Detailed information of oriT

oriT

The information of the oriT region


oriTDB ID   101678
Name   oriT_pESI in_silico
Organism   Salmonella enterica subsp. enterica serovar Infantis str. 119944
Sequence Completeness      -
NCBI accession of oriT (coordinates [strand])   NZ_ASRF01000099 (71931..72019 [+], 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
GGGGTGTCGGGGCGAAGCCCTGACCAGATGGCAATTGTAATAGCGTCGCGTGTGACGGTATTACAATTGCACATCCTGTCCCGTTTTTC

Visualization of oriT structure

  oriT secondary structure

Predicted by RNAfold.

Download structure file


Relaxase

ID   1452 GenBank   WP_001299212
Name   nikB_L287_RS48330_pESI 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   579 GenBank   WP_001283947
Name   WP_001283947_pESI 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   1127 GenBank   WP_001289276
Name   trbC_L287_RS48325_pESI 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: 30356..66553

Locus tag Coordinates Strand Size (bp) Protein ID Product Description
L287_RS50655 (L287_23055) 25418..26485 + 1068 WP_001360287 type IV pilus biogenesis lipoprotein PilL -
L287_RS48140 (L287_23060) 26485..26922 + 438 WP_000539807 type IV pilus biogenesis protein PilM -
L287_RS48145 (L287_23065) 26936..28618 + 1683 WP_000748143 PilN family type IVB pilus formation outer membrane protein -
L287_RS48150 (L287_23070) 28611..29906 + 1296 WP_001545757 type 4b pilus protein PilO2 -
L287_RS48155 (L287_23075) 29893..30345 + 453 WP_001247331 type IV pilus biogenesis protein PilP -
L287_RS48160 (L287_23080) 30356..31909 + 1554 WP_000362206 ATPase, T2SS/T4P/T4SS family virB11
L287_RS48165 (L287_23085) 31922..33007 + 1086 WP_001208802 type II secretion system F family protein -
L287_RS48170 (L287_23090) 33024..33638 + 615 WP_000908226 type 4 pilus major pilin -
L287_RS48175 (L287_23095) 33648..34208 + 561 WP_000014005 lytic transglycosylase domain-containing protein virB1
L287_RS48180 (L287_23100) 34193..34849 + 657 WP_001193549 A24 family peptidase -
L287_RS48185 (L287_23105) 34849..36141 + 1293 WP_001350014 shufflon system plasmid conjugative transfer pilus tip adhesin PilV -
L287_RS51435 36197..36322 - 126 Protein_41 RNA-guided endonuclease TnpB family protein -
L287_RS48190 (L287_23110) 36530..37354 + 825 WP_001238942 conjugal transfer protein TraE traE
L287_RS48195 (L287_23115) 37440..38642 + 1203 WP_000976348 conjugal transfer protein TraF -
L287_RS48200 (L287_23120) 38702..39286 + 585 WP_000977522 histidine phosphatase family protein -
L287_RS48205 (L287_23125) 39681..40139 + 459 WP_001079808 IncI1-type conjugal transfer lipoprotein TraH -
L287_RS48210 (L287_23130) 40136..40954 + 819 WP_000646097 IncI1-type conjugal transfer lipoprotein TraI traI
L287_RS48215 (L287_23135) 40951..42099 + 1149 WP_001024972 plasmid transfer ATPase TraJ virB11
L287_RS50660 42096..42386 + 291 WP_001299214 hypothetical protein traK
L287_RS48220 (L287_23145) 42401..42952 + 552 WP_000014584 phospholipase D family protein -
L287_RS48225 (L287_23150) 43042..46809 + 3768 WP_001141542 LPD7 domain-containing protein -
L287_RS48230 (L287_23155) 46827..47174 + 348 WP_001055900 conjugal transfer protein traL
L287_RS48235 (L287_23160) 47171..47863 + 693 WP_000138552 DotI/IcmL family type IV secretion protein traM
L287_RS48240 (L287_23165) 47874..48857 + 984 WP_001191878 IncI1-type conjugal transfer protein TraN traN
L287_RS48245 (L287_23170) 48860..50149 + 1290 WP_001271997 conjugal transfer protein TraO traO
L287_RS48250 (L287_23175) 50149..50853 + 705 WP_000801920 IncI1-type conjugal transfer protein TraP traP
L287_RS48255 (L287_23180) 50853..51380 + 528 WP_001055569 conjugal transfer protein TraQ traQ
L287_RS48260 (L287_23185) 51431..51835 + 405 WP_000086961 IncI1-type conjugal transfer protein TraR traR
L287_RS48265 (L287_23190) 51899..52087 + 189 WP_001277255 putative conjugal transfer protein TraS -
L287_RS48270 (L287_23195) 52071..52871 + 801 WP_001164788 IncI1-type conjugal transfer protein TraT traT
L287_RS48275 (L287_23200) 52961..56005 + 3045 WP_001024780 IncI1-type conjugal transfer protein TraU traU
L287_RS50665 (L287_23205) 56005..56619 + 615 WP_000337400 IncI1-type conjugal transfer protein TraV traV
L287_RS48280 (L287_23210) 56586..57788 + 1203 WP_001189156 IncI1-type conjugal transfer protein TraW traW
L287_RS48285 (L287_23215) 57817..58401 + 585 WP_001037987 IncI1-type conjugal transfer protein TraX -
L287_RS48290 (L287_23220) 58498..60666 + 2169 WP_000698357 DotA/TraY family protein traY
L287_RS48295 (L287_23225) 60740..61390 + 651 WP_001178506 plasmid IncI1-type surface exclusion protein ExcA -
L287_RS48300 (L287_23230) 61489..61698 - 210 WP_000062603 HEAT repeat domain-containing protein -
L287_RS52030 (L287_23235) 61998..62294 + 297 WP_023994106 hypothetical protein -
L287_RS52550 (L287_23240) 62359..62454 - 96 WP_001303310 DinQ-like type I toxin DqlB -
L287_RS48310 (L287_23245) 63086..63994 + 909 WP_000055084 hypothetical protein -
L287_RS48315 (L287_23250) 64256..65464 + 1209 WP_000121273 IncI1-type conjugal transfer protein TrbA trbA
L287_RS48320 (L287_23255) 65483..66553 + 1071 WP_000151577 IncI1-type conjugal transfer protein TrbB trbB
L287_RS48325 (L287_23260) 66546..68837 + 2292 WP_001289276 F-type conjugative transfer protein TrbC -

Host bacterium

ID   2122 GenBank   NZ_ASRF01000099
Plasmid name   pESI Incompatibility group   -
Plasmid size   104522 bp Coordinate of oriT [Strand]   71931..72019 [+]
Host baterium   Salmonella enterica subsp. enterica serovar Infantis str. 119944

Cargo genes

Drug resistance gene   ant(3'')-Ia, qacE, sul1, tet(A)
Virulence gene   -
Metal resistance gene   merE, merD, merA, merP, merT, merR
Degradation gene   -
Symbiosis gene   -
Anti-CRISPR   -