Detailed information of oriT

oriT

The information of the oriT region


oriTDB ID   105412
Name   oriT_p20723-2 in_silico
Organism   Salmonella enterica subsp. enterica serovar Uganda strain CVM 20723
Sequence Completeness      -
NCBI accession of oriT (coordinates [strand])   NZ_CP051420 (24608..24696 [+], 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_p20723-2
GGGGTGTCGGGGCGAAGCCCTGACCAGATGGCAATTGTAATAGCGTCGCGTGTGACGGTATTACAATTGCACATCCTGTCCCGTTTTTC

Visualization of oriT structure

  oriT secondary structure

Predicted by RNAfold.

Download structure file


Relaxase

ID   3693 GenBank   WP_006855641
Name   nikB_HFQ25_RS00145_p20723-2 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   1669 GenBank   WP_001283947
Name   WP_001283947_p20723-2 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   3676 GenBank   WP_199275336
Name   trbC_HFQ25_RS00140_p20723-2 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: 86973.21 Da        Isoelectric Point: 6.7688

>WP_199275336.1 F-type conjugative transfer protein TrbC [Salmonella enterica]
MSEHRVNPELLHRTAWGNPVWNALQSLNIYGFCLVASLVASFIWPLALPACLLFTLITMLVFSLQRWRCP
LRMPMTLECADPSQDRMIKRSLFSFWPTLFQYEVILESPASGIFYVGYQRVRDIGRELWLSMDDLTRHIM
FFATTGGGKTETIFAWAINPLCWARGFTLVDGKAQNDTARTIWYLARRFGREDDVEVINFMNGGKSRSEI
ILCGEKTRPQSNTWNPFCYSTEAFTAETMQSMLPQNVQGGEWQSRAIAMNKALVFGTKFWCVREGKTMSL
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: 21..19230

Locus tag Coordinates Strand Size (bp) Protein ID Product Description
HFQ25_RS00035 (HFQ25_00035) 21..368 + 348 WP_001055900 conjugal transfer protein traL
HFQ25_RS00040 (HFQ25_00040) 365..1057 + 693 WP_000138552 DotI/IcmL family type IV secretion protein traM
HFQ25_RS00045 (HFQ25_00045) 1068..2051 + 984 WP_001191878 IncI1-type conjugal transfer protein TraN traN
HFQ25_RS00050 (HFQ25_00050) 2054..3343 + 1290 WP_001271997 conjugal transfer protein TraO traO
HFQ25_RS00055 (HFQ25_00055) 3343..4047 + 705 WP_000801920 IncI1-type conjugal transfer protein TraP traP
HFQ25_RS00060 (HFQ25_00060) 4047..4574 + 528 WP_001055569 conjugal transfer protein TraQ traQ
HFQ25_RS00065 (HFQ25_00065) 4625..5029 + 405 WP_000086960 IncI1-type conjugal transfer protein TraR traR
HFQ25_RS00070 (HFQ25_00070) 5093..5281 + 189 WP_001277255 putative conjugal transfer protein TraS -
HFQ25_RS00075 (HFQ25_00075) 5265..6065 + 801 WP_001164788 IncI1-type conjugal transfer protein TraT traT
HFQ25_RS00080 (HFQ25_00080) 6155..9199 + 3045 WP_001024752 IncI1-type conjugal transfer protein TraU traU
HFQ25_RS00085 (HFQ25_00085) 9199..9813 + 615 WP_000337394 IncI1-type conjugal transfer protein TraV traV
HFQ25_RS00090 (HFQ25_00090) 9780..10982 + 1203 WP_001189159 IncI1-type conjugal transfer protein TraW traW
HFQ25_RS00095 (HFQ25_00095) 11011..11595 + 585 WP_001037987 IncI1-type conjugal transfer protein TraX -
HFQ25_RS00100 (HFQ25_00100) 11692..13860 + 2169 WP_000698360 IncI1-type conjugal transfer membrane protein TraY traY
HFQ25_RS00105 (HFQ25_00105) 13936..14550 + 615 WP_000578649 plasmid IncI1-type surface exclusion protein ExcA -
HFQ25_RS00110 (HFQ25_00110) 14648..14857 + 210 WP_001140545 hemolysin expression modulator Hha -
HFQ25_RS00115 (HFQ25_00115) 15066..15242 + 177 WP_001054900 hypothetical protein -
HFQ25_RS00120 (HFQ25_00120) 16166..16417 + 252 WP_001291965 hypothetical protein -
HFQ25_RS00125 (HFQ25_00125) 16489..16641 - 153 WP_001303307 Hok/Gef family protein -
HFQ25_RS00130 (HFQ25_00130) 16933..18141 + 1209 WP_000121273 IncI1-type conjugal transfer protein TrbA trbA
HFQ25_RS00135 (HFQ25_00135) 18160..19230 + 1071 WP_000151583 IncI1-type conjugal transfer protein TrbB trbB
HFQ25_RS00140 (HFQ25_00140) 19223..21514 + 2292 WP_199275336 F-type conjugative transfer protein TrbC -

Region 2: 65461..79358

Locus tag Coordinates Strand Size (bp) Protein ID Product Description
HFQ25_RS00405 (HFQ25_00405) 60523..61590 + 1068 WP_001302629 type IV pilus biogenesis lipoprotein PilL -
HFQ25_RS00410 (HFQ25_00410) 61590..62027 + 438 WP_000539807 type IV pilus biogenesis protein PilM -
HFQ25_RS00415 (HFQ25_00415) 62041..63723 + 1683 WP_000748143 PilN family type IVB pilus formation outer membrane protein -
HFQ25_RS00420 (HFQ25_00420) 63716..65011 + 1296 WP_000752772 type 4b pilus protein PilO2 -
HFQ25_RS00425 (HFQ25_00425) 64998..65450 + 453 WP_001247334 type IV pilus biogenesis protein PilP -
HFQ25_RS00430 (HFQ25_00430) 65461..67014 + 1554 WP_000362202 ATPase, T2SS/T4P/T4SS family virB11
HFQ25_RS00435 (HFQ25_00435) 67027..68124 + 1098 WP_001208805 type II secretion system F family protein -
HFQ25_RS00440 (HFQ25_00440) 68142..68756 + 615 WP_000959786 type 4 pilus major pilin -
HFQ25_RS00445 (HFQ25_00445) 68766..69326 + 561 WP_000014116 lytic transglycosylase domain-containing protein virB1
HFQ25_RS00450 (HFQ25_00450) 69311..69967 + 657 WP_001389386 prepilin peptidase -
HFQ25_RS00455 (HFQ25_00455) 69967..71391 + 1425 WP_001389385 shufflon system plasmid conjugative transfer pilus tip adhesin PilV -
HFQ25_RS25120 71388..71612 - 225 Protein_87 hypothetical protein -
HFQ25_RS00465 (HFQ25_00460) 71845..72198 - 354 WP_244665452 hypothetical protein -
HFQ25_RS00470 (HFQ25_00465) 72197..73351 + 1155 WP_001139958 site-specific integrase -
HFQ25_RS00475 (HFQ25_00470) 73502..74326 + 825 WP_001238927 conjugal transfer protein TraE traE
HFQ25_RS00480 (HFQ25_00475) 74412..75614 + 1203 WP_000976353 conjugal transfer protein TraF -
HFQ25_RS00485 (HFQ25_00480) 75674..76258 + 585 WP_000977522 histidine phosphatase family protein -
HFQ25_RS00490 (HFQ25_00485) 76653..77111 + 459 WP_001079808 IncI1-type conjugal transfer lipoprotein TraH -
HFQ25_RS00495 (HFQ25_00490) 77108..77926 + 819 WP_000646097 IncI1-type conjugal transfer lipoprotein TraI traI
HFQ25_RS00500 (HFQ25_00495) 77923..79071 + 1149 WP_001024972 plasmid transfer ATPase TraJ virB11
HFQ25_RS00505 (HFQ25_00500) 79068..79358 + 291 WP_001299214 hypothetical protein traK
HFQ25_RS00510 (HFQ25_00505) 79373..79924 + 552 WP_000014584 phospholipase D family protein -

Host bacterium

ID   5850 GenBank   NZ_CP051420
Plasmid name   p20723-2 Incompatibility group   IncI1
Plasmid size   83778 bp Coordinate of oriT [Strand]   24608..24696 [+]
Host baterium   Salmonella enterica subsp. enterica serovar Uganda strain CVM 20723

Cargo genes

Drug resistance gene   -
Virulence gene   -
Metal resistance gene   -
Degradation gene   -
Symbiosis gene   -
Anti-CRISPR   -