Detailed information of oriT

oriT

The information of the oriT region


oriTDB ID   106773
Name   oriT_pR18.1078_p9.3k in_silico
Organism   Salmonella enterica subsp. enterica serovar Typhimurium strain R18.1078
Sequence Completeness      -
NCBI accession of oriT (coordinates [strand])   NZ_CP065569 (47688..47776 [-], 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_pR18.1078_p9.3k
GGGGTGTCGGGGCGAAGCCCTGACCAGATGGTAATTGTAATAGCGTCGCGTGTGACGGTATTACAATTACACATCCTGTCCCGTTTTTC

Visualization of oriT structure

  oriT secondary structure

Predicted by RNAfold.

Download structure file


Relaxase

ID   4465 GenBank   WP_011264053
Name   nikB_I7656_RS25955_pR18.1078_p9.3k insolico UniProt ID   A0A767TAZ8
Length   899 a.a. PDB ID   
Note   Predicted by oriTfinder 2.0

  Relaxase protein sequence


Download         Length: 899 a.a.        Molecular weight: 103882.34 Da        Isoelectric Point: 7.4198

>WP_011264053.1 MULTISPECIES: IncI1-type relaxase NikB [Enterobacteriaceae]
MNAVIPKKRRDGKSSFEDLVSYVSVRDDMTDEELNLSSSSQAEQPHRSRFSRLVDYATRLRNESFVALVD
VMKDGCEWVNFYGVTCFHNCTSLETAAADMEYIAQQAHYAKDNTDPVFHYILSWQAHESPRPEQIYDSVR
HTLKSLGLGEHQYVSAVHTDTDNLHVHVAVNRVHPVTGYLNCLSWSQEKLSRACRELELKHGFAPDNGCW
VHAPGNRIVRKTAVERDRQNAWTRGKKQTFREYVAQTAVAGLRSEPVNDWLSLHRRLAEDGLYLSQMDGK
FLVMDGWDRNREGVQLDSFGPSWCAEKLMKKMGDYTPVPKDIFSQVEAPGRYNPDFIAADVRPEKIAETE
SLQQYACRHLGERLPEMAREGRLENCQAIHRTLAEAGLWMRVQHGHLVICDGYDHNQTPVRADSVWSLLT
LDNVNQLDGGWQPVPTDIFRQVTPTERFRGRRMESCPATDKEWHRMRTGTGPQGAIKRELFSDKESLWGY
SISHCSPQIEEMITQGEFTWQRCHELFAQQGLMLQKQHHGLVVVDAFNHEQTPVKASSIHPDLTLGRAEP
QAGPFVSAPADLFDRVQPESRYNPELAVSDRYGVSSKRDPMLRRQRREARAEARADLRARYLAWREQWRK
PDLRYGERCREIHQACRLRKSHIRAQYDDPALRKLHYHIAEVQRMQALIRLKEDIRDERQKLIADGKWYP
PSYRQWVEIQAAQGDRAAVSQLRGWDYRDRRKDRSRTTTTDRCVVLCEPGGTPVYGNTGDLEARLQKNGS
VRFRDRRTGEFVCTDYGDRVVFRNHHDRNALADKLDLIAPVLFGRDPRMGFEPEGNDKQFNQVFAEMVAW
HNVTGRTGHEDYRITRPDVDHHREGSERYYRDYIAANSNDDASLPPPEQDKRWEPPSPG

  Protein domains


Predicted by InterproScan.

Relaxase/Mobilisation nuclease domain (Relaxase)

(62-314)


  Protein structure


Source ID Structure
AlphaFold DB A0A767TAZ8


Auxiliary protein

ID   1986 GenBank   WP_001283947
Name   WP_001283947_pR18.1078_p9.3k 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   4513 GenBank   WP_011264051
Name   trbC_I7656_RS25960_pR18.1078_p9.3k 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: 53155..97309

Locus tag Coordinates Strand Size (bp) Protein ID Product Description
I7656_RS25960 (I7656_26200) 50871..53162 - 2292 WP_011264051 F-type conjugative transfer protein TrbC -
I7656_RS25965 (I7656_26205) 53155..54225 - 1071 WP_011264050 IncI1-type conjugal transfer protein TrbB trbB
I7656_RS25970 (I7656_26210) 54244..55452 - 1209 WP_011264049 IncI1-type conjugal transfer protein TrbA trbA
I7656_RS25975 (I7656_26215) 55759..56541 - 783 WP_023063753 protein FinQ -
I7656_RS25980 (I7656_26220) 56737..57054 + 318 WP_000118520 quaternary ammonium compound efflux SMR transporter SugE -
I7656_RS25985 (I7656_26225) 57051..57584 - 534 WP_001221666 lipocalin family protein -
I7656_RS25990 (I7656_26230) 57678..58823 - 1146 WP_000976514 extended-spectrum class C beta-lactamase CMY-2 -
I7656_RS25995 (I7656_26235) 59147..60409 - 1263 WP_249756241 IS1380-like element ISEcp1 family transposase -
I7656_RS26000 (I7656_26240) 60562..60936 - 375 WP_223349261 hypothetical protein -
I7656_RS26005 (I7656_26245) 61257..61409 + 153 WP_001387489 Hok/Gef family protein -
I7656_RS26010 (I7656_26250) 61481..61732 - 252 WP_001291964 hypothetical protein -
I7656_RS26350 62233..62328 + 96 WP_000609148 DinQ-like type I toxin DqlB -
I7656_RS26020 (I7656_26260) 62393..62569 - 177 WP_001054897 hypothetical protein -
I7656_RS26025 (I7656_26265) 62961..63170 + 210 WP_000062603 HEAT repeat domain-containing protein -
I7656_RS26030 (I7656_26270) 63242..63904 - 663 WP_000644796 plasmid IncI1-type surface exclusion protein ExcA -
I7656_RS26035 (I7656_26275) 63975..66143 - 2169 WP_023518847 DotA/TraY family protein traY
I7656_RS26040 (I7656_26280) 66240..66824 - 585 WP_001746157 IncI1-type conjugal transfer protein TraX -
I7656_RS26045 (I7656_26285) 66853..68055 - 1203 WP_001189160 IncI1-type conjugal transfer protein TraW traW
I7656_RS26050 (I7656_26290) 68022..68636 - 615 WP_000337399 IncI1-type conjugal transfer protein TraV traV
I7656_RS26055 (I7656_26295) 68636..71680 - 3045 WP_249756242 IncI1-type conjugal transfer protein TraU traU
I7656_RS26060 (I7656_26300) 71770..72570 - 801 WP_001164788 IncI1-type conjugal transfer protein TraT traT
I7656_RS26065 (I7656_26305) 72554..72742 - 189 WP_001277255 putative conjugal transfer protein TraS -
I7656_RS26070 (I7656_26310) 72806..73210 - 405 WP_000086965 IncI1-type conjugal transfer protein TraR traR
I7656_RS26075 (I7656_26315) 73261..73788 - 528 WP_001055569 conjugal transfer protein TraQ traQ
I7656_RS26080 (I7656_26320) 73788..74492 - 705 WP_001493811 IncI1-type conjugal transfer protein TraP traP
I7656_RS26085 (I7656_26325) 74492..75781 - 1290 WP_011264042 conjugal transfer protein TraO traO
I7656_RS26090 (I7656_26330) 75784..76767 - 984 WP_001191880 IncI1-type conjugal transfer protein TraN traN
I7656_RS26095 (I7656_26335) 76778..77470 - 693 WP_000138552 DotI/IcmL family type IV secretion protein traM
I7656_RS26100 (I7656_26340) 77467..77814 - 348 WP_001055900 conjugal transfer protein traL
I7656_RS26105 (I7656_26345) 77832..81599 - 3768 WP_023518849 LPD7 domain-containing protein -
I7656_RS26110 (I7656_26350) 81689..82240 - 552 WP_000014584 phospholipase D family protein -
I7656_RS26115 (I7656_26355) 82255..82545 - 291 WP_001299214 hypothetical protein traK
I7656_RS26120 (I7656_26360) 82542..83690 - 1149 WP_001024972 plasmid transfer ATPase TraJ virB11
I7656_RS26125 (I7656_26365) 83687..84505 - 819 WP_000646097 IncI1-type conjugal transfer lipoprotein TraI traI
I7656_RS26130 (I7656_26370) 84502..84960 - 459 WP_001079808 IncI1-type conjugal transfer lipoprotein TraH -
I7656_RS26135 (I7656_26375) 85355..85939 - 585 WP_000977522 histidine phosphatase family protein -
I7656_RS26140 (I7656_26380) 85999..87201 - 1203 WP_000976353 conjugal transfer protein TraF -
I7656_RS26145 (I7656_26385) 87287..88111 - 825 WP_001238929 conjugal transfer protein TraE traE
I7656_RS26150 (I7656_26390) 88262..89416 - 1155 WP_001139958 site-specific integrase -
I7656_RS26155 (I7656_26395) 89415..89768 + 354 WP_001393368 hypothetical protein -
I7656_RS26440 89798..90019 + 222 Protein_107 prepilin -
I7656_RS26160 90016..90264 - 249 WP_001349157 hypothetical protein -
I7656_RS26165 (I7656_26400) 91433..92803 - 1371 WP_001393542 shufflon system plasmid conjugative transfer pilus tip adhesin PilV -
I7656_RS26170 (I7656_26405) 92803..93459 - 657 WP_001193553 prepilin peptidase -
I7656_RS26175 (I7656_26410) 93444..94004 - 561 WP_000014116 lytic transglycosylase domain-containing protein virB1
I7656_RS26180 (I7656_26415) 94014..94628 - 615 WP_000959786 type 4 pilus major pilin -
I7656_RS26185 (I7656_26420) 94646..95743 - 1098 WP_001208805 type II secretion system F family protein -
I7656_RS26190 (I7656_26425) 95756..97309 - 1554 WP_000362202 ATPase, T2SS/T4P/T4SS family virB11
I7656_RS26195 (I7656_26430) 97320..97772 - 453 WP_001247334 type IV pilus biogenesis protein PilP -
I7656_RS26200 (I7656_26435) 97759..99054 - 1296 WP_000752772 type 4b pilus protein PilO2 -
I7656_RS26205 (I7656_26440) 99047..100729 - 1683 WP_000748143 PilN family type IVB pilus formation outer membrane protein -
I7656_RS26210 (I7656_26445) 100743..101180 - 438 WP_000539807 type IV pilus biogenesis protein PilM -
I7656_RS26215 (I7656_26450) 101180..102247 - 1068 WP_001302629 type IV pilus biogenesis lipoprotein PilL -

Host bacterium

ID   7210 GenBank   NZ_CP065569
Plasmid name   pR18.1078_p9.3k Incompatibility group   IncI1
Plasmid size   107790 bp Coordinate of oriT [Strand]   47688..47776 [-]
Host baterium   Salmonella enterica subsp. enterica serovar Typhimurium strain R18.1078

Cargo genes

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