Detailed information of oriT

oriT

The information of the oriT region


oriTDB ID   114007
Name   oriT_p19-0822-3296 in_silico
Organism   Shigella sonnei strain 19.0822.3296
Sequence Completeness      -
NCBI accession of oriT (coordinates [strand])   NZ_CP049184 (37510..37598 [+], 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_p19-0822-3296
GGGGTGTCGGGGCGAAGCCCTGACCAGATGGTAATTGTAATAGCGTCGCGTGTGACGGTATTACAATTACACATCCTGTCCCGTTTTTC

Visualization of oriT structure

  oriT secondary structure

Predicted by RNAfold.

Download structure file


Relaxase

ID   8999 GenBank   WP_011264053
Name   nikB_G6O66_RS24360_p19-0822-3296 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   5246 GenBank   WP_063119516
Name   WP_063119516_p19-0822-3296 insolico UniProt ID   _
Length   110 a.a. PDB ID   _
Note   Predicted by oriTfinder 2.0

  Auxiliary protein sequence


Download         Length: 110 a.a.        Molecular weight: 12585.55 Da        Isoelectric Point: 10.6897

>WP_063119516.1 MULTISPECIES: IncI1-type relaxosome accessory protein NikA [Enterobacteriaceae]
MSDSAVKKKSEVRQKTVVRTLRFSPVEDETIRKKAEDSGLTVSAYIRNAALNKRINSRTDDAFLKELMRL
GRMQKHLFVQGKRTGDKEYAEVLVAITELTNTLRKQLMEG

  Protein domains



No domain identified.



  Protein structure



No available structure.




T4CP

ID   10434 GenBank   WP_011264051
Name   trbC_G6O66_RS24355_p19-0822-3296 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: 1306..32132

Locus tag Coordinates Strand Size (bp) Protein ID Product Description
G6O66_RS24190 1..1155 + 1155 WP_001139958 tyrosine-type recombinase/integrase -
G6O66_RS24195 (G6O66_24145) 1306..2130 + 825 WP_001545755 conjugal transfer protein TraE traE
G6O66_RS24200 (G6O66_24150) 2216..3418 + 1203 WP_000976353 conjugal transfer protein TraF -
G6O66_RS24205 (G6O66_24155) 3478..4062 + 585 WP_000977522 histidine phosphatase family protein -
G6O66_RS24210 (G6O66_24160) 4457..4915 + 459 WP_001079808 IncI1-type conjugal transfer lipoprotein TraH -
G6O66_RS24215 (G6O66_24165) 4912..5730 + 819 WP_097763371 IncI1-type conjugal transfer lipoprotein TraI traI
G6O66_RS24220 (G6O66_24170) 5727..6875 + 1149 WP_001024972 plasmid transfer ATPase TraJ virB11
G6O66_RS24225 (G6O66_24175) 6872..7162 + 291 WP_001314267 hypothetical protein traK
G6O66_RS24230 (G6O66_24180) 7177..7728 + 552 WP_000014586 phospholipase D family protein -
G6O66_RS24235 (G6O66_24185) 7818..11582 + 3765 WP_001141540 LPD7 domain-containing protein -
G6O66_RS24240 (G6O66_24190) 11600..11947 + 348 WP_001055900 conjugal transfer protein traL
G6O66_RS24245 (G6O66_24195) 11944..12636 + 693 WP_000138552 DotI/IcmL family type IV secretion protein traM
G6O66_RS24250 (G6O66_24200) 12647..13630 + 984 WP_001191879 IncI1-type conjugal transfer protein TraN traN
G6O66_RS24255 (G6O66_24205) 13633..14922 + 1290 WP_001271994 conjugal transfer protein TraO traO
G6O66_RS24260 (G6O66_24210) 14922..15626 + 705 WP_000801920 IncI1-type conjugal transfer protein TraP traP
G6O66_RS24265 (G6O66_24215) 15626..16153 + 528 WP_001055569 conjugal transfer protein TraQ traQ
G6O66_RS24270 (G6O66_24220) 16204..16608 + 405 WP_000086965 IncI1-type conjugal transfer protein TraR traR
G6O66_RS24275 (G6O66_24225) 16672..16860 + 189 WP_001277253 putative conjugal transfer protein TraS -
G6O66_RS24280 (G6O66_24230) 16844..17644 + 801 WP_107372244 IncI1-type conjugal transfer protein TraT traT
G6O66_RS24285 (G6O66_24235) 17734..20778 + 3045 WP_107372243 IncI1-type conjugal transfer protein TraU traU
G6O66_RS24290 (G6O66_24240) 20778..21392 + 615 WP_000337395 IncI1-type conjugal transfer protein TraV traV
G6O66_RS24295 (G6O66_24245) 21359..22561 + 1203 WP_107372242 IncI1-type conjugal transfer protein TraW traW
G6O66_RS24300 (G6O66_24250) 22590..23174 + 585 WP_001037987 IncI1-type conjugal transfer protein TraX -
G6O66_RS24305 (G6O66_24255) 23271..25439 + 2169 WP_001774191 DotA/TraY family protein traY
G6O66_RS24310 (G6O66_24260) 25513..26163 + 651 WP_001178506 plasmid IncI1-type surface exclusion protein ExcA -
G6O66_RS24315 (G6O66_24265) 26235..26444 - 210 WP_000062603 HEAT repeat domain-containing protein -
G6O66_RS24320 26810..26986 + 177 WP_001054898 hypothetical protein -
G6O66_RS24795 27051..27146 - 96 WP_000609148 DinQ-like type I toxin DqlB -
G6O66_RS24330 (G6O66_24275) 27647..27898 + 252 WP_001291964 hypothetical protein -
G6O66_RS24335 (G6O66_24280) 27970..28122 - 153 WP_001387489 Hok/Gef family protein -
G6O66_RS24340 (G6O66_24285) 28749..29528 + 780 WP_275450201 protein FinQ -
G6O66_RS24345 (G6O66_24290) 29835..31043 + 1209 WP_107372241 IncI1-type conjugal transfer protein TrbA trbA
G6O66_RS24350 (G6O66_24295) 31062..32132 + 1071 WP_000151590 IncI1-type conjugal transfer protein TrbB trbB
G6O66_RS24355 (G6O66_24300) 32125..34416 + 2292 WP_011264051 F-type conjugative transfer protein TrbC -

Host bacterium

ID   14442 GenBank   NZ_CP049184
Plasmid name   p19-0822-3296 Incompatibility group   IncI1
Plasmid size   87623 bp Coordinate of oriT [Strand]   37510..37598 [+]
Host baterium   Shigella sonnei strain 19.0822.3296

Cargo genes

Drug resistance gene   blaCTX-M-3
Virulence gene   -
Metal resistance gene   -
Degradation gene   -
Symbiosis gene   -
Anti-CRISPR   AcrVA2