Detailed information of oriT

oriT

The information of the oriT region


oriTDB ID   105427
Name   oriT_p20762-1 in_silico
Organism   Salmonella enterica subsp. enterica serovar Typhimurium strain CVM 20762
Sequence Completeness      -
NCBI accession of oriT (coordinates [strand])   NZ_CP051405 (11327..11415 [-], 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_p20762-1
GGGGTGTCGGGGCGAAGCCCTGACCAGATGGTAATTGTAATAGCGTCGCGTGTGACGGTATTACAATTACACATCCTGTCCCGTTTTTC

Visualization of oriT structure

  oriT secondary structure

Predicted by RNAfold.

Download structure file


Relaxase

ID   3700 GenBank   WP_001474686
Name   nikB_HFQ58_RS23305_p20762-1 insolico UniProt ID   A0A2J0RB70
Length   899 a.a. PDB ID   
Note   Predicted by oriTfinder 2.0

  Relaxase protein sequence


Download         Length: 899 a.a.        Molecular weight: 103834.33 Da        Isoelectric Point: 7.3473

>WP_001474686.1 MULTISPECIES: IncI1-type relaxase NikB [Enterobacteriaceae]
MNAVIPKKRRDGKSSFEDLVSYVSVRDDMTDEELNLSSSSQAEQPHRSRFSRLVDYATRLRNESFVALVD
VMKDGCEWVNFYGVTCFHNCTSLETAAADMEYIAQQAHYAKDNTDPVFHYILSWQAHESPRPEQIYDSVR
HTLKSLGLGEHQYVSAVHTDTDNLHVHVAVNRVHPVTGYLNCLSWSQEKLSRACRELELKHGFAPDNGCW
VHAPGNRIVRKTAVERDRQNAWTRGKKQTFREYVAQTAVAGLRSEPVHDWLSLHRRLAEDGLYLSQMDGK
FLVMDGWDRNREGVQLDSFGPSWCAEKLMKKMGDYTPVPKDIFSQVEAPGRYNPDFIAADVRPEKIAETE
SLQQYACRHLGERLPEMAREGRLENCQAIHRTLAEAGLWMRVQHGHLVICDGYDHNQTPVRADSVWSLLT
LDNVNQLDGGWQPVPTDIFLQVTPTERFRGRRMESCPATDKEWHRMRTGTGPQGAIKRELFSDKESLWGY
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 A0A2J0RB70


Auxiliary protein

ID   1672 GenBank   WP_001283947
Name   WP_001283947_p20762-1 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   3687 GenBank   WP_001289271
Name   trbC_HFQ58_RS23310_p20762-1 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: 86927.12 Da        Isoelectric Point: 6.7713

>WP_001289271.1 MULTISPECIES: F-type conjugative transfer protein TrbC [Enterobacteriaceae]
MSEHRVNPELLHRTAWGNPVWNALQSLNIYGFCLVASLVASFIWPLALPACLLFTLITMLVFSLQRWRCP
LRMPMTLECADPSQDRMIKRSLFSFWPTLFQYEVILESPASGIFYVGYQRVRDIGRELWLSMDDLTRHIM
FFATTGGGKTETIFAWAINPLCWARGFTLVDGKAQNDTARTIWYLARRFGREDDVEVINFMNGGKSRSEI
ILSGEKTRPQSNTWNPFCYSTEAFTAETMQSMLPQNVQGGEWQSRAIAMNKALVFGTKFWCVREGKTMSL
QMLREHMTLEGMAKLYCRGLDDQWPEEAIAPLRNYLQDVPGFDLSLVRTPSAWTEEPRKQHAYLSGQFSE
TFSTFTEAFGDIFAEDSGDIDIRDSIHSDRILMVMIPALDTSAHTTSALGRMFITQKSMILARDLGYRLE
GTDSDALEVKKYKGRFPYLCFLDEVGAYYTDRIAVEATQVRSLDFALILMAQDQERIEGQTTATNTATLM
QNTGTKFAGRIVSEGSTARTLKSAAGEEARARMNNLQRQDGIFGESWIDSPQISILMESKIDVQELIELH
PGEFFSIFRGETVPSASFFIPDNEKSCSSDPVVINRYISVDAPRLDRLRRLVPRTAQRRIPSPENVSAII
GVLTAKPSRKRRKIRTEPHTIVDTFQQRIAGRQAAMAMLEEYDTDINARESALWETAVNTLKTTTREERR
IRYITLNRPELPETKEENQISVRAERAGINLLTLPQDNNHLTGRPVNGFHHKKTNRPDWDGMY

  Protein domains



No domain identified.


  Protein structure



No available structure.




T4SS

T4SS were predicted by using oriTfinder2.

Region 1: 16793..56501

Locus tag Coordinates Strand Size (bp) Protein ID Product Description
HFQ58_RS23310 (HFQ58_23335) 14509..16800 - 2292 WP_001289271 F-type conjugative transfer protein TrbC -
HFQ58_RS23315 (HFQ58_23340) 16793..17863 - 1071 WP_000151575 IncI1-type conjugal transfer protein TrbB trbB
HFQ58_RS23320 (HFQ58_23345) 17882..19090 - 1209 WP_000121273 IncI1-type conjugal transfer protein TrbA trbA
HFQ58_RS23325 (HFQ58_23350) 19382..19534 + 153 WP_001303307 Hok/Gef family protein -
HFQ58_RS23330 (HFQ58_23355) 19606..19857 - 252 WP_001291965 hypothetical protein -
HFQ58_RS23335 (HFQ58_23360) 20218..21000 - 783 WP_077769233 IS21-like element IS100kyp family helper ATPase IstB -
HFQ58_RS23340 (HFQ58_23365) 20997..22019 - 1023 WP_001572805 IS21-like element IS100 family transposase -
HFQ58_RS23345 (HFQ58_23370) 22740..22916 - 177 WP_001054900 hypothetical protein -
HFQ58_RS23350 (HFQ58_23375) 23308..23517 + 210 WP_000062603 HEAT repeat domain-containing protein -
HFQ58_RS23355 (HFQ58_23380) 23589..24251 - 663 WP_000644794 plasmid IncI1-type surface exclusion protein ExcA -
HFQ58_RS23360 (HFQ58_23385) 24322..26490 - 2169 WP_000698368 DotA/TraY family protein traY
HFQ58_RS23365 (HFQ58_23390) 26587..27171 - 585 WP_001037998 conjugal transfer protein TraX -
HFQ58_RS23370 (HFQ58_23395) 27200..28402 - 1203 WP_001189158 IncI1-type conjugal transfer protein TraW traW
HFQ58_RS23375 (HFQ58_23400) 28369..28983 - 615 WP_000337394 IncI1-type conjugal transfer protein TraV traV
HFQ58_RS23380 (HFQ58_23405) 28983..32027 - 3045 WP_001024751 IncI1-type conjugal transfer protein TraU traU
HFQ58_RS23385 (HFQ58_23410) 32117..32917 - 801 WP_001164788 IncI1-type conjugal transfer protein TraT traT
HFQ58_RS23390 (HFQ58_23415) 32901..33089 - 189 WP_001277255 putative conjugal transfer protein TraS -
HFQ58_RS23395 (HFQ58_23420) 33153..33557 - 405 WP_000086960 IncI1-type conjugal transfer protein TraR traR
HFQ58_RS23400 (HFQ58_23425) 33608..34135 - 528 WP_001055569 conjugal transfer protein TraQ traQ
HFQ58_RS23405 (HFQ58_23430) 34135..34839 - 705 WP_000801920 IncI1-type conjugal transfer protein TraP traP
HFQ58_RS23410 (HFQ58_23435) 34839..36128 - 1290 WP_001271997 conjugal transfer protein TraO traO
HFQ58_RS23415 (HFQ58_23440) 36131..37114 - 984 WP_001191878 IncI1-type conjugal transfer protein TraN traN
HFQ58_RS23420 (HFQ58_23445) 37125..37817 - 693 WP_000138552 DotI/IcmL family type IV secretion protein traM
HFQ58_RS23425 (HFQ58_23450) 37814..38161 - 348 WP_001055900 conjugal transfer protein traL
HFQ58_RS23430 (HFQ58_23455) 38179..41946 - 3768 WP_001141535 LPD7 domain-containing protein -
HFQ58_RS23435 (HFQ58_23460) 42036..42587 - 552 WP_000014584 phospholipase D family protein -
HFQ58_RS23440 (HFQ58_23465) 42602..42892 - 291 WP_001299214 hypothetical protein traK
HFQ58_RS23445 (HFQ58_23470) 42889..44037 - 1149 WP_001024972 plasmid transfer ATPase TraJ virB11
HFQ58_RS23450 (HFQ58_23475) 44034..44852 - 819 WP_000646097 IncI1-type conjugal transfer lipoprotein TraI traI
HFQ58_RS23455 (HFQ58_23480) 44849..45307 - 459 WP_001079808 IncI1-type conjugal transfer lipoprotein TraH -
HFQ58_RS23460 (HFQ58_23485) 45702..46286 - 585 WP_000977517 histidine phosphatase family protein -
HFQ58_RS23465 (HFQ58_23490) 46346..47548 - 1203 WP_000976353 conjugal transfer protein TraF -
HFQ58_RS23470 (HFQ58_23495) 47634..48458 - 825 WP_001238927 conjugal transfer protein TraE traE
HFQ58_RS23475 (HFQ58_23500) 48609..49763 - 1155 WP_001139958 site-specific integrase -
HFQ58_RS24710 50338..50559 + 222 Protein_50 prepilin -
HFQ58_RS23485 (HFQ58_23505) 50703..51995 - 1293 WP_032274560 shufflon system plasmid conjugative transfer pilus tip adhesin PilV -
HFQ58_RS23490 (HFQ58_23510) 51995..52651 - 657 WP_001193553 prepilin peptidase -
HFQ58_RS23495 (HFQ58_23515) 52636..53196 - 561 WP_000014116 lytic transglycosylase domain-containing protein virB1
HFQ58_RS23500 (HFQ58_23520) 53206..53820 - 615 WP_000959785 type 4 pilus major pilin -
HFQ58_RS23505 (HFQ58_23525) 53838..54935 - 1098 WP_001208805 type II secretion system F family protein -
HFQ58_RS23510 (HFQ58_23530) 54948..56501 - 1554 WP_000362202 ATPase, T2SS/T4P/T4SS family virB11
HFQ58_RS23515 (HFQ58_23535) 56512..56964 - 453 WP_001247336 type IV pilus biogenesis protein PilP -
HFQ58_RS23520 (HFQ58_23540) 56951..58246 - 1296 WP_000752774 type 4b pilus protein PilO2 -
HFQ58_RS23525 (HFQ58_23545) 58239..59921 - 1683 WP_000748143 PilN family type IVB pilus formation outer membrane protein -
HFQ58_RS23530 (HFQ58_23550) 59935..60372 - 438 WP_000539807 type IV pilus biogenesis protein PilM -
HFQ58_RS23535 (HFQ58_23555) 60372..61439 - 1068 WP_000742600 type IV pilus biogenesis lipoprotein PilL -

Host bacterium

ID   5865 GenBank   NZ_CP051405
Plasmid name   p20762-1 Incompatibility group   IncI1
Plasmid size   99003 bp Coordinate of oriT [Strand]   11327..11415 [-]
Host baterium   Salmonella enterica subsp. enterica serovar Typhimurium strain CVM 20762

Cargo genes

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