Detailed information of oriT

oriT

The information of the oriT region


oriTDB ID   113427
Name   oriT_pESI-CTX-M-1 in_silico
Organism   Salmonella enterica subsp. enterica serovar Infantis isolate 13065790-183
Sequence Completeness      -
NCBI accession of oriT (coordinates [strand])   NZ_OW849855 (242838..242926 [+], 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-1
GGGGTGTCGGGGCGAAGCCCTGACCAGATGGCAATTGTAATAGCGTCGCGTGTGACGGTATTACAATTGCACATCCTGTCCCGTTTTTC

Visualization of oriT structure

  oriT secondary structure

Predicted by RNAfold.

Download structure file


Relaxase

ID   8605 GenBank   WP_001299212
Name   nikB_NH453_RS01195_pESI-CTX-M-1 insolico UniProt ID   A0A5T4AK12
Length   899 a.a. PDB ID   
Note   Predicted by oriTfinder 2.0

  Relaxase protein sequence


Download         Length: 899 a.a.        Molecular weight: 103956.40 Da        Isoelectric Point: 7.2642

>WP_001299212.1 MULTISPECIES: IncI1-type relaxase NikB [Enterobacteriaceae]
MNAVIPKKRRDGKSSFEDLVSYVSVRDDMTDEELDLSSSSQAEQPHRSRFSRLVDYATRLRNESFVALVD
VMKDGCEWINFYGVTCFHNCTSLETAAADMEYIALQAHYAKDDTDPVFHYILSWQSHESPRPEQIYDSVR
HTLKSLGLADHQYVSAVHTDTDNLHVHVAVNRVHPETGYLNRLSWSQEKLSRACRELELKHGFAPDNGCW
VHAPGNRIVRKTAVERDRQNAWTRGKKQTFREYVAQTAVAGLRSEPVSDWLSLHRRLAEDGLYLSQMDGK
YLVMDGWDRNREGVQLDSFGPSWCAEKLMKKMGDYTPVPKDIFSQVEAPGRYNPDFIAADVRPEKIAETE
SLQQYACRHLGERLPEMAREGRLENCQAIHRTLAEAGLWMRVQHGHLVICDGYDHNQTPVRADSVWSLLT
LDNVNQLDGGWLPVPTDIFRQVTPTERFRGRRMESCPATDKEWHRMRTGTGPQGAIKRELFSDKESLWGY
SISHCSPQIEEMITQGEFTWQRCHELFAQQGLMLQKQHHGLVVVDAFNHEQTPVKASSIHPDLTLGRAEP
QAGPFVSAPADLFDRVQPESRYNPELAVSDRYGVSSKRDPMLRRQRREARAEARADLRARYLAWREQWRK
PDLRYGERCREIHQACRLRKSHIRAQYDDPALRKLHYHIAEVQRMQALIRLKEDIRDERQKLIADGKWYP
PSYRQWVEIQAAQGDRAAVSQLRGWDYRDRRKDRSRTTTTDRCVVLCEPGGTPVYGNTGDLEARLQKNGS
VRFRDRRTGEFVCTDYGDRVVFRNHHDRNALADKLDLIAPVLFGRDPRMGFEPEGNDKQFNQVFAEMVAW
HNVTGRTGHEDYRITRPDVDHHREGSERYYRDYIAANSNDDASLPPPEQDKRWEPPSPG

  Protein domains


Predicted by InterproScan.

Relaxase/Mobilisation nuclease domain (Relaxase)

(62-314)


  Protein structure


Source ID Structure
AlphaFold DB A0A5T4AK12


Auxiliary protein

ID   4997 GenBank   WP_001283947
Name   WP_001283947_pESI-CTX-M-1 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   9939 GenBank   WP_001289276
Name   trbC_NH453_RS01190_pESI-CTX-M-1 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: 201318..237460

Locus tag Coordinates Strand Size (bp) Protein ID Product Description
NH453_RS00985 196380..197447 + 1068 WP_001360287 type IV pilus biogenesis lipoprotein PilL -
NH453_RS00990 197447..197884 + 438 WP_000539807 type IV pilus biogenesis protein PilM -
NH453_RS00995 197898..199580 + 1683 WP_000748143 PilN family type IVB pilus formation outer membrane protein -
NH453_RS01000 199573..200868 + 1296 WP_001545757 type 4b pilus protein PilO2 -
NH453_RS01005 200855..201307 + 453 WP_001247331 type IV pilus biogenesis protein PilP -
NH453_RS01010 201318..202871 + 1554 WP_000362206 GspE/PulE family protein virB11
NH453_RS01015 202884..203969 + 1086 WP_001208802 type II secretion system F family protein -
NH453_RS01020 203986..204600 + 615 WP_000908226 type 4 pilus major pilin -
NH453_RS01025 204610..205170 + 561 WP_000014005 lytic transglycosylase domain-containing protein virB1
NH453_RS01030 205155..205811 + 657 WP_001193549 A24 family peptidase -
NH453_RS01035 205811..207103 + 1293 WP_001350014 shufflon system plasmid conjugative transfer pilus tip adhesin PilV -
NH453_RS01040 207159..207284 - 126 Protein_215 RNA-guided endonuclease TnpB family protein -
NH453_RS01045 207492..208316 + 825 WP_001238942 conjugal transfer protein TraE traE
NH453_RS01050 208402..209604 + 1203 WP_000976348 conjugal transfer protein TraF -
NH453_RS01055 209664..210248 + 585 WP_000977522 histidine phosphatase family protein -
NH453_RS01060 210643..211101 + 459 WP_001079808 IncI1-type conjugal transfer lipoprotein TraH -
NH453_RS01065 211098..211916 + 819 WP_000646097 IncI1-type conjugal transfer lipoprotein TraI traI
NH453_RS01070 211913..213061 + 1149 WP_001024972 plasmid transfer ATPase TraJ virB11
NH453_RS01075 213058..213348 + 291 WP_001299214 hypothetical protein traK
NH453_RS01080 213363..213914 + 552 WP_000014584 phospholipase D family protein -
NH453_RS01085 214004..217771 + 3768 WP_001141542 LPD7 domain-containing protein -
NH453_RS01090 217789..218136 + 348 WP_001055900 conjugal transfer protein traL
NH453_RS01095 218133..218825 + 693 WP_000138552 DotI/IcmL family type IV secretion protein traM
NH453_RS01100 218836..219819 + 984 WP_001191878 IncI1-type conjugal transfer protein TraN traN
NH453_RS01105 219822..221111 + 1290 WP_001271997 conjugal transfer protein TraO traO
NH453_RS01110 221111..221815 + 705 WP_000801920 IncI1-type conjugal transfer protein TraP traP
NH453_RS01115 221815..222342 + 528 WP_001055569 conjugal transfer protein TraQ traQ
NH453_RS01120 222393..222797 + 405 WP_000086961 IncI1-type conjugal transfer protein TraR traR
NH453_RS01125 222861..223049 + 189 WP_001277255 putative conjugal transfer protein TraS -
NH453_RS01130 223033..223833 + 801 WP_001164788 IncI1-type conjugal transfer protein TraT traT
NH453_RS01135 223923..226967 + 3045 WP_001024780 IncI1-type conjugal transfer protein TraU traU
NH453_RS01140 226967..227581 + 615 WP_000337400 IncI1-type conjugal transfer protein TraV traV
NH453_RS01145 227548..228750 + 1203 WP_001189156 IncI1-type conjugal transfer protein TraW traW
NH453_RS01150 228779..229363 + 585 WP_001037987 IncI1-type conjugal transfer protein TraX -
NH453_RS01155 229460..231628 + 2169 WP_000698357 DotA/TraY family protein traY
NH453_RS01160 231702..232352 + 651 WP_001178506 plasmid IncI1-type surface exclusion protein ExcA -
NH453_RS01165 232424..232633 - 210 WP_000062603 HEAT repeat domain-containing protein -
NH453_RS01170 233025..233201 + 177 WP_001054904 hypothetical protein -
NH453_RS01560 233266..233361 - 96 WP_001303310 DinQ-like type I toxin DqlB -
NH453_RS01175 233993..234901 + 909 WP_000055084 hypothetical protein -
NH453_RS01180 235163..236371 + 1209 WP_000121273 IncI1-type conjugal transfer protein TrbA trbA
NH453_RS01185 236390..237460 + 1071 WP_000151577 IncI1-type conjugal transfer protein TrbB trbB
NH453_RS01190 237453..239744 + 2292 WP_001289276 F-type conjugative transfer protein TrbC -

Host bacterium

ID   13862 GenBank   NZ_OW849855
Plasmid name   pESI-CTX-M-1 Incompatibility group   IncFIB
Plasmid size   298892 bp Coordinate of oriT [Strand]   242838..242926 [+]
Host baterium   Salmonella enterica subsp. enterica serovar Infantis isolate 13065790-183

Cargo genes

Drug resistance gene   ant(3'')-Ia, sul3, mef(B), blaCTX-M-1, dfrA1, qacE, sul1, tet(A), dfrA14, aph(3')-Ia
Virulence gene   faeC, faeD, faeE, faeF, faeH, faeI, fyuA, ybtE, ybtT, ybtU, irp1, irp2, ybtA, ybtP, ybtQ, ybtX, ybtS
Metal resistance gene   merE, merD, merA, merP, merT, merR
Degradation gene   -
Symbiosis gene   -
Anti-CRISPR   -