Detailed information of oriT

oriT

The information of the oriT region


oriTDB ID   114100
Name   oriT_pR17.0809_88k in_silico
Organism   Salmonella enterica subsp. enterica serovar Anatum strain R17.0809
Sequence Completeness      -
NCBI accession of oriT (coordinates [strand])   NZ_CP100679 (28065..28153 [-], 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_pR17.0809_88k
GGGGTGTCGGGGCGAAGCCCTGACCAGATGGTAATTGTAATAGCGTCGCGTGTGACGGTATTACAATTACACATCCTGTCCCGTTTTTC

Visualization of oriT structure

  oriT secondary structure

Predicted by RNAfold.

Download structure file


Relaxase

ID   9051 GenBank   WP_165885255
Name   nikB_NL708_RS23100_pR17.0809_88k 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: 103896.37 Da        Isoelectric Point: 7.4198

>WP_165885255.1 IncI1-type relaxase NikB [Salmonella enterica]
MNAVIPKKRRDGKSSFEDLVSYVSVRDDMTDEELNLSSSSQAEQPHRSRFSRLVDYATRLRNESFVALVD
VMKDGCEWVNFYGVTCFHNCTSLETAAADMEYIAQQAHYAKDNTDPVFHYILSWQAHESPRPEQIYDSVR
HTLKSLGLGEHQYVSAVHTDTDNLHVHVAVNRVHPVTGYLNCLSWSQEKLSRACRELELKHAFAPDNGCW
VHAPGNRIVRKTAVERDRQNAWTRGKKQTFREYVAQTAVAGLRSEPVNDWLSLHRRLAEDGLYLSQMDGK
FLVMDGWDRNREGVQLDSFGPSWCAEKLMKKMGDYTPVPKDIFSQVEAPGRYNPDFIAADVRPEKIAETE
SLQQYACRHLGERLPEMAREGRLENCQAIHRTLAEAGLWMRVQHGHLVICDGYDHNQTPVRADSVWSLLT
LDNVNQLDGGWQPVPTDIFRQVTPTERFRGRRMESCPATDKEWHRMRTGTGPQGAIKRELFSDKESLWGY
SISHCSPQIEEMITQGEFTWQRCHELFAQQGLMLQKQHHGLVVVDAFNHEQTPVKASSIHPDLTLGRAEP
QAGPFVSAPADLFDRVQPESRYNPELAVSDRYGVSSKRDPMLRRQRREARAEARADLRARYLAWREQWRK
PDLRYGERCREIHQACRLRKSHIRAQYDDPALRKLHYHIAEVQRMQALIRLKEDIRDERQKLIADGKWYP
PSYRQWVEIQAAQGDRAAVSQLRGWDYRDRRKDRSRTTTTDRCVVLCEPGGTPVYGNTGDLEARLQKNGS
VRFRDRRTGEFVCTDYGDRVVFRNHHDRNALADKLDLIAPVLFGRDPRMGFEPEGNDKQFNQVFAEMVAW
HNVTGRTGHEDYRITRPDVDHHREGSERYYRDYIAANSNDDASLPPPEQDKRWEPPSPG

  Protein domains


Predicted by InterproScan.

Relaxase/Mobilisation nuclease domain (Relaxase)

(62-314)


  Protein structure



No available structure.




Auxiliary protein

ID   5272 GenBank   WP_001283947
Name   WP_001283947_pR17.0809_88k 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   10479 GenBank   WP_011264051
Name   trbC_NL708_RS23105_pR17.0809_88k 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: 86954.10 Da        Isoelectric Point: 6.7713

>WP_011264051.1 MULTISPECIES: F-type conjugative transfer protein TrbC [Enterobacteriaceae]
MSEHRVNPELLHRTAWGNPVWNALQSLNIYGFCLVASLVASFIWPLALPACLLFTLITMLVFSLQRWRCP
LRMPMTLECADPSQDRMIKRSLFSFWPTLFQYEVILESPASGIFYVGYQRVRDIGRELWLSMDDLTRHIM
FFATTGGGKTETIFAWAINPLCWARGFTLVDGKAQNDTARTIWYLARRFGREDDVEVINFMNGGKSRSEI
ILSGEKTRPQSNTWNPFCYSTEAFTAETMQSMLPQNVQGGEWQSRAIAMNKALVFGTKFWCVREGKTMSL
QMLREHMTLEGMAKLYCRGLDDQWPEEAIAPLRNYLQDVPGFDLSLVRTPSAWTEEPRKQHAYLSGQFSE
TFSTFTEAFGDIFAEDSGDIDIRDSIHSDRILMVMIPALDTSAHTTSALGRMFITQKSMILARDLGYRLE
GTDSDALEVKKYKGRFPYLCFLDEVGAYYTDRIAVEATQVRSLDFALILMAQDQERIEGQTTATNTATLM
QNTGTKFAGRIVSEGSTARTLKSAAGEEARARMNNLQRQDGIFGESWIDSPQISILMESKINVQELIELH
PGEFFSIFRGETVPSASFFIPDDEKSCSSDPVVINRYISVDAPRLDRLRRLVPRTTQRRIPSPENVSAII
GVLTAKPSRKRRKIRTEPHTIVDTFQQRIAGRQAAMAMLEEYDTDINARESALWETAVNTLKTTTREERR
IRYITLNRPELPETKEENQISVRAERAGINLLTLPQDNNHPTGRPVNGFHHKKNNRPDWDGMY

  Protein domains



No domain identified.


  Protein structure



No available structure.




T4SS

T4SS were predicted by using oriTfinder2.

Region 1: 33532..78680

Locus tag Coordinates Strand Size (bp) Protein ID Product Description
NL708_RS23105 (NL708_23105) 31248..33539 - 2292 WP_011264051 F-type conjugative transfer protein TrbC -
NL708_RS23110 (NL708_23110) 33532..34602 - 1071 WP_011264050 IncI1-type conjugal transfer protein TrbB trbB
NL708_RS23115 (NL708_23115) 34621..35829 - 1209 WP_011264049 IncI1-type conjugal transfer protein TrbA trbA
NL708_RS23120 (NL708_23120) 36136..36918 - 783 WP_023063753 protein FinQ -
NL708_RS23125 (NL708_23125) 37114..37431 + 318 WP_000118520 quaternary ammonium compound efflux SMR transporter SugE -
NL708_RS23130 (NL708_23130) 37428..37961 - 534 WP_001221666 lipocalin family protein -
NL708_RS23135 (NL708_23135) 38055..39200 - 1146 WP_000976514 extended-spectrum class C beta-lactamase CMY-2 -
NL708_RS23145 (NL708_23145) 40860..42122 - 1263 WP_000608644 IS1380-like element ISEcp1 family transposase -
NL708_RS23150 (NL708_23150) 42275..42649 - 375 WP_223349261 hypothetical protein -
NL708_RS23155 (NL708_23155) 42970..43122 + 153 WP_001387489 Hok/Gef family protein -
NL708_RS23160 (NL708_23160) 43194..43445 - 252 WP_001291964 hypothetical protein -
NL708_RS23445 43946..44041 + 96 WP_000609148 DinQ-like type I toxin DqlB -
NL708_RS23170 (NL708_23170) 44106..44282 - 177 WP_001054897 hypothetical protein -
NL708_RS23175 (NL708_23175) 44674..44883 + 210 WP_000062603 HEAT repeat domain-containing protein -
NL708_RS23180 (NL708_23180) 44955..45617 - 663 WP_000644796 plasmid IncI1-type surface exclusion protein ExcA -
NL708_RS23185 (NL708_23185) 45688..47856 - 2169 WP_023518847 DotA/TraY family protein traY
NL708_RS23190 (NL708_23190) 47953..48537 - 585 WP_001746157 IncI1-type conjugal transfer protein TraX -
NL708_RS23195 (NL708_23195) 48566..49768 - 1203 WP_001189160 IncI1-type conjugal transfer protein TraW traW
NL708_RS23200 (NL708_23200) 49735..50349 - 615 WP_000337399 IncI1-type conjugal transfer protein TraV traV
NL708_RS23205 (NL708_23205) 50349..53393 - 3045 WP_023518848 IncI1-type conjugal transfer protein TraU traU
NL708_RS23210 (NL708_23210) 53483..54283 - 801 WP_001164788 IncI1-type conjugal transfer protein TraT traT
NL708_RS23215 (NL708_23215) 54267..54455 - 189 WP_001277255 putative conjugal transfer protein TraS -
NL708_RS23220 (NL708_23220) 54519..54923 - 405 WP_000086965 IncI1-type conjugal transfer protein TraR traR
NL708_RS23225 (NL708_23225) 54974..55501 - 528 WP_001055569 conjugal transfer protein TraQ traQ
NL708_RS23230 (NL708_23230) 55501..56205 - 705 WP_001493811 IncI1-type conjugal transfer protein TraP traP
NL708_RS23235 (NL708_23235) 56205..57494 - 1290 WP_011264042 conjugal transfer protein TraO traO
NL708_RS23240 (NL708_23240) 57497..58480 - 984 WP_001191880 IncI1-type conjugal transfer protein TraN traN
NL708_RS23245 (NL708_23245) 58491..59183 - 693 WP_000138552 DotI/IcmL family type IV secretion protein traM
NL708_RS23250 (NL708_23250) 59180..59527 - 348 WP_001055900 conjugal transfer protein traL
NL708_RS23255 (NL708_23255) 59545..63312 - 3768 WP_023518849 LPD7 domain-containing protein -
NL708_RS23260 (NL708_23260) 63402..63953 - 552 WP_000014584 phospholipase D family protein -
NL708_RS23265 (NL708_23265) 63968..64258 - 291 WP_001299214 hypothetical protein traK
NL708_RS23270 (NL708_23270) 64255..65403 - 1149 WP_001024972 plasmid transfer ATPase TraJ virB11
NL708_RS23275 (NL708_23275) 65400..66218 - 819 WP_000646097 IncI1-type conjugal transfer lipoprotein TraI traI
NL708_RS23280 (NL708_23280) 66215..66673 - 459 WP_001079808 IncI1-type conjugal transfer lipoprotein TraH -
NL708_RS23285 (NL708_23285) 67068..67652 - 585 WP_000977522 histidine phosphatase family protein -
NL708_RS23290 (NL708_23290) 67712..68914 - 1203 WP_000976351 conjugal transfer protein TraF -
NL708_RS23295 (NL708_23295) 69000..69824 - 825 WP_023518851 conjugal transfer protein TraE traE
NL708_RS23300 (NL708_23300) 69975..71129 - 1155 WP_001139955 tyrosine-type recombinase/integrase -
NL708_RS23535 72545..72766 + 222 Protein_81 prepilin -
NL708_RS23305 (NL708_23305) 72763..74199 - 1437 WP_015058206 shufflon system plasmid conjugative transfer pilus tip adhesin PilV -
NL708_RS23310 (NL708_23310) 74187..74843 - 657 WP_001401940 A24 family peptidase -
NL708_RS23315 (NL708_23315) 74828..75388 - 561 WP_000014005 lytic transglycosylase domain-containing protein virB1
NL708_RS23320 (NL708_23320) 75398..76012 - 615 WP_000908227 type 4 pilus major pilin -
NL708_RS23325 (NL708_23325) 76029..77114 - 1086 WP_001208802 type II secretion system F family protein -
NL708_RS23330 (NL708_23330) 77127..78680 - 1554 WP_254520830 GspE/PulE family protein virB11
NL708_RS23335 (NL708_23335) 78691..79143 - 453 WP_001247337 type IV pilus biogenesis protein PilP -
NL708_RS23340 (NL708_23340) 79130..80425 - 1296 WP_023518855 type 4b pilus protein PilO2 -
NL708_RS23345 (NL708_23345) 80418..82100 - 1683 WP_000748143 PilN family type IVB pilus formation outer membrane protein -
NL708_RS23350 (NL708_23350) 82114..82551 - 438 WP_000539806 type IV pilus biogenesis protein PilM -
NL708_RS23355 (NL708_23355) 82551..83618 - 1068 WP_001360287 type IV pilus biogenesis lipoprotein PilL -

Host bacterium

ID   14535 GenBank   NZ_CP100679
Plasmid name   pR17.0809_88k Incompatibility group   IncI
Plasmid size   88397 bp Coordinate of oriT [Strand]   28065..28153 [-]
Host baterium   Salmonella enterica subsp. enterica serovar Anatum strain R17.0809

Cargo genes

Drug resistance gene   blaCMY-2
Virulence gene   -
Metal resistance gene   -
Degradation gene   -
Symbiosis gene   -
Anti-CRISPR   AcrVA2