Detailed information of oriT

oriT

The information of the oriT region


oriTDB ID   106812
Name   oriT_SJTUF10405|unnamedB in_silico
Organism   Salmonella enterica subsp. enterica serovar Typhimurium strain SJTUF10405
Sequence Completeness      -
NCBI accession of oriT (coordinates [strand])   NZ_CP047539 (46341..46429 [-], 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_SJTUF10405|unnamedB
GGGGTGTCGGGGCGAAGCCCTGACCAGATGGCAATTGTAATAGCGTCGCGTGTGACGGTATTACAATTGCACATCCTGTCCCGTTTTTC

Visualization of oriT structure

  oriT secondary structure

Predicted by RNAfold.

Download structure file


Relaxase

ID   4490 GenBank   WP_012783930
Name   nikB_DXN32_RS26120_SJTUF10405|unnamedB insolico UniProt ID   N0GUP8
Length   899 a.a. PDB ID   
Note   Predicted by oriTfinder 2.0

  Relaxase protein sequence


Download         Length: 899 a.a.        Molecular weight: 104070.55 Da        Isoelectric Point: 7.3623

>WP_012783930.1 MULTISPECIES: IncI1-type relaxase NikB [Enterobacteriaceae]
MNAVIPKKRRDGKSSFEDLVSYVSVRDDMTDEELDLSSSSQAEQPHRSRFSRLVDYATRLRNESFVALVD
VMKDGCEWVNFYGVTCFHNCTSLETAAADMEYIARQAHYAKDDTDPVFHYILSWQSHESPRPEQIYDSVR
HTLKSLGLADHQYVSAVHTDTDNLHVHVAVNRVHPETGYLNRLSWSQEKLSRACRELELKHGFAPDNGCW
VHAPGNRIVRKTAVERDRQNAWTRGKKQTFREYVAQTAVAGLRSEPVHDWLSLHRRLAEDGLYLSHMDGK
FLVMDGWDRNREGVQLDSFGPSWCAEKLMKKMGDYTPVPKDIFSQVEAPGRYNPDFIAADVRPEKIAETE
SLQQYACRHLAERLPEMAREGRLENCQAIHRTLAEAGLWMRVQHGHLVICDGYDHNQTPVRADSVWSLLT
LDNVNQLDGGWLPVPTDIFRQVTPTERFRGRRMESCPATDKEWHRMRTGTGPQGAIKRELFSDKESLWGY
SISHCSPQIEEMITQGEFTWQRCHELFAQQGLMLQKQHHGLVVVDAFNHEQTPVKASSIHPDLTLGRAEP
QAGPFVSAPADLFDRVQPESRYNPELAVSDRYGVSSKRDPMLRRQRREARAEARADLRARYLAWREQWRK
PDLRYGERCREIHQACRLRKSHIRAQYDDPALRKLHYHIAEVQRMQALIRLKEDIRDERQKLIADGKWYP
PSYRQWVEIQAAQGDRAAVSQLRGWDYRDRRKDRSRTTTTDRCVVLCEPGGTPVYGNTGDLEARLQKNGS
VRFRDRRTGEFVCTDYGDRVVFRNHHDRNALVDKLDLIAPVLFGRDPRMGFEPEGNDKQFNQVFAEMVAW
HNVTGRTGHEDYRITRPDVDHHREGSERYYRDYIAANSNDDASLPPPEQDKRWEPPSPG

  Protein domains


Predicted by InterproScan.

Relaxase/Mobilisation nuclease domain (Relaxase)

(62-314)


  Protein structure


Source ID Structure
AlphaFold DB N0GUP8


Auxiliary protein

ID   1994 GenBank   WP_001283947
Name   WP_001283947_SJTUF10405|unnamedB 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   4544 GenBank   WP_012783931
Name   trbC_DXN32_RS26125_SJTUF10405|unnamedB 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: 86911.02 Da        Isoelectric Point: 6.7713

>WP_012783931.1 MULTISPECIES: F-type conjugative transfer protein TrbC [Enterobacteriaceae]
MSEHRVNPELLHRTAWGNPVWNALQSLNIYGFCLVASLVASFIWPLALPACLLFTLITMLVFSLQRWRCP
LRMPMTLECADPSQDRMIKRSLFSFWPTLFQYEVILESPASGIFYVGYQRVRDIGRELWLSMDDLTRHIM
FFATTGGGKTETIFAWAINPLCWARGFTLVDGKAQNDTARTIWYLARRFGREDDVEVINFMNGGKSRSEI
ILSGEKTRPQSNTWNPFCYSTEAFTAETMQSMLPQNVQGGEWQSRAIAMNKALVFGTKFWCVREGKTMSL
QMLREHMTLEGMAKLYCRGLDDQWPEEAIAPLRNYLQDVPGFDLSLVRTPSAWTEEPRKQHAYLSGQFSE
TFSTFTEAFGDIFAEDSGDIDIRDSIHSDRILMVMIPALDTSAHTTSALGRMFITQKSMILARDLGYRLE
GTDSDALEVKKYKGRFPYLCFLDEVGAYYTDRIAVEATQVRSLDFALILTAQDQERIEGQTTATNTATLM
QNTGTKFAGRIVSEGSTARTLKSAAGEEARARMNNLQRQDGIFGESWIDSPQISILMESKINVQELIELH
PGEFFSIFRGETVPSASFFIPDDEKSCSSDPVVINRYISVDAPRLDRLRRLVPRTTQRRIPSPENVSAII
GVLTAKPSRKRRKIRTEPHTIVDTFQQRIAGRQAAMAMLEEYDTDINARESALWETAVNTLKTTTREERR
IRYITLNRPELPETKEENQISVRAERAGINLLTLPQDNNHPTGRPVNGFHHKKTNRPDWDGMY

  Protein domains



No domain identified.


  Protein structure



No available structure.




T4SS

T4SS were predicted by using oriTfinder2.

Region 1: 51807..87629

Locus tag Coordinates Strand Size (bp) Protein ID Product Description
DXN32_RS26125 (DXN32_026055) 49523..51814 - 2292 WP_012783931 F-type conjugative transfer protein TrbC -
DXN32_RS26130 (DXN32_026060) 51807..52877 - 1071 WP_012783932 IncI1-type conjugal transfer protein TrbB trbB
DXN32_RS26135 (DXN32_026065) 52896..54104 - 1209 WP_001703845 IncI1-type conjugal transfer protein TrbA trbA
DXN32_RS26140 (DXN32_026070) 54421..55620 - 1200 WP_000948429 IS91 family transposase -
DXN32_RS26145 (DXN32_026075) 55630..55818 - 189 WP_000957857 hypothetical protein -
DXN32_RS26150 (DXN32_026080) 56099..56878 - 780 WP_275450201 protein FinQ -
DXN32_RS26155 (DXN32_026085) 57505..57657 + 153 WP_001387489 Hok/Gef family protein -
DXN32_RS26160 (DXN32_026090) 57729..57980 - 252 WP_001291964 hypothetical protein -
DXN32_RS26385 58481..58576 + 96 WP_000609148 DinQ-like type I toxin DqlB -
DXN32_RS26170 58641..58817 - 177 WP_001054900 hypothetical protein -
DXN32_RS26175 (DXN32_026100) 59208..59417 + 210 WP_000062603 HEAT repeat domain-containing protein -
DXN32_RS26180 (DXN32_026105) 59489..60151 - 663 WP_012783935 plasmid IncI1-type surface exclusion protein ExcA -
DXN32_RS26185 (DXN32_026110) 60222..62390 - 2169 WP_015508354 DotA/TraY family protein traY
DXN32_RS26190 (DXN32_026115) 62487..63071 - 585 WP_001037998 conjugal transfer protein TraX -
DXN32_RS26195 (DXN32_026120) 63100..64302 - 1203 WP_001690627 IncI1-type conjugal transfer protein TraW traW
DXN32_RS26200 (DXN32_026125) 64269..64883 - 615 WP_000337399 IncI1-type conjugal transfer protein TraV traV
DXN32_RS26205 (DXN32_026130) 64883..67927 - 3045 WP_023518848 IncI1-type conjugal transfer protein TraU traU
DXN32_RS26210 (DXN32_026135) 68017..68817 - 801 WP_001164788 IncI1-type conjugal transfer protein TraT traT
DXN32_RS26215 (DXN32_026140) 68801..68989 - 189 WP_001277255 putative conjugal transfer protein TraS -
DXN32_RS26220 (DXN32_026145) 69103..69456 - 354 Protein_84 DUF6750 family protein -
DXN32_RS26225 (DXN32_026150) 69507..70034 - 528 WP_001055569 conjugal transfer protein TraQ traQ
DXN32_RS26230 (DXN32_026155) 70034..70738 - 705 WP_064198837 IncI1-type conjugal transfer protein TraP traP
DXN32_RS26235 (DXN32_026160) 70738..72027 - 1290 WP_132501901 conjugal transfer protein TraO traO
DXN32_RS26240 (DXN32_026165) 72030..73013 - 984 WP_001191880 IncI1-type conjugal transfer protein TraN traN
DXN32_RS26245 (DXN32_026170) 73024..73716 - 693 WP_000138551 DotI/IcmL family type IV secretion protein traM
DXN32_RS26250 (DXN32_026175) 73713..74060 - 348 WP_001055900 conjugal transfer protein traL
DXN32_RS26255 (DXN32_026180) 74078..77842 - 3765 WP_064198838 LPD7 domain-containing protein -
DXN32_RS26260 (DXN32_026185) 77931..78482 - 552 WP_000014586 phospholipase D family protein -
DXN32_RS26265 (DXN32_026190) 78497..78787 - 291 WP_001299214 hypothetical protein traK
DXN32_RS26270 (DXN32_026195) 78784..79932 - 1149 WP_001024972 plasmid transfer ATPase TraJ virB11
DXN32_RS26275 (DXN32_026200) 79929..80747 - 819 WP_032220737 IncI1-type conjugal transfer lipoprotein TraI traI
DXN32_RS26280 (DXN32_026205) 80744..81202 - 459 WP_001079808 IncI1-type conjugal transfer lipoprotein TraH -
DXN32_RS26285 (DXN32_026210) 81618..82277 - 660 Protein_97 IS5 family transposase -
DXN32_RS26290 (DXN32_026215) 82312..83187 - 876 WP_001617865 extended-spectrum class A beta-lactamase CTX-M-14 -
DXN32_RS26295 (DXN32_026220) 83437..84699 - 1263 WP_000608644 IS1380-like element ISEcp1 family transposase -
DXN32_RS26300 (DXN32_026225) 84852..85457 - 606 WP_064198839 lipopolysaccharide core heptose(II)-phosphate phosphatase -
DXN32_RS26305 (DXN32_026230) 85517..86719 - 1203 WP_000976353 conjugal transfer protein TraF -
DXN32_RS26310 (DXN32_026235) 86805..87629 - 825 WP_001690630 conjugal transfer protein TraE traE
DXN32_RS26315 (DXN32_026240) 87780..88934 - 1155 WP_001139955 site-specific integrase -

Host bacterium

ID   7249 GenBank   NZ_CP047539
Plasmid name   SJTUF10405|unnamedB Incompatibility group   IncI
Plasmid size   88993 bp Coordinate of oriT [Strand]   46341..46429 [-]
Host baterium   Salmonella enterica subsp. enterica serovar Typhimurium strain SJTUF10405

Cargo genes

Drug resistance gene   blaCTX-M-14
Virulence gene   -
Metal resistance gene   -
Degradation gene   -
Symbiosis gene   -
Anti-CRISPR   AcrVA2