Detailed information of oriT

oriT

The information of the oriT region


oriTDB ID   105244
Name   oriT_pRHB26-C03_2 in_silico
Organism   Escherichia fergusonii strain RHB26-C03
Sequence Completeness      -
NCBI accession of oriT (coordinates [strand])   NZ_CP057464 (38419..38507 [-], 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_pRHB26-C03_2
GGGGTGTCGGGGCGAAGCCCTGACCAGATGGTAATTGTAATAGCGTCGCGTGTGACGGTATTACAATTACACATCCTGTCCCGTTTTTC

Visualization of oriT structure

  oriT secondary structure

Predicted by RNAfold.

Download structure file


Relaxase

ID   3601 GenBank   WP_061348418
Name   nikB_HVY27_RS22765_pRHB26-C03_2 insolico UniProt ID   A0A1E5WPG6
Length   899 a.a. PDB ID   
Note   Predicted by oriTfinder 2.0

  Relaxase protein sequence


Download         Length: 899 a.a.        Molecular weight: 103943.43 Da        Isoelectric Point: 7.2489

>WP_061348418.1 MULTISPECIES: IncI1-type relaxase NikB [Enterobacteriaceae]
MNAVIPKKRRDGKSSFEDLVSYVSVRDDMTDEELNLSSSSQAEQPHRSRFSRLVDYATRLRNESFVALVD
VMKDGCEWVNFYGVTCFHNCTSLETAAADMEYIAQQAHYAKDNTDPVFHYILSWQAHESPRPEQIYDSVR
HTLKSLGLGEHQYVSAVHTDTDNLHVHVAVNRVHPVTGYLNCLSWSQEKLSRACRELELKHGFAPDNGCW
VHAPGNRIVRKTAVERDRQNAWTRGKKQTFREYVAQTAVAGLRSEPVHDWLSLHRRLAEDGLYLSQMDGK
FLVMDGWDRNREGVQLDSFGPSWCAEKLMKKMGDYTPVPKDIFSQVEAPGRYNPDFIAADVRPEKIAETE
SLQQYACRHLGERLPEMAREGRLENCQAIHRTLAEAGLWMRVQHGHLVICDGYDHNQTPVRADSVWSLLT
LDNVNQLDGGWQPVPTDIFRQVTPTERFRGRRMESCPATDKEWHRMRTGTGPQGAIKRELFSDKESLWGY
SISHCSPQIEEMITQGEFTWQRCHELFAQQGLMLQKQHHGLVVVDAFNHEQTPVKASSIHPDLTLGRAEP
QAGPFVSAPADLFDRVQPENRYNPELAVSDRYGVSSKRDPMLRRQRREARAEARADLRARYLAWREQWRK
PDLRYGERCREIHQACRLRKSHIRAQYDDPALRKLHYHIAEVQRMQALIRLKEDIRDERQKLIADGKWYP
PSYRQWVEIQAAQGDRAAVSQLRGWDYRDRRKDKSRTTTTDRCVVLCEPGGTPVYGNTGDLEARLQKNGS
VRFRDRRTGELVCTDYGDRVVFRNHHDRNALADKLDLIAPVLFERDPRMGFEPEGNDGQFNQVFAEMVAW
YNVTGFSEHGNYVITRPDVDQHREVSERGYRNYMDSNTYRDGAQPVQDSENRWEPPTPV

  Protein domains


Predicted by InterproScan.

Relaxase/Mobilisation nuclease domain (Relaxase)

(62-314)


  Protein structure


Source ID Structure
AlphaFold DB A0A1E5WPG6


Auxiliary protein

ID   1612 GenBank   WP_001283947
Name   WP_001283947_pRHB26-C03_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   3561 GenBank   WP_072279833
Name   trbC_HVY27_RS22790_pRHB26-C03_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: 86957.15 Da        Isoelectric Point: 6.7713

>WP_072279833.1 MULTISPECIES: F-type conjugative transfer protein TrbC [Enterobacteriaceae]
MSEHRVNPELLHRTAWGNPVWNALQSLNIYGFCLVASLVASFIWPLALPACLLFTLITMLVFSLQRWRCP
LRMPMTLECADPSQDRMIKRSLFSFWPTLFQYEVILESPASGIFYVGYQRVRDIGRELWLSMDDLTRHIM
FFATTGGGKTETIFAWAINPLCWARGFTLVDGKAQNDTARTIWYLARRFGREDDVEVINFMNGGKSRSEI
ILSGEKTRPQSNTWNPFCYSTEAFTAETMQSMLPQNVQGGEWQSRAIAMNKALVFGTKFWCVREGKTMSL
QMLREHMTLEGMAKLYCRGLDDQWPEEAIAPLRNYLQDVPGFDLSLVRTPSAWTEEPRKQHAYLSGQFSE
TFSTFTEAFGDIFAEDSGDIDIRDSIHSDRILMVMIPALDTSAHTTSALGRMFITQKSMILARDLGYRLE
GTDSDALEVKKYKGRFPYLCFLDEVGAYYTDRIAVEATQVRSLDFALILMAQDQERIEGQTTATNTATLM
QNTGTKFAGRIVSEGSTARTLKSAAGEEARARMNNLQRQDGIFGESWIDSPQISILMESKIDVQELIELH
PGEFFSIFRGETVPSASFFIPDNEKSCSSDPVVINRYISVDAPRLDRLRRLVPRTTQRRIPSPENVSAII
GVLTAKPSRKRRKIRTEPHTIVDTFQQRIAGRQAAMAMLEEYDTDINARESALWETAVNTLKTTTREERR
IRYITLNRPELPETKEENQISVRAERAGINLLTLPQDNNHLTGRPVNGFHHKKTNRPDWDGMY

  Protein domains



No domain identified.


  Protein structure



No available structure.




T4SS

T4SS were predicted by using oriTfinder2.

Region 1: 66800..97111

Locus tag Coordinates Strand Size (bp) Protein ID Product Description
HVY27_RS22865 (HVY27_22860) 62005..62352 + 348 WP_000609174 IS66 family insertion sequence element accessory protein TnpB -
HVY27_RS22870 (HVY27_22865) 62402..63936 + 1535 Protein_71 IS66 family transposase -
HVY27_RS22875 (HVY27_22870) 63970..64311 + 342 Protein_72 transposase -
HVY27_RS22880 (HVY27_22875) 65218..65394 - 177 WP_001054900 hypothetical protein -
HVY27_RS22885 (HVY27_22880) 65786..65995 + 210 WP_000062603 HEAT repeat domain-containing protein -
HVY27_RS22890 (HVY27_22885) 66067..66729 - 663 WP_000644794 plasmid IncI1-type surface exclusion protein ExcA -
HVY27_RS22895 (HVY27_22890) 66800..68968 - 2169 WP_061348430 DotA/TraY family protein traY
HVY27_RS22900 (HVY27_22895) 69065..69649 - 585 WP_061348429 IncI1-type conjugal transfer protein TraX -
HVY27_RS22905 (HVY27_22900) 69678..70880 - 1203 WP_069906147 IncI1-type conjugal transfer protein TraW traW
HVY27_RS22910 (HVY27_22905) 70847..71461 - 615 WP_000337400 IncI1-type conjugal transfer protein TraV traV
HVY27_RS22915 (HVY27_22910) 71461..74505 - 3045 WP_001024780 IncI1-type conjugal transfer protein TraU traU
HVY27_RS22920 (HVY27_22915) 74595..75395 - 801 WP_001164788 IncI1-type conjugal transfer protein TraT traT
HVY27_RS22925 (HVY27_22920) 75379..75567 - 189 WP_001277255 putative conjugal transfer protein TraS -
HVY27_RS22930 (HVY27_22925) 75631..76035 - 405 WP_000086960 IncI1-type conjugal transfer protein TraR traR
HVY27_RS22935 (HVY27_22930) 76086..76613 - 528 WP_001055569 conjugal transfer protein TraQ traQ
HVY27_RS22940 (HVY27_22935) 76613..77317 - 705 WP_000801920 IncI1-type conjugal transfer protein TraP traP
HVY27_RS22945 (HVY27_22940) 77317..78606 - 1290 WP_061348428 conjugal transfer protein TraO traO
HVY27_RS22950 (HVY27_22945) 78609..79592 - 984 WP_061348427 IncI1-type conjugal transfer protein TraN traN
HVY27_RS22955 (HVY27_22950) 79603..80295 - 693 WP_000138552 DotI/IcmL family type IV secretion protein traM
HVY27_RS22960 (HVY27_22955) 80292..80639 - 348 WP_001055900 conjugal transfer protein traL
HVY27_RS22965 (HVY27_22960) 80657..84424 - 3768 WP_115978214 LPD7 domain-containing protein -
HVY27_RS22970 (HVY27_22965) 84514..85065 - 552 WP_000014584 phospholipase D family protein -
HVY27_RS22975 (HVY27_22970) 85080..85370 - 291 WP_001372180 hypothetical protein traK
HVY27_RS22980 (HVY27_22975) 85367..86515 - 1149 WP_001024972 plasmid transfer ATPase TraJ virB11
HVY27_RS22985 (HVY27_22980) 86512..87330 - 819 WP_000646097 IncI1-type conjugal transfer lipoprotein TraI traI
HVY27_RS22990 (HVY27_22985) 87327..87785 - 459 WP_001079808 IncI1-type conjugal transfer lipoprotein TraH -
HVY27_RS22995 (HVY27_22990) 88180..88764 - 585 WP_000977522 histidine phosphatase family protein -
HVY27_RS23000 (HVY27_22995) 88824..90026 - 1203 WP_061348425 conjugal transfer protein TraF -
HVY27_RS23005 (HVY27_23000) 90112..90936 - 825 WP_001238942 conjugal transfer protein TraE traE
HVY27_RS23010 (HVY27_23005) 91144..91269 + 126 Protein_99 transposase -
HVY27_RS23015 (HVY27_23010) 91326..92618 - 1293 WP_001350014 shufflon system plasmid conjugative transfer pilus tip adhesin PilV -
HVY27_RS23020 (HVY27_23015) 92618..93274 - 657 WP_001193549 A24 family peptidase -
HVY27_RS23025 (HVY27_23020) 93259..93819 - 561 WP_000014005 lytic transglycosylase domain-containing protein virB1
HVY27_RS23030 (HVY27_23025) 93829..94443 - 615 WP_000908226 type 4 pilus major pilin -
HVY27_RS23035 (HVY27_23030) 94460..95545 - 1086 WP_001208802 type II secretion system F family protein -
HVY27_RS23040 (HVY27_23035) 95558..97111 - 1554 WP_000362206 ATPase, T2SS/T4P/T4SS family virB11
HVY27_RS23045 (HVY27_23040) 97122..97574 - 453 WP_001247337 type IV pilus biogenesis protein PilP -
HVY27_RS23050 (HVY27_23045) 97561..98856 - 1296 WP_000752780 type 4b pilus protein PilO2 -
HVY27_RS23055 (HVY27_23050) 98849..100531 - 1683 WP_000748143 PilN family type IVB pilus formation outer membrane protein -
HVY27_RS23060 (HVY27_23055) 100545..100982 - 438 WP_000539806 type IV pilus biogenesis protein PilM -
HVY27_RS23065 (HVY27_23060) 100982..102049 - 1068 WP_001360287 type IV pilus biogenesis lipoprotein PilL -

Host bacterium

ID   5682 GenBank   NZ_CP057464
Plasmid name   pRHB26-C03_2 Incompatibility group   IncI1
Plasmid size   107745 bp Coordinate of oriT [Strand]   38419..38507 [-]
Host baterium   Escherichia fergusonii strain RHB26-C03

Cargo genes

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