Detailed information of oriT

oriT

The information of the oriT region


oriTDB ID   103071
Name   oriT_pS68 in_silico
Organism   Escherichia coli strain S68
Sequence Completeness      -
NCBI accession of oriT (coordinates [strand])   NZ_KU130396 (39695..39783 [+], 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_pS68
GGGGTGTCGGGGCGAAGCCCTGACCAGATGGTAATTGTAATAGCGTCGCGTGTGACGGTATTACAATTACACATCCTGTCCCGTTTTTC

Visualization of oriT structure

  oriT secondary structure

Predicted by RNAfold.

Download structure file


Relaxase

ID   2299 GenBank   WP_001405892
Name   nikB_HTI06_RS00190_pS68 insolico UniProt ID   A0A3V4WX06
Length   899 a.a. PDB ID   
Note   Predicted by oriTfinder 2.0

  Relaxase protein sequence


Download         Length: 899 a.a.        Molecular weight: 103883.32 Da        Isoelectric Point: 7.3373

>WP_001405892.1 MULTISPECIES: IncI1-type relaxase NikB [Enterobacteriaceae]
MNAVIPKKRRDGKSSFEDLVSYVSVRDDMTDEELDLSSSSQAEQPHRSRFSRLVDYATRLRNESFVALVD
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 A0A3V4WX06


Auxiliary protein

ID   957 GenBank   WP_001283947
Name   WP_001283947_pS68 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   2012 GenBank   WP_001289276
Name   trbC_HTI06_RS00185_pS68 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: 86941.11 Da        Isoelectric Point: 6.7713

>WP_001289276.1 MULTISPECIES: F-type conjugative transfer protein TrbC [Enterobacteriaceae]
MSEHRVNPELLHRTAWGNPVWNALQSLNIYGFCLVASLVASFIWPLALPACLLFTLITMLVFSLQRWRCP
LRMPMTLECADPSQDRMIKRSLFSFWPTLFQYEVILESPASGIFYVGYQRVRDIGRELWLSMDDLTRHIM
FFATTGGGKTETIFAWAINPLCWARGFTLVDGKAQNDTARTIWYLARRFGREDDVEVINFMNGGKSRSEI
ILSGEKTRPQSNTWNPFCYSTEAFTAETMQSMLPQNVQGGEWQSRAIAMNKALVFGTKFWCVREGKTMSL
QMLREHMTLEGMAKLYCRGLDDQWPEEAIAPLRNYLQDVPGFDLSLVRTPSAWTEEPRKQHAYLSGQFSE
TFSTFTEAFGDIFAEDSGDIDIRDSIHSDRILMVMIPALDTSAHTTSALGRMFITQKSMILARDLGYRLE
GTDSDALEVKKYKGRFPYLCFLDEVGAYYTDRIAVEATQVRSLDFALILMAQDQERIEGQTTATNTATLM
QNTGTKFAGRIVSEGSTARTLKSAAGEEARARMNNLQRQDGIFGESWIDSPQISILMESKINVQELIELH
PGEFFSIFRGETVPSASFFIPDDEKSCSSDPVVINRYISVDAPRLDRLRRLVPRTTQRRIPSPENVSAII
GVLTAKPSRKRRKIRTEPHTIVDTFQQRIAGRQAAMAMLEEYDTDINARESALWETAVNTLKTTTREERR
IRYITLNRPELPETKEENQISVRAERAGINLLTLPQDNNHPTGRPVNGFHHKKTNRPDWDGMY

  Protein domains



No domain identified.


  Protein structure



No available structure.




T4SS

T4SS were predicted by using oriTfinder2.

Region 1: 3390..34317

Locus tag Coordinates Strand Size (bp) Protein ID Product Description
HTI06_RS00715 448..669 - 222 Protein_1 prepilin -
HTI06_RS00690 1733..2101 - 369 WP_015059923 hypothetical protein -
HTI06_RS00025 2085..3239 + 1155 WP_001139958 site-specific integrase -
HTI06_RS00030 3390..4214 + 825 WP_001238929 conjugal transfer protein TraE traE
HTI06_RS00035 4300..5502 + 1203 WP_000976353 conjugal transfer protein TraF -
HTI06_RS00040 5562..6146 + 585 WP_000977522 histidine phosphatase family protein -
HTI06_RS00045 6541..6999 + 459 WP_001079808 IncI1-type conjugal transfer lipoprotein TraH -
HTI06_RS00050 6996..7814 + 819 WP_000646097 IncI1-type conjugal transfer lipoprotein TraI traI
HTI06_RS00055 7811..8959 + 1149 WP_001024972 plasmid transfer ATPase TraJ virB11
HTI06_RS00060 8956..9246 + 291 WP_001372180 hypothetical protein traK
HTI06_RS00065 9261..9812 + 552 WP_000014584 phospholipase D family protein -
HTI06_RS00070 9902..13669 + 3768 WP_001579768 LPD7 domain-containing protein -
HTI06_RS00075 13687..14034 + 348 WP_001055900 conjugal transfer protein traL
HTI06_RS00080 14031..14723 + 693 WP_000138552 DotI/IcmL family type IV secretion protein traM
HTI06_RS00085 14734..15717 + 984 WP_001191878 IncI1-type conjugal transfer protein TraN traN
HTI06_RS00090 15720..17009 + 1290 WP_063074922 conjugal transfer protein TraO traO
HTI06_RS00095 17009..17713 + 705 WP_000801920 IncI1-type conjugal transfer protein TraP traP
HTI06_RS00100 17713..18240 + 528 WP_001055569 conjugal transfer protein TraQ traQ
HTI06_RS00105 18291..18695 + 405 WP_000086960 IncI1-type conjugal transfer protein TraR traR
HTI06_RS00110 18759..18947 + 189 WP_001277255 putative conjugal transfer protein TraS -
HTI06_RS00115 18931..19731 + 801 WP_001164788 IncI1-type conjugal transfer protein TraT traT
HTI06_RS00120 19821..22865 + 3045 WP_001024752 IncI1-type conjugal transfer protein TraU traU
HTI06_RS00125 22865..23479 + 615 WP_000337394 IncI1-type conjugal transfer protein TraV traV
HTI06_RS00130 23446..24648 + 1203 WP_001189159 IncI1-type conjugal transfer protein TraW traW
HTI06_RS00135 24677..25261 + 585 WP_001579774 IncI1-type conjugal transfer protein TraX -
HTI06_RS00140 25358..27526 + 2169 WP_000698360 IncI1-type conjugal transfer membrane protein TraY traY
HTI06_RS00145 27602..28216 + 615 WP_000578649 plasmid IncI1-type surface exclusion protein ExcA -
HTI06_RS00150 28314..28523 + 210 WP_001140545 hemolysin expression modulator Hha -
HTI06_RS00155 28624..28908 + 285 WP_014640317 hypothetical protein -
HTI06_RS00160 29832..30083 + 252 WP_001291968 hypothetical protein -
HTI06_RS00165 30155..30307 - 153 WP_001303307 Hok/Gef family protein -
HTI06_RS00170 30934..31713 + 780 WP_275450201 protein FinQ -
HTI06_RS00175 32020..33228 + 1209 WP_000121273 IncI1-type conjugal transfer protein TrbA trbA
HTI06_RS00180 33247..34317 + 1071 WP_000151582 IncI1-type conjugal transfer protein TrbB trbB
HTI06_RS00185 34310..36601 + 2292 WP_001289276 F-type conjugative transfer protein TrbC -

Host bacterium

ID   3514 GenBank   NZ_KU130396
Plasmid name   pS68 Incompatibility group   IncI1
Plasmid size   115776 bp Coordinate of oriT [Strand]   39695..39783 [+]
Host baterium   Escherichia coli strain S68

Cargo genes

Drug resistance gene   erm(B), rmtE, ant(3'')-Ia
Virulence gene   -
Metal resistance gene   -
Degradation gene   -
Symbiosis gene   -
Anti-CRISPR   AcrVA2