLDFALILMAQDQERIEGQTTATNTATLM
QNTGTKFAGRIVSEGSTARTLKSAAGEEARARMNNLQRQDGIFGESWIDSPQISILMESKINVQELIELH
PGEFFSIFRGETVPSASFFIPDDEKSCSSDPVVINRYISVDAPRLDRLRRLVPRTTQRRIPSPENVSAII
GVLTAKPSRKRRKIRTEPHTIVDTFQQRIAGRQAAMAMLEEYDTDINARENALWETAVNTLKTTTREERR
IRYITLNRPELPETNEENQISVRAERAGINLLTLPQDNNHPTGHPVNGFHHKKTNRPDWDGMY

  Protein domains



No domain identified.


  Protein structure



No available structure.




T4SS

T4SS were predicted by using oriTfinder2.

Region 1: 40955..78998

Locus tag Coordinates Strand Size (bp) Protein ID Product Description
NL736_RS24650 (NL736_24650) 38671..40962 - 2292 WP_077265944 F-type conjugative transfer protein TrbC -
NL736_RS24655 (NL736_24655) 40955..42025 - 1071 WP_064148470 IncI1-type conjugal transfer protein TrbB trbB
NL736_RS24660 (NL736_24660) 42044..43252 - 1209 WP_064148469 IncI1-type conjugal transfer protein TrbA trbA
NL736_RS24665 (NL736_24665) 43551..43703 - 153 Protein_56 IS66 family insertion sequence element accessory protein TnpB -
NL736_RS24670 (NL736_24670) 43700..44104 - 405 WP_003031976 transposase -
NL736_RS24985 45376..45474 + 99 WP_022630883 DinQ-like type I toxin DqlB -
NL736_RS24675 (NL736_24675) 45536..45712 - 177 WP_180335155 hypothetical protein -
NL736_RS24680 (NL736_24680) 46105..46314 + 210 WP_000062603 HEAT repeat domain-containing protein -
NL736_RS24685 (NL736_24685) 46386..47048 - 663 WP_060527638 plasmid IncI1-type surface exclusion protein ExcA -
NL736_RS24690 (NL736_24690) 47119..49287 - 2169 WP_064148468 DotA/TraY family protein traY
NL736_RS24695 (NL736_24695) 49384..49968 - 585 WP_117064814 IncI1-type conjugal transfer protein TraX -
NL736_RS24700 (NL736_24700) 49997..51199 - 1203 WP_064148466 IncI1-type conjugal transfer protein TraW traW
NL736_RS24705 (NL736_24705) 51166..51780 - 615 WP_001542516 IncI1-type conjugal transfer protein TraV traV
NL736_RS24710 (NL736_24710) 51780..54824 - 3045 WP_064148465 IncI1-type conjugal transfer protein TraU traU
NL736_RS24715 (NL736_24715) 54914..55714 - 801 WP_001164788 IncI1-type conjugal transfer protein TraT traT
NL736_RS24720 (NL736_24720) 55698..55886 - 189 WP_001277255 putative conjugal transfer protein TraS -
NL736_RS24725 (NL736_24725) 55950..56354 - 405 WP_021497835 IncI1-type conjugal transfer protein TraR traR
NL736_RS24730 (NL736_24730) 56405..56932 - 528 WP_001055569 conjugal transfer protein TraQ traQ
NL736_RS24735 (NL736_24735) 56932..57636 - 705 WP_042012199 IncI1-type conjugal transfer protein TraP traP
NL736_RS24740 (NL736_24740) 57636..58925 - 1290 WP_064148464 conjugal transfer protein TraO traO
NL736_RS24745 (NL736_24745) 58928..59911 - 984 WP_064148463 IncI1-type conjugal transfer protein TraN traN
NL736_RS24750 (NL736_24750) 59922..60614 - 693 WP_064148462 DotI/IcmL family type IV secretion protein traM
NL736_RS24755 (NL736_24755) 60611..60958 - 348 WP_001055900 conjugal transfer protein traL
NL736_RS24760 (NL736_24760) 60976..64743 - 3768 WP_064148461 LPD7 domain-containing protein -
NL736_RS24765 (NL736_24765) 64833..65384 - 552 WP_000014584 phospholipase D family protein -
NL736_RS24770 (NL736_24770) 65399..65689 - 291 WP_001299214 hypothetical protein traK
NL736_RS24775 (NL736_24775) 65686..66834 - 1149 WP_001024975 plasmid transfer ATPase TraJ virB11
NL736_RS24780 (NL736_24780) 66831..67649 - 819 WP_064148460 IncI1-type conjugal transfer lipoprotein TraI traI
NL736_RS24785 (NL736_24785) 67646..68104 - 459 WP_001079808 IncI1-type conjugal transfer lipoprotein TraH -
NL736_RS24790 (NL736_24790) 68499..69083 - 585 WP_000977522 histidine phosphatase family protein -
NL736_RS24795 (NL736_24795) 69143..70345 - 1203 WP_064148458 conjugal transfer protein TraF -
NL736_RS24800 (NL736_24800) 70431..71255 - 825 WP_001690630 conjugal transfer protein TraE traE
NL736_RS24805 (NL736_24805) 71406..72560 - 1155 WP_064148474 tyrosine-type recombinase/integrase -
NL736_RS24810 (NL736_24810) 72878..73135 - 258 Protein_86 hypothetical protein -
NL736_RS24815 (NL736_24815) 73201..74505 - 1305 WP_064148473 shufflon system plasmid conjugative transfer pilus tip adhesin PilV -
NL736_RS24820 (NL736_24820) 74505..75161 - 657 WP_074182772 A24 family peptidase -
NL736_RS24825 (NL736_24825) 75146..75706 - 561 WP_063124165 lytic transglycosylase domain-containing protein virB1
NL736_RS24830 (NL736_24830) 75716..76330 - 615 WP_064148457 type 4 pilus major pilin -
NL736_RS24835 (NL736_24835) 76347..77432 - 1086 WP_063103211 type II secretion system F family protein -
NL736_RS24840 (NL736_24840) 77445..78998 - 1554 WP_042012074 GspE/PulE family protein virB11
NL736_RS24845 (NL736_24845) 79009..79461 - 453 WP_074182770 type IV pilus biogenesis protein PilP -
NL736_RS24850 (NL736_24850) 79448..80743 - 1296 WP_064148456 type 4b pilus protein PilO2 -
NL736_RS24855 (NL736_24855) 80736..82418 - 1683 WP_000748143 PilN family type IVB pilus formation outer membrane protein -
NL736_RS24860 (NL736_24860) 82432..82869 - 438 WP_000539807 type IV pilus biogenesis protein PilM -
NL736_RS24865 (NL736_24865) 82869..83936 - 1068 WP_074182768 type IV pilus biogenesis lipoprotein PilL -

Host bacterium

ID   14530 GenBank   NZ_CP100741
Plasmid name   pR18.0292_89k Incompatibility group   IncI1
Plasmid size   88662 bp Coordinate of oriT [Strand]   35489..35577 [-]
Host baterium   Salmonella enterica subsp. enterica serovar Typhimurium strain R18.0292

Cargo genes

Drug resistance gene   erm(42)
Virulence gene   -
Metal resistance gene   -
Degradation gene   -
Symbiosis gene   -
Anti-CRISPR   -