Detailed information of oriT

oriT

The information of the oriT region


oriTDB ID   118392
Name   oriT_p3RM9974 in_silico
Organism   Escherichia albertii strain RM9974
Sequence Completeness      -
NCBI accession of oriT (coordinates [strand])   NZ_CP043268 (36946..37034 [+], 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_p3RM9974
GGGGTGTCGGGGCGAAGCCCTGACCAGATGGTAATTGTAATAGCGTCGCGTGTGACGGTATTACAATTACACATCCTGTCCCGTTTTTC

Visualization of oriT structure

  oriT secondary structure

Predicted by RNAfold.

Download structure file


Relaxase

ID   11680 GenBank   WP_001474686
Name   nikB_FYK18_RS24710_p3RM9974 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   6743 GenBank   WP_001283947
Name   WP_001283947_p3RM9974 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   13677 GenBank   WP_001289271
Name   trbC_FYK18_RS24705_p3RM9974 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: 1862..31568

Locus tag Coordinates Strand Size (bp) Protein ID Product Description
FYK18_RS24550 (FYK18_24890) 557..1711 + 1155 WP_001139958 tyrosine-type recombinase/integrase -
FYK18_RS24555 (FYK18_24895) 1862..2686 + 825 WP_001238927 conjugal transfer protein TraE traE
FYK18_RS24560 (FYK18_24900) 2772..3974 + 1203 WP_000976353 conjugal transfer protein TraF -
FYK18_RS24565 (FYK18_24905) 4034..4618 + 585 WP_000977517 histidine phosphatase family protein -
FYK18_RS24570 (FYK18_24910) 5013..5471 + 459 WP_001079808 IncI1-type conjugal transfer lipoprotein TraH -
FYK18_RS24575 (FYK18_24915) 5468..6286 + 819 WP_000646097 IncI1-type conjugal transfer lipoprotein TraI traI
FYK18_RS24580 (FYK18_24920) 6283..7431 + 1149 WP_001024972 plasmid transfer ATPase TraJ virB11
FYK18_RS24585 (FYK18_24925) 7428..7718 + 291 WP_001299214 hypothetical protein traK
FYK18_RS24590 (FYK18_24930) 7733..8284 + 552 WP_000014584 phospholipase D family protein -
FYK18_RS24595 (FYK18_24935) 8374..12141 + 3768 WP_001141535 LPD7 domain-containing protein -
FYK18_RS24600 (FYK18_24940) 12159..12506 + 348 WP_001055900 conjugal transfer protein traL
FYK18_RS24605 (FYK18_24945) 12503..13195 + 693 WP_000138552 DotI/IcmL family type IV secretion protein traM
FYK18_RS24610 (FYK18_24950) 13206..14189 + 984 WP_001191878 IncI1-type conjugal transfer protein TraN traN
FYK18_RS24615 (FYK18_24955) 14192..15481 + 1290 WP_001271997 conjugal transfer protein TraO traO
FYK18_RS24620 (FYK18_24960) 15481..16185 + 705 WP_000801920 IncI1-type conjugal transfer protein TraP traP
FYK18_RS24625 (FYK18_24965) 16185..16712 + 528 WP_001055569 conjugal transfer protein TraQ traQ
FYK18_RS24630 (FYK18_24970) 16763..17167 + 405 WP_000086960 IncI1-type conjugal transfer protein TraR traR
FYK18_RS24635 (FYK18_24975) 17231..17419 + 189 WP_001277255 putative conjugal transfer protein TraS -
FYK18_RS24640 (FYK18_24980) 17403..18203 + 801 WP_001164788 IncI1-type conjugal transfer protein TraT traT
FYK18_RS24645 (FYK18_24985) 18293..21337 + 3045 WP_001024752 IncI1-type conjugal transfer protein TraU traU
FYK18_RS24650 (FYK18_24990) 21337..21951 + 615 WP_000337394 IncI1-type conjugal transfer protein TraV traV
FYK18_RS24655 (FYK18_24995) 21918..23120 + 1203 WP_001189158 IncI1-type conjugal transfer protein TraW traW
FYK18_RS24660 (FYK18_25000) 23149..23733 + 585 WP_001037998 conjugal transfer protein TraX -
FYK18_RS24665 (FYK18_25005) 23830..25998 + 2169 WP_000698368 DotA/TraY family protein traY
FYK18_RS24670 (FYK18_25010) 26069..26731 + 663 WP_000644794 plasmid IncI1-type surface exclusion protein ExcA -
FYK18_RS24675 (FYK18_25015) 26803..27012 - 210 WP_000062603 HEAT repeat domain-containing protein -
FYK18_RS24680 27404..27580 + 177 WP_001054900 hypothetical protein -
FYK18_RS24685 (FYK18_25030) 28504..28755 + 252 WP_001291965 hypothetical protein -
FYK18_RS24690 (FYK18_25035) 28827..28979 - 153 WP_001303307 Hok/Gef family protein -
FYK18_RS24695 (FYK18_25040) 29271..30479 + 1209 WP_000121273 IncI1-type conjugal transfer protein TrbA trbA
FYK18_RS24700 (FYK18_25045) 30498..31568 + 1071 WP_000151575 IncI1-type conjugal transfer protein TrbB trbB
FYK18_RS24705 (FYK18_25050) 31561..33852 + 2292 WP_001289271 F-type conjugative transfer protein TrbC -

Host bacterium

ID   18825 GenBank   NZ_CP043268
Plasmid name   p3RM9974 Incompatibility group   IncI1
Plasmid size   96650 bp Coordinate of oriT [Strand]   36946..37034 [+]
Host baterium   Escherichia albertii strain RM9974

Cargo genes

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