Detailed information of oriT

oriT

The information of the oriT region


oriTDB ID   106636
Name   oriT_RHB44-C01|unnamed1 in_silico
Organism   Escherichia fergusonii strain RHB44-C01
Sequence Completeness      -
NCBI accession of oriT (coordinates [strand])   NZ_CP099339 (55391..55479 [-], 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_RHB44-C01|unnamed1
GGGGTGTCGGGGCGAAGCCCTGACCAGATGGCAATTGTAATAGCGTCGCGTGTGACGGTATTACAATTGCACATCCTGTCCCGTTTTTC

Visualization of oriT structure

  oriT secondary structure

Predicted by RNAfold.

Download structure file


Relaxase

ID   4394 GenBank   WP_279279849
Name   nikB_NFK94_RS22120_RHB44-C01|unnamed1 insolico UniProt ID   _
Length   899 a.a. PDB ID   
Note   Predicted by oriTfinder 2.0

  Relaxase protein sequence


Download         Length: 899 a.a.        Molecular weight: 103985.35 Da        Isoelectric Point: 7.4355

>WP_279279849.1 IncI1-type relaxase NikB [Escherichia fergusonii]
MNAVIPKKRRDGKSSFEDLVSYVSVRDDMTDEELDLSSSSQAEQPHRSRFSRLVDYATRLRNESFVALVD
VMKDGCEWVNFYGVTCFHNCTSLETAAADMEYIARQAHYAKDDTDPVFHYILSWQSHESPRPEQIYDSVR
HTLKSLGLADHQYVSAVHTDTDNLHVHVAVNRVHPETGYLNRLSWSQEKLSRACRELELKHGFAPDNGCW
VHAPGNRIVRKTAVERDRQNAWTRGKKQTFREYVAQTAVAGLRSEPVHDWLSLHRRLAEDGLYLSQMDGK
FLVMDGWDRNREGVQLDSFGPSWCAEKLMKKMGDYTPVPKDIFSQVEAPGRYNPDFIAADVRPEKIAETE
SLQQYACRHPGERLPEMAREGRLENCQAIHRTLAEAGLWMRVQHGHLVICDGYDHNQTPVRADSVWSLLT
LDNVNQLDGGWQPVPTDIFRQVTPTERFRGRRMESCPATDKEWHRMRTGTGPQGAIKRELFSDKESLWGY
SISHCSPQIEEMITQGEFTWQRCHELFAQQGLMLQKQHHGLVVVDAFNHEQTPVKASSIHPDLTLGRAEP
QAGPFVSAPADLFDRVQPESRYNPELAVSDRYGVSSKRDPVLRRQRREARAEARADLRARYLAWREQWRK
PDLRYGERCREIHQACRLRKSHIRAQYDDPALRKLHYHIAEVQRMQALIRLKEDIRDERQKLIADGKWYP
PSYRQWVEIQAAQGDRAAVSQLRGWDYRDRRKDRSRTTTTDRCVVLCEPGGTPVYGNTGDLEARLQKNGS
VRFRDRRTGEFVCTDYGDRVVFRNHHDRNALADKLDLIAPVLFGRDPRMGFEPEGNDKQFNQVFAEMVAW
HNVTGRTGHEDYRITRPDVDHHREGSERYYRDYIAANSNNDASLPPPEQDKRWEPPSPG

  Protein domains


Predicted by InterproScan.

Relaxase/Mobilisation nuclease domain (Relaxase)

(62-314)


  Protein structure



No available structure.




Auxiliary protein

ID   1957 GenBank   WP_001283947
Name   WP_001283947_RHB44-C01|unnamed1 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   4426 GenBank   WP_001289276
Name   trbC_NFK94_RS22125_RHB44-C01|unnamed1 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: 60857..97585

Locus tag Coordinates Strand Size (bp) Protein ID Product Description
NFK94_RS22125 (NFK94_22095) 58573..60864 - 2292 WP_001289276 F-type conjugative transfer protein TrbC -
NFK94_RS22130 (NFK94_22100) 60857..61927 - 1071 WP_000151583 IncI1-type conjugal transfer protein TrbB trbB
NFK94_RS22135 (NFK94_22105) 61946..63154 - 1209 WP_000121273 IncI1-type conjugal transfer protein TrbA trbA
NFK94_RS22140 (NFK94_22110) 63446..63598 + 153 WP_001331364 Hok/Gef family protein -
NFK94_RS22145 (NFK94_22115) 63670..63921 - 252 WP_001291964 hypothetical protein -
NFK94_RS22150 64420..64515 + 96 WP_001303310 DinQ-like type I toxin DqlB -
NFK94_RS22155 (NFK94_22125) 64580..64756 - 177 WP_001054904 hypothetical protein -
NFK94_RS22160 (NFK94_22130) 65148..65357 + 210 WP_000062603 HEAT repeat domain-containing protein -
NFK94_RS22165 (NFK94_22135) 65429..66079 - 651 WP_001178506 plasmid IncI1-type surface exclusion protein ExcA -
NFK94_RS22170 (NFK94_22140) 66153..68321 - 2169 WP_021537350 DotA/TraY family protein traY
NFK94_RS22175 (NFK94_22145) 68418..69002 - 585 WP_001037987 IncI1-type conjugal transfer protein TraX -
NFK94_RS22180 (NFK94_22150) 69031..70233 - 1203 WP_001189160 IncI1-type conjugal transfer protein TraW traW
NFK94_RS22185 (NFK94_22155) 70200..70814 - 615 WP_000337398 IncI1-type conjugal transfer protein TraV traV
NFK94_RS22190 (NFK94_22160) 70814..73858 - 3045 WP_021265678 IncI1-type conjugal transfer protein TraU traU
NFK94_RS22195 (NFK94_22165) 73948..74748 - 801 WP_001164788 IncI1-type conjugal transfer protein TraT traT
NFK94_RS22200 (NFK94_22170) 74732..74920 - 189 WP_001277255 putative conjugal transfer protein TraS -
NFK94_RS22205 (NFK94_22175) 74984..75388 - 405 WP_000086958 IncI1-type conjugal transfer protein TraR traR
NFK94_RS22210 (NFK94_22180) 75439..75966 - 528 WP_001055569 conjugal transfer protein TraQ traQ
NFK94_RS22215 (NFK94_22185) 75966..76670 - 705 WP_000801920 IncI1-type conjugal transfer protein TraP traP
NFK94_RS22220 (NFK94_22190) 76670..77959 - 1290 WP_001272003 conjugal transfer protein TraO traO
NFK94_RS22225 (NFK94_22195) 77962..78945 - 984 WP_001191877 IncI1-type conjugal transfer protein TraN traN
NFK94_RS22230 (NFK94_22200) 78956..79648 - 693 WP_000138550 DotI/IcmL family type IV secretion protein traM
NFK94_RS22235 (NFK94_22205) 79645..79992 - 348 WP_001055900 conjugal transfer protein traL
NFK94_RS22240 (NFK94_22210) 80010..83777 - 3768 WP_001141527 LPD7 domain-containing protein -
NFK94_RS22245 (NFK94_22215) 83866..84417 - 552 WP_000014583 phospholipase D family protein -
NFK94_RS22250 (NFK94_22220) 84432..84722 - 291 WP_001299214 hypothetical protein traK
NFK94_RS22255 (NFK94_22225) 84719..85867 - 1149 WP_001024972 plasmid transfer ATPase TraJ virB11
NFK94_RS22260 (NFK94_22230) 85864..86682 - 819 WP_000646098 IncI1-type conjugal transfer lipoprotein TraI traI
NFK94_RS22265 (NFK94_22235) 86679..87137 - 459 WP_001079808 IncI1-type conjugal transfer lipoprotein TraH -
NFK94_RS22270 (NFK94_22240) 87532..88116 - 585 WP_000977522 histidine phosphatase family protein -
NFK94_RS22275 (NFK94_22245) 88176..89378 - 1203 WP_000976351 conjugal transfer protein TraF -
NFK94_RS22280 (NFK94_22250) 89463..90287 - 825 WP_001238939 conjugal transfer protein TraE traE
NFK94_RS22285 (NFK94_22255) 90438..91592 - 1155 WP_001139957 site-specific integrase -
NFK94_RS22290 (NFK94_22260) 91904..93238 - 1335 WP_024132209 shufflon system plasmid conjugative transfer pilus tip adhesin PilV -
NFK94_RS22295 (NFK94_22265) 93238..93894 - 657 WP_001193553 prepilin peptidase -
NFK94_RS22300 (NFK94_22270) 93879..94439 - 561 WP_000014116 lytic transglycosylase domain-containing protein virB1
NFK94_RS22305 (NFK94_22275) 94449..95063 - 615 WP_000959785 type 4 pilus major pilin -
NFK94_RS22310 (NFK94_22280) 95081..96178 - 1098 WP_001208805 type II secretion system F family protein -
NFK94_RS22315 (NFK94_22285) 96191..97744 - 1554 WP_000362202 ATPase, T2SS/T4P/T4SS family -
NFK94_RS22320 (NFK94_22290) 97755..98207 - 453 WP_001247334 type IV pilus biogenesis protein PilP -
NFK94_RS22325 (NFK94_22295) 98194..99489 - 1296 WP_000752772 type 4b pilus protein PilO2 -
NFK94_RS22330 (NFK94_22300) 99482..101164 - 1683 WP_000748143 PilN family type IVB pilus formation outer membrane protein -
NFK94_RS22335 (NFK94_22305) 101178..101615 - 438 WP_000539807 type IV pilus biogenesis protein PilM -

Host bacterium

ID   7073 GenBank   NZ_CP099339
Plasmid name   RHB44-C01|unnamed1 Incompatibility group   IncI1
Plasmid size   108225 bp Coordinate of oriT [Strand]   55391..55479 [-]
Host baterium   Escherichia fergusonii strain RHB44-C01

Cargo genes

Drug resistance gene   dfrA1, ant(3'')-Ia, blaTEM-1B, sul2
Virulence gene   -
Metal resistance gene   -
Degradation gene   -
Symbiosis gene   -
Anti-CRISPR   -