Detailed information of oriT

oriT

The information of the oriT region


oriTDB ID   105409
Name   oriT_p20760-1 in_silico
Organism   Salmonella enterica subsp. enterica serovar Heidelberg strain CVM 20760
Sequence Completeness      -
NCBI accession of oriT (coordinates [strand])   NZ_CP051411 (76057..76143 [-], 87 nt)
oriT length   87 nt
IRs (inverted repeats)     _
Location of nic site      _
Conserved sequence flanking the
  nic site    		  _
Note   Predicted by oriTfinder 2.0

  oriT sequence  


Download         Length: 87 nt

>oriT_p20760-1
GGGGTGTCGGGGCGAAGCCCTGACCAGGAGGCAATTGTATAATCGCGCGTGCGCGGTTATACAATTGCACATCCTGTCCCGTTTTTC

Visualization of oriT structure

  oriT secondary structure

Predicted by RNAfold.

Download structure file


Relaxase

ID   3691 GenBank   WP_001354015
Name   nikB_HFQ56_RS23370_p20760-1 insolico UniProt ID   E8XLT1
Length   899 a.a. PDB ID   
Note   Predicted by oriTfinder 2.0

  Relaxase protein sequence


Download         Length: 899 a.a.        Molecular weight: 104018.47 Da        Isoelectric Point: 7.3526

>WP_001354015.1 MULTISPECIES: IncI1-type relaxase NikB [Enterobacteriaceae]
MNAVIPKKRRDGKSSFEDLVSYVSVRDDMTDEELDLSSSSQAEQPHRSRFSRLVDYATRLRNESFVALVD
VMKDGCEWVNFYGVTCFHNCTSLETAAADMEYIARQAHYAKDDTDPVFHYILSWQSHESPRPEQIYDSVR
HTLKSLGLADHQYVSAVHTDTDNLHVHVAVNRVHPETGYLNRLSWSQEKLSRACRELELKHGFAPDNGCW
VHAPGNRIVRKTAVERDRQNAWTRGKKQTFREYVAQTAVAGLRSEPVHDWLSLHRRLAEDGLYLSQMDGK
FLVMDGWDRNREGVQLDSFGPSWCAEKLMKKMGDYTPVPKDIFSQVEAPGRYNPDFIAADVRPEKIAETE
SLQQYACRHLGERLPEMAREGRLENCLAIHRTLAEAGLWMRVQHGHLVICDGYDHNQTPVRADSVWSLLT
LDNVNQLDGGWQPVPTDIFRQVTPTERFRGRRMESCPATDKEWHRMRTGTGPQGAIKRELFSDKESLWGY
SISHCSPQIEEMITQGEFTWQRCHELFAQQGLMLQKQHHGLVVVDAFNHEQTPVKASSIHPDLTLGRAEP
QAGPFVSAPADLFDRVQPENRYNPELAVSDRYGVSSKRDPMLRRQRREARAEARADLRARYLAWREQWRK
PDLRYGERCREIHQACRLRKSHIRAQYDDPALRKLHYHIAEVQRMQALIRLKEDIRDERQKLIADGKWYP
PSYRQWVEIQAAQGDRAAVSQLRGWDYRDRRKDKSRTTTTDRCVVLCEPGGTPVYGNTGDLEARLQKNGS
VRFRDRRTGEFVCTDYGDRVVFRNHHDRNALADKLDLIAPVLFGRDPRMGFEPEGNDKQFNQVFAEMVAW
HNVTGRTGHEDYRITRPDVDHHREGSERYYRDYIAANSNDDASLPPPEQDKRWEPPSPG

  Protein domains


Predicted by InterproScan.

Relaxase/Mobilisation nuclease domain (Relaxase)

(62-314)


  Protein structure


Source ID Structure
AlphaFold DB E8XLT1


Auxiliary protein

ID   1668 GenBank   WP_001281051
Name   WP_001281051_p20760-1 insolico UniProt ID   A0A3U8I0C6
Length   110 a.a. PDB ID   _
Note   Predicted by oriTfinder 2.0

  Auxiliary protein sequence


Download         Length: 110 a.a.        Molecular weight: 12646.44 Da        Isoelectric Point: 10.4030

>WP_001281051.1 MULTISPECIES: plasmid mobilization protein MobA [Enterobacteriaceae]
MSDKRQRSGSERRQKTILRAVRFSPDEDETICKNAEDSGLTVSAYIRNAALNKRINSRTDDAFLKELMRL
GRMQKHLFVQGKRTGDKEYAEVLVAITELTNTLRKQLMEG

  Protein domains



No domain identified.



  Protein structure


Source ID Structure
AlphaFold DB A0A3U8I0C6


T4CP

ID   3674 GenBank   WP_001289276
Name   trbC_HFQ56_RS23375_p20760-1 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: 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: 81522..119821

Locus tag Coordinates Strand Size (bp) Protein ID Product Description
HFQ56_RS23375 (HFQ56_23390) 79238..81529 - 2292 WP_001289276 F-type conjugative transfer protein TrbC -
HFQ56_RS23380 (HFQ56_23395) 81522..82592 - 1071 WP_000151583 IncI1-type conjugal transfer protein TrbB trbB
HFQ56_RS23385 (HFQ56_23400) 82611..83819 - 1209 WP_000121274 IncI1-type conjugal transfer protein TrbA trbA
HFQ56_RS23390 (HFQ56_23405) 84111..84263 + 153 WP_001331364 Hok/Gef family protein -
HFQ56_RS25125 84335..84526 - 192 WP_174715448 hypothetical protein -
HFQ56_RS25060 85087..85182 + 96 WP_000609148 DinQ-like type I toxin DqlB -
HFQ56_RS23400 (HFQ56_23415) 85247..85423 - 177 WP_001054904 hypothetical protein -
HFQ56_RS23405 (HFQ56_23420) 85815..86024 + 210 WP_000062603 HEAT repeat domain-containing protein -
HFQ56_RS23410 (HFQ56_23425) 86096..86758 - 663 WP_000653334 plasmid IncI1-type surface exclusion protein ExcA -
HFQ56_RS23415 (HFQ56_23430) 86823..88985 - 2163 WP_202195954 DotA/TraY family protein traY
HFQ56_RS23420 (HFQ56_23435) 89082..89666 - 585 WP_001037987 IncI1-type conjugal transfer protein TraX -
HFQ56_RS23425 (HFQ56_23440) 89695..90897 - 1203 WP_001189160 IncI1-type conjugal transfer protein TraW traW
HFQ56_RS23430 (HFQ56_23445) 90864..91478 - 615 WP_000337398 IncI1-type conjugal transfer protein TraV traV
HFQ56_RS23435 (HFQ56_23450) 91478..94522 - 3045 WP_001024780 IncI1-type conjugal transfer protein TraU traU
HFQ56_RS23440 (HFQ56_23455) 94612..95412 - 801 WP_001164788 IncI1-type conjugal transfer protein TraT traT
HFQ56_RS23445 (HFQ56_23460) 95396..95584 - 189 WP_001277255 putative conjugal transfer protein TraS -
HFQ56_RS23450 (HFQ56_23465) 95648..96052 - 405 WP_000086957 IncI1-type conjugal transfer protein TraR traR
HFQ56_RS23455 (HFQ56_23470) 96103..96630 - 528 WP_001055569 conjugal transfer protein TraQ traQ
HFQ56_RS23460 (HFQ56_23475) 96630..97334 - 705 WP_202195955 IncI1-type conjugal transfer protein TraP traP
HFQ56_RS23465 (HFQ56_23480) 97334..98623 - 1290 WP_001272005 conjugal transfer protein TraO traO
HFQ56_RS23470 (HFQ56_23485) 98626..99609 - 984 WP_001191877 IncI1-type conjugal transfer protein TraN traN
HFQ56_RS23475 (HFQ56_23490) 99620..100312 - 693 WP_000138548 DotI/IcmL family type IV secretion protein traM
HFQ56_RS23480 (HFQ56_23495) 100309..100656 - 348 WP_001055900 conjugal transfer protein traL
HFQ56_RS23485 (HFQ56_23500) 100674..104441 - 3768 WP_096098724 LPD7 domain-containing protein -
HFQ56_RS23490 (HFQ56_23505) 104531..105082 - 552 WP_000014583 phospholipase D family protein -
HFQ56_RS23495 (HFQ56_23510) 105097..105387 - 291 WP_001299214 hypothetical protein traK
HFQ56_RS23500 (HFQ56_23515) 105384..106532 - 1149 WP_001024972 plasmid transfer ATPase TraJ virB11
HFQ56_RS23505 (HFQ56_23520) 106529..107347 - 819 WP_000646098 IncI1-type conjugal transfer lipoprotein TraI traI
HFQ56_RS23510 (HFQ56_23525) 107344..107802 - 459 WP_001079808 IncI1-type conjugal transfer lipoprotein TraH -
HFQ56_RS23515 (HFQ56_23530) 108197..108781 - 585 WP_000977522 histidine phosphatase family protein -
HFQ56_RS23520 (HFQ56_23535) 108841..110043 - 1203 WP_000976351 conjugal transfer protein TraF -
HFQ56_RS23525 (HFQ56_23540) 110128..110952 - 825 WP_001238939 conjugal transfer protein TraE traE
HFQ56_RS23530 (HFQ56_23545) 111103..112257 - 1155 WP_001139957 site-specific integrase -
HFQ56_RS23535 (HFQ56_23550) 113778..114026 + 249 WP_001349157 hypothetical protein -
HFQ56_RS23540 (HFQ56_23555) 114023..115315 - 1293 WP_001417545 shufflon system plasmid conjugative transfer pilus tip adhesin PilV -
HFQ56_RS23545 (HFQ56_23560) 115315..115971 - 657 WP_001193553 prepilin peptidase -
HFQ56_RS23550 (HFQ56_23565) 115956..116516 - 561 WP_000014116 lytic transglycosylase domain-containing protein virB1
HFQ56_RS23555 (HFQ56_23570) 116526..117140 - 615 WP_000959785 type 4 pilus major pilin -
HFQ56_RS23560 (HFQ56_23575) 117158..118255 - 1098 WP_001208805 type II secretion system F family protein -
HFQ56_RS23565 (HFQ56_23580) 118268..119821 - 1554 WP_000362202 ATPase, T2SS/T4P/T4SS family virB11
HFQ56_RS23570 (HFQ56_23585) 119832..120284 - 453 WP_001247336 type IV pilus biogenesis protein PilP -
HFQ56_RS23575 (HFQ56_23590) 120271..121566 - 1296 WP_000752774 type 4b pilus protein PilO2 -
HFQ56_RS23580 (HFQ56_23595) 121559..123241 - 1683 WP_000748143 PilN family type IVB pilus formation outer membrane protein -
HFQ56_RS23585 (HFQ56_23600) 123255..123692 - 438 WP_000539807 type IV pilus biogenesis protein PilM -
HFQ56_RS23590 (HFQ56_23605) 123692..124759 - 1068 WP_000742600 type IV pilus biogenesis lipoprotein PilL -

Host bacterium

ID   5847 GenBank   NZ_CP051411
Plasmid name   p20760-1 Incompatibility group   IncI1
Plasmid size   125574 bp Coordinate of oriT [Strand]   76057..76143 [-]
Host baterium   Salmonella enterica subsp. enterica serovar Heidelberg strain CVM 20760

Cargo genes

Drug resistance gene   tet(A), aph(3')-Ia, sul3, ant(3'')-Ia, cmlA1, aadA2
Virulence gene   -
Metal resistance gene   merR, merT, merP, merA, merD, merE
Degradation gene   -
Symbiosis gene   -
Anti-CRISPR   -