Detailed information of oriT

oriT

The information of the oriT region


oriTDB ID   121988
Name   oriT_pFORC11.2 in_silico
Organism   Shigella sonnei strain FORC_011
Sequence Completeness      -
NCBI accession of oriT (coordinates [strand])   NZ_CP010831 (36260..36348 [+], 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_pFORC11.2
GGGGTGTCGGGGCGAAGCCCTGACCAGATGGCAATTGTAATAGCGTCGCGTGTGACGGTATTACAATTGCACATCCTGTCCCGTTTTTC

Visualization of oriT structure

  oriT secondary structure

Predicted by RNAfold.

Download structure file


Relaxase

ID   13866 GenBank   WP_001306778
Name   nikB_FORC11_RS26645_pFORC11.2 insolico UniProt ID   Q79VV7
Length   899 a.a. PDB ID   
Note   Predicted by oriTfinder 2.0

  Relaxase protein sequence


Download         Length: 899 a.a.        Molecular weight: 104010.41 Da        Isoelectric Point: 7.4265

>WP_001306778.1 MULTISPECIES: IncI1-type relaxase NikB [Enterobacteriaceae]
MNAVIPKKRRDGKSSFEDLVSYVSVRDDMTDEELNLSSSSQAEQPHRSRFSRLVDYATRLRNESFVALVD
VMKDGCEWVNFYGVTCFHNCTSLETAAADMEYIARQAHYAKDDTDPVFHYILSWQSHESPRPEQIYDSVR
HTLKSLGLADHQYVSAVHTDTDNLHVHVAVNRVHPETGYLNRLSWSQEKLSRACRELELKHGFAPDNGCW
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 Q79VV7


Auxiliary protein

ID   7692 GenBank   WP_001283947
Name   WP_001283947_pFORC11.2 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   16237 GenBank   WP_094190802
Name   trbC_FORC11_RS26640_pFORC11.2 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: 86926.13 Da        Isoelectric Point: 6.7713

>WP_094190802.1 F-type conjugative transfer protein TrbC [Shigella sonnei]
MSEHRVNPELLHRTAWGNPVWNALQSLNIYGFCLVASLVASFIWPLALPACLLFTLITMLVFSLQRWRCP
LRMPMTLECADPSQDRMIKRSLFSFWPTLFQYEVILESPASGIFYVGYQRVRDIGRELWLSMDDLTRHIM
FFATTGGGKTETIFAWAINPLCWARGFTLVDGKAQNDTARTIWYLARRFGREDDVEVINFMNGGKSRSEI
ILSGEKTRPQSNTWNPFCYSTEAFTAETMQSMLPQNVQGGEWQSRAIAMNKALVFGTKFWCVREGKTMSL
QMLREHMTLEGMAKLYCRGLDDQWPEEAIAPLRNYLQDVPGFDLSLVRTPSAWTEEPRKQHAYLSGQFSE
TFSTFTEAFGDIFAEDSGDIDIRDSIHSDRILMVMIPALDTSAHTTSALGRMFITQKSMILARDLGYRLE
GTDSDALEVKKYKGRFPYLCFLDEVGAYYTDRIAVEATQVRSLDFALILMAQDQERIEGQTTATNTATLM
QNTGTKFAGRIVSEGSTARTLKSAAGEEARARMNNLQRQDGIFGESWIDSPQISILMESKINVQELIELH
PGEFFSIFRGETVPSASFFIPDDEKSCSSDPVVINRYISVDAPRLDRLRRLVPRTTQRRIPSPENVSAII
GVLTAKPSRKRRKIRTEPHTIVDTFQQRIAGRQAAMAMLEEYDTDINARESALWETAVNTLKTTTREERR
IRYITLNRPELPETKEENQISVRAERAGINLLTLPLDNNHPTGRPVNGFHHKKTNRPDWDGMY

  Protein domains



No domain identified.


  Protein structure



No available structure.




T4SS

T4SS were predicted by using oriTfinder2.

Region 1: 1376..30882

Locus tag Coordinates Strand Size (bp) Protein ID Product Description
FORC11_RS26485 (FORC11_p0279) 71..1225 + 1155 WP_001139955 tyrosine-type recombinase/integrase -
FORC11_RS26490 (FORC11_p0280) 1376..2200 + 825 WP_001690630 conjugal transfer protein TraE traE
FORC11_RS26495 (FORC11_p0281) 2286..3488 + 1203 WP_000976353 conjugal transfer protein TraF -
FORC11_RS26500 (FORC11_p0282) 3548..4132 + 585 WP_000977522 histidine phosphatase family protein -
FORC11_RS26505 4527..4985 + 459 WP_001079808 IncI1-type conjugal transfer lipoprotein TraH -
FORC11_RS26510 (FORC11_p0284) 4982..5800 + 819 WP_000646097 IncI1-type conjugal transfer lipoprotein TraI traI
FORC11_RS26515 5797..6945 + 1149 WP_001024972 plasmid transfer ATPase TraJ virB11
FORC11_RS30460 (FORC11_p0285) 6942..7232 + 291 WP_001299214 hypothetical protein traK
FORC11_RS26520 (FORC11_p0286) 7247..7798 + 552 WP_000014584 phospholipase D family protein -
FORC11_RS26525 (FORC11_p0287) 7888..11655 + 3768 WP_001141534 LPD7 domain-containing protein -
FORC11_RS26530 11673..12020 + 348 WP_001055900 conjugal transfer protein traL
FORC11_RS26535 (FORC11_p0288) 12017..12709 + 693 WP_000138552 DotI/IcmL family type IV secretion protein traM
FORC11_RS26540 (FORC11_p0289) 12720..13703 + 984 WP_001191880 IncI1-type conjugal transfer protein TraN traN
FORC11_RS26545 13706..14995 + 1290 WP_001271991 conjugal transfer protein TraO traO
FORC11_RS26550 (FORC11_p0290) 14995..15699 + 705 WP_000801920 IncI1-type conjugal transfer protein TraP traP
FORC11_RS26555 (FORC11_p0291) 15699..16226 + 528 WP_001055569 conjugal transfer protein TraQ traQ
FORC11_RS26560 (FORC11_p0292) 16277..16681 + 405 WP_000086960 IncI1-type conjugal transfer protein TraR traR
FORC11_RS26565 16745..16933 + 189 WP_001277255 putative conjugal transfer protein TraS -
FORC11_RS26570 (FORC11_p0293) 16917..17717 + 801 WP_001164788 IncI1-type conjugal transfer protein TraT traT
FORC11_RS26575 17807..20851 + 3045 WP_001024752 IncI1-type conjugal transfer protein TraU traU
FORC11_RS26580 (FORC11_p0294) 20851..21465 + 615 WP_000337394 IncI1-type conjugal transfer protein TraV traV
FORC11_RS26585 21432..22634 + 1203 WP_001189159 IncI1-type conjugal transfer protein TraW traW
FORC11_RS26590 (FORC11_p0295) 22663..23247 + 585 WP_001037987 IncI1-type conjugal transfer protein TraX -
FORC11_RS26595 (FORC11_p0296) 23344..25512 + 2169 WP_000698360 IncI1-type conjugal transfer membrane protein TraY traY
FORC11_RS26600 (FORC11_p0297) 25588..26202 + 615 WP_000578649 plasmid IncI1-type surface exclusion protein ExcA -
FORC11_RS26605 (FORC11_p0298) 26300..26509 + 210 WP_001140545 hemolysin expression modulator Hha -
FORC11_RS33740 26718..26894 + 177 WP_001054900 hypothetical protein -
FORC11_RS26620 (FORC11_p0301) 27818..28069 + 252 WP_001291965 hypothetical protein -
FORC11_RS26625 (FORC11_p0302) 28141..28293 - 153 WP_001303307 Hok/Gef family protein -
FORC11_RS26630 (FORC11_p0303) 28585..29793 + 1209 WP_000121273 IncI1-type conjugal transfer protein TrbA trbA
FORC11_RS26635 (FORC11_p0304) 29812..30882 + 1071 WP_000151582 IncI1-type conjugal transfer protein TrbB trbB
FORC11_RS26640 30875..33166 + 2292 WP_094190802 F-type conjugative transfer protein TrbC -

Host bacterium

ID   22415 GenBank   NZ_CP010831
Plasmid name   pFORC11.2 Incompatibility group   IncI1
Plasmid size   83905 bp Coordinate of oriT [Strand]   36260..36348 [+]
Host baterium   Shigella sonnei strain FORC_011

Cargo genes

Drug resistance gene   -
Virulence gene   -
Metal resistance gene   -
Degradation gene   -
Symbiosis gene   -
Anti-CRISPR   -