Detailed information of oriT

oriT

The information of the oriT region


oriTDB ID   114087
Name   oriT_pR18.1932_88k in_silico
Organism   Salmonella enterica subsp. enterica serovar Typhimurium strain R18.1932
Sequence Completeness      -
NCBI accession of oriT (coordinates [strand])   NZ_CP100734 (33518..33606 [-], 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_pR18.1932_88k
GGGGTGTCGGGGCGAAGCCCTGACCAGATGGCAATTGTAATAGCGTCGCGTGTGACGGTATTACAATTGCACATCCTGTCCCGTTTTTC

Visualization of oriT structure

  oriT secondary structure

Predicted by RNAfold.

Download structure file


Relaxase

ID   9046 GenBank   WP_010891268
Name   nikB_NL737_RS24405_pR18.1932_88k insolico UniProt ID   A0A632VGA6
Length   899 a.a. PDB ID   
Note   Predicted by oriTfinder 2.0

  Relaxase protein sequence


Download         Length: 899 a.a.        Molecular weight: 103977.42 Da        Isoelectric Point: 7.2753

>WP_010891268.1 MULTISPECIES: IncI1-type relaxase NikB [Enterobacteriaceae]
MNAVIPKKRRDGKSSFEDLVSYVSVRDDMTDEELDLSSSSQAEQPHRSRFSRLVDYATRLRNESFVALVD
VMKDGCEWVNFYGVTCFHNCTSLETAAADMEYIARQAHYAKDDTDPVFHYILSWQSHESPRPEQIYDSVR
HTLKSLGLADHQYVSAVHTDTDNLHVHVAVNRVHPETGYLNRLSWSQEKLSRACRELELKHGFAPDNGCW
VHAPGNRIVRKTAVERDRQNAWTRGKKQTFREYIAQTAVAGLRSEPVHDWLSLHRRLAEDGLYLSQMDGK
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 A0A632VGA6


Auxiliary protein

ID   5269 GenBank   WP_001283947
Name   WP_001283947_pR18.1932_88k 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   10473 GenBank   WP_001289276
Name   trbC_NL737_RS24410_pR18.1932_88k 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: 38984..77283

Locus tag Coordinates Strand Size (bp) Protein ID Product Description
NL737_RS24410 (NL737_24410) 36700..38991 - 2292 WP_001289276 F-type conjugative transfer protein TrbC -
NL737_RS24415 (NL737_24415) 38984..40054 - 1071 WP_000151583 IncI1-type conjugal transfer protein TrbB trbB
NL737_RS24420 (NL737_24420) 40073..41281 - 1209 WP_000121273 IncI1-type conjugal transfer protein TrbA trbA
NL737_RS24425 (NL737_24425) 41573..41725 + 153 WP_001303307 Hok/Gef family protein -
NL737_RS24430 (NL737_24430) 41797..42048 - 252 WP_001291964 hypothetical protein -
NL737_RS24750 42549..42644 + 96 WP_000609148 DinQ-like type I toxin DqlB -
NL737_RS24440 (NL737_24440) 42709..42885 - 177 WP_001054904 hypothetical protein -
NL737_RS24445 (NL737_24445) 43277..43486 + 210 WP_000062603 HEAT repeat domain-containing protein -
NL737_RS24450 (NL737_24450) 43558..44220 - 663 WP_000653334 plasmid IncI1-type surface exclusion protein ExcA -
NL737_RS24455 (NL737_24455) 44285..46447 - 2163 WP_000698351 DotA/TraY family protein traY
NL737_RS24460 (NL737_24460) 46544..47128 - 585 WP_001037987 IncI1-type conjugal transfer protein TraX -
NL737_RS24465 (NL737_24465) 47157..48359 - 1203 WP_001189160 IncI1-type conjugal transfer protein TraW traW
NL737_RS24470 (NL737_24470) 48326..48940 - 615 WP_000337398 IncI1-type conjugal transfer protein TraV traV
NL737_RS24475 (NL737_24475) 48940..51984 - 3045 WP_001024780 IncI1-type conjugal transfer protein TraU traU
NL737_RS24480 (NL737_24480) 52074..52874 - 801 WP_001164788 IncI1-type conjugal transfer protein TraT traT
NL737_RS24485 (NL737_24485) 52858..53046 - 189 WP_001277255 putative conjugal transfer protein TraS -
NL737_RS24490 (NL737_24490) 53110..53514 - 405 WP_000086957 IncI1-type conjugal transfer protein TraR traR
NL737_RS24495 (NL737_24495) 53565..54092 - 528 WP_001055569 conjugal transfer protein TraQ traQ
NL737_RS24500 (NL737_24500) 54092..54796 - 705 WP_000801920 IncI1-type conjugal transfer protein TraP traP
NL737_RS24505 (NL737_24505) 54796..56085 - 1290 WP_001272005 conjugal transfer protein TraO traO
NL737_RS24510 (NL737_24510) 56088..57071 - 984 WP_001191877 IncI1-type conjugal transfer protein TraN traN
NL737_RS24515 (NL737_24515) 57082..57774 - 693 WP_000138548 DotI/IcmL family type IV secretion protein traM
NL737_RS24520 (NL737_24520) 57771..58118 - 348 WP_001055900 conjugal transfer protein traL
NL737_RS24525 (NL737_24525) 58136..61903 - 3768 WP_001141529 LPD7 domain-containing protein -
NL737_RS24530 (NL737_24530) 61993..62544 - 552 WP_000014583 phospholipase D family protein -
NL737_RS24535 (NL737_24535) 62559..62849 - 291 WP_001299214 hypothetical protein traK
NL737_RS24540 (NL737_24540) 62846..63994 - 1149 WP_001024972 plasmid transfer ATPase TraJ virB11
NL737_RS24545 (NL737_24545) 63991..64809 - 819 WP_000646098 IncI1-type conjugal transfer lipoprotein TraI traI
NL737_RS24550 (NL737_24550) 64806..65264 - 459 WP_001079808 IncI1-type conjugal transfer lipoprotein TraH -
NL737_RS24555 (NL737_24555) 65659..66243 - 585 WP_000977522 histidine phosphatase family protein -
NL737_RS24560 (NL737_24560) 66303..67505 - 1203 WP_000976351 conjugal transfer protein TraF -
NL737_RS24565 (NL737_24565) 67590..68414 - 825 WP_001238939 conjugal transfer protein TraE traE
NL737_RS24570 (NL737_24570) 68565..69719 - 1155 WP_001139957 tyrosine-type recombinase/integrase -
NL737_RS24575 (NL737_24575) 69718..70002 + 285 WP_187642572 pilus assembly protein PilV -
NL737_RS24580 (NL737_24580) 71240..71488 + 249 WP_001349157 hypothetical protein -
NL737_RS24585 (NL737_24585) 71485..72777 - 1293 WP_001417545 shufflon system plasmid conjugative transfer pilus tip adhesin PilV -
NL737_RS24590 (NL737_24590) 72777..73433 - 657 WP_254520617 prepilin peptidase -
NL737_RS24595 (NL737_24595) 73418..73978 - 561 WP_000014116 lytic transglycosylase domain-containing protein virB1
NL737_RS24600 (NL737_24600) 73988..74602 - 615 WP_000959785 type 4 pilus major pilin -
NL737_RS24605 (NL737_24605) 74620..75717 - 1098 WP_001208805 type II secretion system F family protein -
NL737_RS24610 (NL737_24610) 75730..77283 - 1554 WP_000362202 GspE/PulE family protein virB11
NL737_RS24615 (NL737_24615) 77294..77746 - 453 WP_001247336 type IV pilus biogenesis protein PilP -
NL737_RS24620 (NL737_24620) 77733..79028 - 1296 WP_000752774 type 4b pilus protein PilO2 -
NL737_RS24625 (NL737_24625) 79021..80703 - 1683 WP_000748143 PilN family type IVB pilus formation outer membrane protein -
NL737_RS24630 (NL737_24630) 80717..81154 - 438 WP_000539807 type IV pilus biogenesis protein PilM -
NL737_RS24635 (NL737_24635) 81154..82221 - 1068 WP_044707330 type IV pilus biogenesis lipoprotein PilL -

Host bacterium

ID   14522 GenBank   NZ_CP100734
Plasmid name   pR18.1932_88k Incompatibility group   IncI1
Plasmid size   87844 bp Coordinate of oriT [Strand]   33518..33606 [-]
Host baterium   Salmonella enterica subsp. enterica serovar Typhimurium strain R18.1932

Cargo genes

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