Detailed information of oriT

oriT

The information of the oriT region


oriTDB ID   102017
Name   oriT_FWSEC0156|unnamed3 in_silico
Organism   Escherichia coli strain FWSEC0156
Sequence Completeness      -
NCBI accession of oriT (coordinates [strand])   NZ_RRHV01000154 (1739..1827 [-], 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_FWSEC0156|unnamed3
GGGGTGTCGGGGCGAAGCCCTGACCAGATGGTAATTGTAATAGCGTCGCGTGTGACGGTATTACAATTACACATCCTGTCCCGTTTTTC

Visualization of oriT structure

  oriT secondary structure

Predicted by RNAfold.

Download structure file


Relaxase

ID   1610 GenBank   WP_001474686
Name   nikB_C9006_RS25790_FWSEC0156|unnamed3 insolico UniProt ID   A0A2J0RB70
Length   899 a.a. PDB ID   
Note   Predicted by oriTfinder 2.0

  Relaxase protein sequence


Download         Length: 899 a.a.        Molecular weight: 103834.33 Da        Isoelectric Point: 7.3473

>WP_001474686.1 MULTISPECIES: IncI1-type relaxase NikB [Enterobacteriaceae]
MNAVIPKKRRDGKSSFEDLVSYVSVRDDMTDEELNLSSSSQAEQPHRSRFSRLVDYATRLRNESFVALVD
VMKDGCEWVNFYGVTCFHNCTSLETAAADMEYIAQQAHYAKDNTDPVFHYILSWQAHESPRPEQIYDSVR
HTLKSLGLGEHQYVSAVHTDTDNLHVHVAVNRVHPVTGYLNCLSWSQEKLSRACRELELKHGFAPDNGCW
VHAPGNRIVRKTAVERDRQNAWTRGKKQTFREYVAQTAVAGLRSEPVHDWLSLHRRLAEDGLYLSQMDGK
FLVMDGWDRNREGVQLDSFGPSWCAEKLMKKMGDYTPVPKDIFSQVEAPGRYNPDFIAADVRPEKIAETE
SLQQYACRHLGERLPEMAREGRLENCQAIHRTLAEAGLWMRVQHGHLVICDGYDHNQTPVRADSVWSLLT
LDNVNQLDGGWQPVPTDIFLQVTPTERFRGRRMESCPATDKEWHRMRTGTGPQGAIKRELFSDKESLWGY
SISHCSPQIEEMITQGEFTWQRCHELFAQQGLMLQKQHHGLVVVDAFNHEQTPVKASSIHPDLTLGRAEP
QAGPFVSAPADLFDRVQPESRYNPELAVSDRYGVSSKRDPMLRRQRREARAEARADLRARYLAWREQWRK
PDLRYGERCREIHQACRLRKSHIRAQYDDPALRKLHYHIAEVQRMQALIRLKEDIRDERQKLIADGKWYP
PSYRQWVEIQAAQGDRAAVSQLRGWDYRDRRKDKSRTTTTDRCVVLCEPGGTPVYGNTGDLEARLQKNGS
VRFRDRRTGEFVCTDYGDRVVFRNHHDRNALADKLDLIAPVLFGRDPRMGFEPEGNDKQFNQVFAEMVAW
HNVTGRTGHEDYRITRPDVDHHREGSERYYRDYIAANSNDDASLPPPEQDKRWEPPSPG

  Protein domains


Predicted by InterproScan.

Relaxase/Mobilisation nuclease domain (Relaxase)

(62-314)


  Protein structure


Source ID Structure
AlphaFold DB A0A2J0RB70


Auxiliary protein

ID   652 GenBank   WP_001283947
Name   WP_001283947_FWSEC0156|unnamed3 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   1265 GenBank   WP_001289271
Name   trbC_C9006_RS25795_FWSEC0156|unnamed3 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: 86927.12 Da        Isoelectric Point: 6.7713

>WP_001289271.1 MULTISPECIES: F-type conjugative transfer protein TrbC [Enterobacteriaceae]
MSEHRVNPELLHRTAWGNPVWNALQSLNIYGFCLVASLVASFIWPLALPACLLFTLITMLVFSLQRWRCP
LRMPMTLECADPSQDRMIKRSLFSFWPTLFQYEVILESPASGIFYVGYQRVRDIGRELWLSMDDLTRHIM
FFATTGGGKTETIFAWAINPLCWARGFTLVDGKAQNDTARTIWYLARRFGREDDVEVINFMNGGKSRSEI
ILSGEKTRPQSNTWNPFCYSTEAFTAETMQSMLPQNVQGGEWQSRAIAMNKALVFGTKFWCVREGKTMSL
QMLREHMTLEGMAKLYCRGLDDQWPEEAIAPLRNYLQDVPGFDLSLVRTPSAWTEEPRKQHAYLSGQFSE
TFSTFTEAFGDIFAEDSGDIDIRDSIHSDRILMVMIPALDTSAHTTSALGRMFITQKSMILARDLGYRLE
GTDSDALEVKKYKGRFPYLCFLDEVGAYYTDRIAVEATQVRSLDFALILMAQDQERIEGQTTATNTATLM
QNTGTKFAGRIVSEGSTARTLKSAAGEEARARMNNLQRQDGIFGESWIDSPQISILMESKIDVQELIELH
PGEFFSIFRGETVPSASFFIPDNEKSCSSDPVVINRYISVDAPRLDRLRRLVPRTAQRRIPSPENVSAII
GVLTAKPSRKRRKIRTEPHTIVDTFQQRIAGRQAAMAMLEEYDTDINARESALWETAVNTLKTTTREERR
IRYITLNRPELPETKEENQISVRAERAGINLLTLPQDNNHLTGRPVNGFHHKKTNRPDWDGMY

  Protein domains



No domain identified.


  Protein structure



No available structure.




T4SS

T4SS were predicted by using oriTfinder2.

Region 1: 7205..38870

Locus tag Coordinates Strand Size (bp) Protein ID Product Description
C9006_RS25795 (C9006_25825) 4921..7212 - 2292 WP_001289271 F-type conjugative transfer protein TrbC -
C9006_RS25800 (C9006_25830) 7205..8275 - 1071 WP_000151575 IncI1-type conjugal transfer protein TrbB trbB
C9006_RS25805 (C9006_25835) 8294..9502 - 1209 WP_000121273 IncI1-type conjugal transfer protein TrbA trbA
C9006_RS25810 (C9006_25840) 9794..9946 + 153 WP_001303307 Hok/Gef family protein -
C9006_RS25815 (C9006_25845) 10018..10269 - 252 WP_001291965 hypothetical protein -
C9006_RS25820 (C9006_25850) 10630..11412 - 783 WP_001300609 IS21-like element IS100kyp family helper ATPase IstB -
C9006_RS25825 (C9006_25855) 11409..12431 - 1023 WP_001572805 IS21-like element IS100 family transposase -
C9006_RS26460 13152..13328 - 177 WP_001054900 hypothetical protein -
C9006_RS25840 (C9006_25870) 13720..13929 + 210 WP_000062603 HEAT repeat domain-containing protein -
C9006_RS25845 (C9006_25875) 14001..14663 - 663 WP_000644794 plasmid IncI1-type surface exclusion protein ExcA -
C9006_RS25850 (C9006_25880) 14734..16902 - 2169 WP_000698368 DotA/TraY family protein traY
C9006_RS25855 (C9006_25885) 16999..17583 - 585 WP_001037998 conjugal transfer protein TraX -
C9006_RS25860 (C9006_25890) 17612..18814 - 1203 WP_001189158 IncI1-type conjugal transfer protein TraW traW
C9006_RS25865 (C9006_25895) 18781..19395 - 615 WP_000337394 IncI1-type conjugal transfer protein TraV traV
C9006_RS25870 (C9006_25900) 19395..22439 - 3045 WP_001024751 IncI1-type conjugal transfer protein TraU traU
C9006_RS25875 (C9006_25905) 22529..23329 - 801 WP_001164788 IncI1-type conjugal transfer protein TraT traT
C9006_RS25880 (C9006_25910) 23313..23501 - 189 WP_001277255 putative conjugal transfer protein TraS -
C9006_RS25885 (C9006_25915) 23565..23969 - 405 WP_000086960 IncI1-type conjugal transfer protein TraR traR
C9006_RS25890 (C9006_25920) 24020..24547 - 528 WP_001055569 conjugal transfer protein TraQ traQ
C9006_RS25895 (C9006_25925) 24547..25251 - 705 WP_000801920 IncI1-type conjugal transfer protein TraP traP
C9006_RS25900 (C9006_25930) 25251..26540 - 1290 WP_001271997 conjugal transfer protein TraO traO
C9006_RS25905 (C9006_25935) 26543..27526 - 984 WP_001191878 IncI1-type conjugal transfer protein TraN traN
C9006_RS25910 (C9006_25940) 27537..28229 - 693 WP_000138552 DotI/IcmL family type IV secretion protein traM
C9006_RS25915 (C9006_25945) 28226..28573 - 348 WP_001055900 conjugal transfer protein traL
C9006_RS25920 (C9006_25950) 28591..32358 - 3768 WP_001141535 LPD7 domain-containing protein -
C9006_RS25925 (C9006_25955) 32448..32999 - 552 WP_000014584 phospholipase D family protein -
C9006_RS25930 (C9006_25960) 33014..33304 - 291 WP_001299214 hypothetical protein traK
C9006_RS25935 (C9006_25965) 33301..34449 - 1149 WP_001024972 plasmid transfer ATPase TraJ virB11
C9006_RS25940 (C9006_25970) 34446..35264 - 819 WP_000646097 IncI1-type conjugal transfer lipoprotein TraI traI
C9006_RS25945 (C9006_25975) 35261..35719 - 459 WP_001079808 IncI1-type conjugal transfer lipoprotein TraH -
C9006_RS25950 (C9006_25980) 36114..36698 - 585 WP_000977517 histidine phosphatase family protein -
C9006_RS25955 (C9006_25985) 36758..37960 - 1203 WP_000976353 conjugal transfer protein TraF -
C9006_RS25960 (C9006_25990) 38046..38870 - 825 WP_001238927 conjugal transfer protein TraE traE
C9006_RS25965 (C9006_25995) 39021..40175 - 1155 WP_001139958 site-specific integrase -

Host bacterium

ID   2461 GenBank   NZ_RRHV01000154
Plasmid name   FWSEC0156|unnamed3 Incompatibility group   -
Plasmid size   40246 bp Coordinate of oriT [Strand]   1739..1827 [-]
Host baterium   Escherichia coli strain FWSEC0156

Cargo genes

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