Detailed information of oriT

oriT

The information of the oriT region


oriTDB ID   113787
Name   oriT_pR13.1986_94k in_silico
Organism   Salmonella enterica subsp. enterica serovar Infantis strain R13.1986
Sequence Completeness      -
NCBI accession of oriT (coordinates [strand])   NZ_CP129386 (16094..16182 [+], 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_pR13.1986_94k
GGGGTGTCGGGGCGAAGCCCTGACCAGATGGTAATTGTAATAGCGTCGCGTGTGACGGTATTACAATTACACATCCTGTCCCGTTTTTC

Visualization of oriT structure

  oriT secondary structure

Predicted by RNAfold.

Download structure file


Relaxase

ID   8828 GenBank   WP_011264053
Name   nikB_ETE97_RS23430_pR13.1986_94k 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   5216 GenBank   WP_001283947
Name   WP_001283947_pR13.1986_94k 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   10241 GenBank   WP_011264051
Name   trbC_ETE97_RS23425_pR13.1986_94k 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: 58476..91019

Locus tag Coordinates Strand Size (bp) Protein ID Product Description
ETE97_RS23720 (ETE97_23720) 53538..54605 + 1068 WP_001302629 type IV pilus biogenesis lipoprotein PilL -
ETE97_RS23725 (ETE97_23725) 54605..55042 + 438 WP_000539807 type IV pilus biogenesis protein PilM -
ETE97_RS23730 (ETE97_23730) 55056..56738 + 1683 WP_000748143 PilN family type IVB pilus formation outer membrane protein -
ETE97_RS23735 (ETE97_23735) 56731..58026 + 1296 WP_000752772 type 4b pilus protein PilO2 -
ETE97_RS23740 (ETE97_23740) 58013..58465 + 453 WP_001247334 type IV pilus biogenesis protein PilP -
ETE97_RS23745 (ETE97_23745) 58476..60029 + 1554 WP_000362202 GspE/PulE family protein virB11
ETE97_RS23750 (ETE97_23750) 60042..61139 + 1098 WP_066019397 type II secretion system F family protein -
ETE97_RS23755 (ETE97_23755) 61157..61771 + 615 WP_000959786 type 4 pilus major pilin -
ETE97_RS23760 (ETE97_23760) 61781..62341 + 561 WP_000014116 lytic transglycosylase domain-containing protein virB1
ETE97_RS23765 (ETE97_23765) 62326..62982 + 657 WP_001193553 prepilin peptidase -
ETE97_RS23770 (ETE97_23770) 62982..64406 + 1425 WP_001389385 shufflon system plasmid conjugative transfer pilus tip adhesin PilV -
ETE97_RS23775 (ETE97_23775) 64574..64759 + 186 Protein_83 hypothetical protein -
ETE97_RS23780 (ETE97_23780) 65578..66732 + 1155 WP_001139957 tyrosine-type recombinase/integrase -
ETE97_RS23785 (ETE97_23785) 66883..67707 + 825 WP_023518851 conjugal transfer protein TraE traE
ETE97_RS23790 (ETE97_23790) 67793..68995 + 1203 WP_000976353 conjugal transfer protein TraF -
ETE97_RS23795 (ETE97_23795) 69055..69639 + 585 WP_000977522 histidine phosphatase family protein -
ETE97_RS23800 (ETE97_23800) 70034..70492 + 459 WP_001079808 IncI1-type conjugal transfer lipoprotein TraH -
ETE97_RS23805 (ETE97_23805) 70489..71307 + 819 WP_000646097 IncI1-type conjugal transfer lipoprotein TraI traI
ETE97_RS23810 (ETE97_23810) 71304..72452 + 1149 WP_001024972 plasmid transfer ATPase TraJ virB11
ETE97_RS23815 (ETE97_23815) 72449..72739 + 291 WP_001372180 hypothetical protein traK
ETE97_RS23820 (ETE97_23820) 72754..73305 + 552 WP_000014584 phospholipase D family protein -
ETE97_RS23825 (ETE97_23825) 73395..77162 + 3768 WP_001579768 LPD7 domain-containing protein -
ETE97_RS23830 (ETE97_23830) 77180..77527 + 348 WP_001055900 conjugal transfer protein traL
ETE97_RS23835 (ETE97_23835) 77524..78216 + 693 WP_000138552 DotI/IcmL family type IV secretion protein traM
ETE97_RS23840 (ETE97_23840) 78227..79210 + 984 WP_001191878 IncI1-type conjugal transfer protein TraN traN
ETE97_RS23845 (ETE97_23845) 79213..80502 + 1290 WP_001271997 conjugal transfer protein TraO traO
ETE97_RS23850 (ETE97_23850) 80502..81206 + 705 WP_000801920 IncI1-type conjugal transfer protein TraP traP
ETE97_RS23855 (ETE97_23855) 81206..81733 + 528 WP_001055569 conjugal transfer protein TraQ traQ
ETE97_RS23860 (ETE97_23860) 81784..82188 + 405 WP_000086960 IncI1-type conjugal transfer protein TraR traR
ETE97_RS23865 (ETE97_23865) 82252..82440 + 189 WP_001277255 putative conjugal transfer protein TraS -
ETE97_RS23870 (ETE97_23870) 82424..83224 + 801 WP_001164788 IncI1-type conjugal transfer protein TraT traT
ETE97_RS23875 (ETE97_23875) 83314..86358 + 3045 WP_001024752 IncI1-type conjugal transfer protein TraU traU
ETE97_RS23880 (ETE97_23880) 86358..86972 + 615 WP_000337394 IncI1-type conjugal transfer protein TraV traV
ETE97_RS23885 (ETE97_23885) 86939..88141 + 1203 WP_001189159 IncI1-type conjugal transfer protein TraW traW
ETE97_RS23890 (ETE97_23890) 88170..88754 + 585 WP_001579774 IncI1-type conjugal transfer protein TraX -
ETE97_RS23895 (ETE97_23895) 88851..91019 + 2169 WP_301557922 DotA/TraY family protein traY
ETE97_RS23900 (ETE97_23900) 91090..91752 + 663 WP_000644796 plasmid IncI1-type surface exclusion protein ExcA -
ETE97_RS23905 (ETE97_23905) 91824..92033 - 210 WP_000062603 HEAT repeat domain-containing protein -
ETE97_RS23910 (ETE97_23910) 92425..92601 + 177 WP_001054897 hypothetical protein -
ETE97_RS23915 (ETE97_23915) 92666..92761 - 96 WP_000609148 DinQ-like type I toxin DqlB -
ETE97_RS23920 (ETE97_23920) 93262..93513 + 252 WP_001291964 hypothetical protein -
ETE97_RS23925 (ETE97_23925) 93585..93737 - 153 WP_001387489 Hok/Gef family protein -

Host bacterium

ID   14222 GenBank   NZ_CP129386
Plasmid name   pR13.1986_94k Incompatibility group   IncI1
Plasmid size   94398 bp Coordinate of oriT [Strand]   16094..16182 [+]
Host baterium   Salmonella enterica subsp. enterica serovar Infantis strain R13.1986

Cargo genes

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