Detailed information of oriT

oriT

The information of the oriT region


oriTDB ID   113429
Name   oriT_pESI-CTX-M-65 in_silico
Organism   Salmonella enterica subsp. enterica serovar Infantis isolate 14026835
Sequence Completeness      -
NCBI accession of oriT (coordinates [strand])   NZ_OW849859 (67495..67583 [-], 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_pESI-CTX-M-65
GGGGTGTCGGGGCGAAGCCCTGACCAGATGGCAATTGTAATAGCGTCGCGTGTGACGGTATTACAATTGCACATCCTGTCCCGTTTTTC

Visualization of oriT structure

  oriT secondary structure

Predicted by RNAfold.

Download structure file


Relaxase

ID   8607 GenBank   WP_006855641
Name   nikB_NH455_RS00395_pESI-CTX-M-65 insolico UniProt ID   A0A620WL05
Length   899 a.a. PDB ID   
Note   Predicted by oriTfinder 2.0

  Relaxase protein sequence


Download         Length: 899 a.a.        Molecular weight: 104006.42 Da        Isoelectric Point: 7.3526

>WP_006855641.1 MULTISPECIES: IncI1-type relaxase NikB [Enterobacteriaceae]
MNAVIPKKRRDGKSSFEDLVSYVSVRDDMTDEELDLSSSSQAEQPHRSRFSRLVDYATRLRNESFVALVD
VMKDGCEWVNFYGVTCFHNCTSLETAAADMEYIARQAHYAKDDTDPVFHYILSWQSHESPRPEQIYDSVR
HTLKSLGLADHQYVSAVHTDTDNLHVHVAVNRVHPETGYLNRLSWSQEKLSRACRELELKHGFAPDNGCW
VHAPGNRIVRKTAVERDRQNAWTRGKKQTFREYVAQTAVAGLRSEPVHDWLSLHRRLAEDGLYLSQMDGK
FLVMDGWDRNREGVQLDSFGPSWCAEKLMKKMGDYTPVPKDIFSQVEAPGRYNPDFIAADVRPEKIAETE
SLQQYACRHLGERLPEMAREGRLENCQAIHRTLAEAGLWMRVQHGHLVICDGYDHNQTPVRADSVWSLLT
LDNVNQLDGGWQPVPTDIFRQVTPTERFRGRRMESCPATDKEWHRMRTGTGPQGAIKRELFSDKESLWGY
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 A0A620WL05


Auxiliary protein

ID   5000 GenBank   WP_001283947
Name   WP_001283947_pESI-CTX-M-65 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   9941 GenBank   WP_001289275
Name   trbC_NH455_RS00400_pESI-CTX-M-65 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_001289275.1 MULTISPECIES: F-type conjugative transfer protein TrbC [Enterobacteriaceae]
MSEHRVNPELLHRTAWGNPVWNALQSLNIYGFCLVASLVASFIWPLALPACLLFTLITMLVFSLQRWRCP
LRMPMTLECADPSQDRMIKRSLFSFWPTLFQYEVILESPASGIFYVGYQRVRDIGRELWLSMDDLTRHIM
FFATTGGGKTETIFAWAINPLCWARGFTLVDGKAQNDTARTIWYLARRFGREDDVEVINFMNGGKSRSEI
ILSGEKTRPQSNTWNPFCYSTEAFTAETMQSMLPQNVQGGEWQSRAIAMNKALVFGTKFWCVREGKTMSL
QMLREHMTLEGMAKLYCRGLDDQWPEEAIAPLRNYLQDVPGFDLSLVRTPSAWTEEPRKQHAYLSGQFSE
TFSTFTEAFGDIFAEDSGDIDIRDSIHSDRILMVMIPALDTSAHTTSALGRMFITQKSMILARDLGYRLE
GTDSDALEVKKYKGRFPYLCFLDEVGAYYTDRIAVEATQVRSLDFALILMAQDQERIEGQTTATNTATLM
QNTGTKFAGRIVSEGSTARTLKSAAGEEARARMNNLQRQDGIFGESWIDSPQISILMESKINVQELIELH
PGEFFSIFRGETVPSASFFIPDDEKSCSSDPVVINRYISVDAPRLDRLRRLVPRTTQRRIPSPENVSAII
GVLTAKPSRKRRKIRTEPHTIVDTFQQRIAGRQAAMAMLEEYDTDINARESALWETAVNTLKTTTREERR
IRYITLNRPELPETKEENQISVRAERAGINLLTLPQDNNHLTGRPVNGFHHKKTNRPDWDGMY

  Protein domains



No domain identified.


  Protein structure



No available structure.




T4SS

T4SS were predicted by using oriTfinder2.

Region 1: 72961..111850

Locus tag Coordinates Strand Size (bp) Protein ID Product Description
NH455_RS00400 70677..72968 - 2292 WP_001289275 F-type conjugative transfer protein TrbC -
NH455_RS00405 72961..74031 - 1071 WP_000151583 IncI1-type conjugal transfer protein TrbB trbB
NH455_RS00410 74050..75258 - 1209 WP_001383960 IncI1-type conjugal transfer protein TrbA trbA
NH455_RS00415 75565..76344 - 780 WP_275450201 protein FinQ -
NH455_RS00420 76971..77123 + 153 WP_001387489 Hok/Gef family protein -
NH455_RS00425 77195..77446 - 252 WP_001291964 hypothetical protein -
NH455_RS01670 77947..78042 + 96 WP_000609148 DinQ-like type I toxin DqlB -
NH455_RS00435 78107..78283 - 177 WP_001054897 hypothetical protein -
NH455_RS00440 78675..78884 + 210 WP_000062603 HEAT repeat domain-containing protein -
NH455_RS00445 78956..79618 - 663 WP_000644796 plasmid IncI1-type surface exclusion protein ExcA -
NH455_RS00450 79689..81857 - 2169 WP_058649949 DotA/TraY family protein traY
NH455_RS00455 81954..82538 - 585 WP_001037996 IncI1-type conjugal transfer protein TraX -
NH455_RS00460 82567..83769 - 1203 WP_001189156 IncI1-type conjugal transfer protein TraW traW
NH455_RS00465 83736..84350 - 615 WP_000337399 IncI1-type conjugal transfer protein TraV traV
NH455_RS00470 84350..87394 - 3045 WP_001024776 IncI1-type conjugal transfer protein TraU traU
NH455_RS00475 87484..88284 - 801 WP_001164792 IncI1-type conjugal transfer protein TraT traT
NH455_RS00480 88268..88456 - 189 WP_001277255 putative conjugal transfer protein TraS -
NH455_RS00485 88520..88924 - 405 WP_000086960 IncI1-type conjugal transfer protein TraR traR
NH455_RS00490 88975..89502 - 528 WP_001055569 conjugal transfer protein TraQ traQ
NH455_RS00495 89502..90206 - 705 WP_023155244 IncI1-type conjugal transfer protein TraP traP
NH455_RS00500 90206..91495 - 1290 WP_001271994 conjugal transfer protein TraO traO
NH455_RS00505 91498..92481 - 984 WP_021513963 IncI1-type conjugal transfer protein TraN traN
NH455_RS00510 92492..93184 - 693 WP_000138552 DotI/IcmL family type IV secretion protein traM
NH455_RS00515 93181..93528 - 348 WP_001055900 conjugal transfer protein traL
NH455_RS00520 93546..97313 - 3768 WP_058649948 LPD7 domain-containing protein -
NH455_RS00525 97403..97954 - 552 WP_000014584 phospholipase D family protein -
NH455_RS00530 97969..98259 - 291 WP_001299214 hypothetical protein traK
NH455_RS00535 98256..99404 - 1149 WP_001024976 plasmid transfer ATPase TraJ virB11
NH455_RS00540 99401..100219 - 819 WP_000646097 IncI1-type conjugal transfer lipoprotein TraI traI
NH455_RS00545 100216..100674 - 459 WP_001079808 IncI1-type conjugal transfer lipoprotein TraH -
NH455_RS00550 101069..101653 - 585 WP_000977520 histidine phosphatase family protein -
NH455_RS00555 101713..102915 - 1203 WP_000976353 conjugal transfer protein TraF -
NH455_RS00560 103001..103825 - 825 WP_058649947 conjugal transfer protein TraE traE
NH455_RS00565 103976..105130 - 1155 WP_001139955 tyrosine-type recombinase/integrase -
NH455_RS01685 105170..105439 + 270 Protein_114 hypothetical protein -
NH455_RS01690 105712..105936 + 225 Protein_115 shufflon system plasmid conjugative transfer pilus tip adhesin PilV -
NH455_RS00570 105933..107369 - 1437 WP_015058913 shufflon system plasmid conjugative transfer pilus tip adhesin PilV -
NH455_RS00575 107357..108013 - 657 WP_001193551 A24 family peptidase -
NH455_RS00580 107998..108558 - 561 WP_000014005 lytic transglycosylase domain-containing protein virB1
NH455_RS00585 108568..109182 - 615 WP_000908228 type 4 pilus major pilin -
NH455_RS00590 109199..110284 - 1086 WP_001208803 type II secretion system F family protein -
NH455_RS00595 110297..111850 - 1554 WP_000362204 GspE/PulE family protein virB11
NH455_RS00600 111861..112313 - 453 WP_058649963 type IV pilus biogenesis protein PilP -
NH455_RS00605 112300..113595 - 1296 WP_058649964 type 4b pilus protein PilO2 -
NH455_RS00610 113588..115270 - 1683 WP_000748143 PilN family type IVB pilus formation outer membrane protein -
NH455_RS00615 115284..115721 - 438 WP_000539807 type IV pilus biogenesis protein PilM -
NH455_RS00620 115721..116788 - 1068 WP_001360287 type IV pilus biogenesis lipoprotein PilL -

Host bacterium

ID   13864 GenBank   NZ_OW849859
Plasmid name   pESI-CTX-M-65 Incompatibility group   IncFIB
Plasmid size   323674 bp Coordinate of oriT [Strand]   67495..67583 [-]
Host baterium   Salmonella enterica subsp. enterica serovar Infantis isolate 14026835

Cargo genes

Drug resistance gene   tet(A), sul1, qacE, ant(3'')-Ia, blaCTX-M-65, aph(3')-Ia, dfrA14, aac(3)-IVa, aph(4)-Ia, floR, fosA3
Virulence gene   ybtS, ybtX, ybtQ, ybtP, ybtA, irp2, irp1, ybtU, ybtT, ybtE, fyuA, faeC, faeE, faeF, faeH, faeI
Metal resistance gene   arsH, merR, merT, merP, merA, merD, merE
Degradation gene   -
Symbiosis gene   -
Anti-CRISPR   AcrVA2