Detailed information of oriT

oriT

The information of the oriT region


oriTDB ID   101301
Name   oriT_97|unnamed1 in_silico
Organism   Salmonella enterica subsp. enterica serovar Typhimurium strain 97
Sequence Completeness      -
NCBI accession of oriT (coordinates [strand])   NZ_JAJGZE010000016 (74827..74915 [+], 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_97|unnamed1
GGGGTGTCGGGGCGAAGCCCTGACCAGATGGTAATTGTAATAGCGTCGCGTGTGACGGTATTACAATTACACATCCTGTCCCGTTTTTC

Visualization of oriT structure

  oriT secondary structure

Predicted by RNAfold.

Download structure file


Relaxase

ID   1239 GenBank   WP_117248730
Name   nikB_LMH62_RS17060_97|unnamed1 insolico UniProt ID   _
Length   899 a.a. PDB ID   
Note   Predicted by oriTfinder 2.0

  Relaxase protein sequence


Download         Length: 899 a.a.        Molecular weight: 103941.36 Da        Isoelectric Point: 7.2602

>WP_117248730.1 MULTISPECIES: IncI1-type relaxase NikB [Enterobacteriaceae]
MNAVIPKKRRDGKSSFEDLVSYVSVRDDMTDEELDLSSSSQAEQPHRSRFSRLVDYATRLRNESFVALVD
VMKDGCEWVNFYGVTCFHNCTSLETAAADMEYIAQQAHYAKDNTDPVFHYILSWQAHESPRPEQIYDSVR
HTLKSLGLGEHQYVSAVHTDTDNLHVHVAVNRVHPVTGYLNCLSWSQEKLSRACRELELKHGFAPDNGCW
VHAPGNRIVRKTAVERDRQNAWTRGKKQTFREYVAQTAVAGLRSEPVNDWLSLHRRLAEDGLYLSQMDGK
FLVMDGWDRNREGVQLDSFGPSWCAEKLMKKMDDYTPVPKDIFSQVEAPGRYNPDFIAADVRPEKIAETE
SLQQYACRHLGERLPEMAREGRLENCQAIHRTLAEAGLWMRVQHGHLVICDGYDHNQTPVRADSVWSLLT
LDNVNQLDGGWQPVPTDIFRQVTPTERFRGRRMESCPATDKEWHRMRTGTGPQGAIKRELFSDKESLWGY
SISHCSPQIEEMITQGEFTWQRCHELFAQQGLMLQKQHHGLVVVDAFNHEQTPVKASSIHPDLTLGRAEP
QAGPFVSAPADLFDRVQPESRYNPELAVSDRYGVSSKRDPMLRRQRREARAEARADLRARYLAWREQWRK
PDLRYGERCREIHQACRLRKSHIRAQYDDPALRKLHYHIAEVQRMQALIRLKEDIRDERQKLIADGKWYP
PSYRQWVEIQAAQGDRAAVSQLRGWDYRDRRKDRSRTTTTDRCVVLCEPGGTPVYGNTGDLEARLQKNGS
VRFRDRRTGEFVCTDYGDRVVFRNHHDRNALADKLDLIAPVLFGRDPRMGFEPEGNDKQFNQVFAEMVAW
HNVTGRTGHEDYRITRPDVDHHREGSERYYRDYIAANSNDDASLPPPEQDKRWEPPSPG

  Protein domains


Predicted by InterproScan.

Relaxase/Mobilisation nuclease domain (Relaxase)

(62-314)


  Protein structure



No available structure.




Auxiliary protein

ID   433 GenBank   WP_001283947
Name   WP_001283947_97|unnamed1 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   849 GenBank   WP_001289276
Name   trbC_LMH62_RS17055_97|unnamed1 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: 27113..69449

Locus tag Coordinates Strand Size (bp) Protein ID Product Description
LMH62_RS16820 (LMH62_16830) 22175..23242 + 1068 WP_001302629 type IV pilus biogenesis lipoprotein PilL -
LMH62_RS16825 (LMH62_16835) 23242..23679 + 438 WP_000539807 type IV pilus biogenesis protein PilM -
LMH62_RS16830 (LMH62_16840) 23693..25375 + 1683 WP_000748143 PilN family type IVB pilus formation outer membrane protein -
LMH62_RS16835 (LMH62_16845) 25368..26663 + 1296 WP_000752772 type 4b pilus protein PilO2 -
LMH62_RS16840 (LMH62_16850) 26650..27102 + 453 WP_001247334 type IV pilus biogenesis protein PilP -
LMH62_RS16845 (LMH62_16855) 27113..28666 + 1554 WP_001579763 ATPase, T2SS/T4P/T4SS family virB11
LMH62_RS16850 (LMH62_16860) 28679..29776 + 1098 WP_001208805 type II secretion system F family protein -
LMH62_RS16855 (LMH62_16865) 29794..30408 + 615 WP_000959786 type 4 pilus major pilin -
LMH62_RS16860 (LMH62_16870) 30418..30978 + 561 WP_000014116 lytic transglycosylase domain-containing protein virB1
LMH62_RS16865 (LMH62_16875) 30963..31619 + 657 WP_001193553 prepilin peptidase -
LMH62_RS16870 (LMH62_16880) 31619..32911 + 1293 WP_001417545 shufflon system plasmid conjugative transfer pilus tip adhesin PilV -
LMH62_RS25700 34065..34220 - 156 WP_001302705 hypothetical protein -
LMH62_RS16875 (LMH62_16885) 34329..34754 + 426 WP_000422741 transposase -
LMH62_RS16880 (LMH62_16890) 34751..35101 + 351 WP_000624722 IS66 family insertion sequence element accessory protein TnpB -
LMH62_RS16885 (LMH62_16895) 35132..36745 + 1614 WP_000080200 IS66-like element ISEc23 family transposase -
LMH62_RS16890 (LMH62_16900) 36865..37218 - 354 WP_001393368 hypothetical protein -
LMH62_RS16895 (LMH62_16905) 37217..38371 + 1155 WP_001139958 site-specific integrase -
LMH62_RS16900 (LMH62_16910) 38522..39346 + 825 WP_001238929 conjugal transfer protein TraE traE
LMH62_RS16905 (LMH62_16915) 39432..40634 + 1203 WP_000976353 conjugal transfer protein TraF -
LMH62_RS16910 (LMH62_16920) 40694..41278 + 585 WP_001579766 histidine phosphatase family protein -
LMH62_RS16915 (LMH62_16925) 41673..42131 + 459 WP_001079808 IncI1-type conjugal transfer lipoprotein TraH -
LMH62_RS16920 (LMH62_16930) 42128..42946 + 819 WP_000646097 IncI1-type conjugal transfer lipoprotein TraI traI
LMH62_RS16925 (LMH62_16935) 42943..44091 + 1149 WP_001024972 plasmid transfer ATPase TraJ virB11
LMH62_RS16930 (LMH62_16940) 44088..44378 + 291 WP_001372180 hypothetical protein traK
LMH62_RS16935 (LMH62_16945) 44393..44944 + 552 WP_000014584 phospholipase D family protein -
LMH62_RS16940 (LMH62_16950) 45034..48801 + 3768 WP_001579768 LPD7 domain-containing protein -
LMH62_RS16945 (LMH62_16955) 48819..49166 + 348 WP_001055900 conjugal transfer protein traL
LMH62_RS16950 (LMH62_16960) 49163..49855 + 693 WP_000138552 DotI/IcmL family type IV secretion protein traM
LMH62_RS16955 (LMH62_16965) 49866..50849 + 984 WP_001579769 IncI1-type conjugal transfer protein TraN traN
LMH62_RS16960 (LMH62_16970) 50852..52141 + 1290 WP_001271997 conjugal transfer protein TraO traO
LMH62_RS16965 (LMH62_16975) 52141..52845 + 705 WP_000801920 IncI1-type conjugal transfer protein TraP traP
LMH62_RS16970 (LMH62_16980) 52845..53372 + 528 WP_001055569 conjugal transfer protein TraQ traQ
LMH62_RS16975 (LMH62_16985) 53423..53827 + 405 WP_001579770 DUF6750 family protein traR
LMH62_RS16980 (LMH62_16990) 53891..54079 + 189 WP_001277255 putative conjugal transfer protein TraS -
LMH62_RS16985 (LMH62_16995) 54063..54863 + 801 WP_001164788 IncI1-type conjugal transfer protein TraT traT
LMH62_RS16990 (LMH62_17000) 54953..57997 + 3045 WP_001024752 IncI1-type conjugal transfer protein TraU traU
LMH62_RS16995 (LMH62_17005) 57997..58611 + 615 WP_000337394 IncI1-type conjugal transfer protein TraV traV
LMH62_RS17000 (LMH62_17010) 58578..59780 + 1203 WP_001579773 IncI1-type conjugal transfer protein TraW traW
LMH62_RS17005 (LMH62_17015) 59809..60393 + 585 WP_001579774 IncI1-type conjugal transfer protein TraX -
LMH62_RS17010 (LMH62_17020) 60490..62658 + 2169 WP_000698360 IncI1-type conjugal transfer membrane protein TraY traY
LMH62_RS17015 (LMH62_17025) 62734..63348 + 615 WP_000578649 plasmid IncI1-type surface exclusion protein ExcA -
LMH62_RS17020 (LMH62_17030) 63446..63655 + 210 WP_001140545 hemolysin expression modulator Hha -
LMH62_RS17025 (LMH62_17035) 63864..64040 + 177 WP_001054900 hypothetical protein -
LMH62_RS17030 (LMH62_17040) 64964..65215 + 252 WP_001291968 hypothetical protein -
LMH62_RS17035 (LMH62_17045) 65287..65439 - 153 WP_001303307 Hok/Gef family protein -
LMH62_RS17040 (LMH62_17050) 66066..66845 + 780 WP_275450201 protein FinQ -
LMH62_RS17045 (LMH62_17055) 67152..68360 + 1209 WP_000121273 IncI1-type conjugal transfer protein TrbA trbA
LMH62_RS17050 (LMH62_17060) 68379..69449 + 1071 WP_000151582 IncI1-type conjugal transfer protein TrbB trbB
LMH62_RS17055 (LMH62_17065) 69442..71733 + 2292 WP_001289276 F-type conjugative transfer protein TrbC -

Host bacterium

ID   1745 GenBank   NZ_JAJGZE010000016
Plasmid name   97|unnamed1 Incompatibility group   IncI1
Plasmid size   100331 bp Coordinate of oriT [Strand]   74827..74915 [+]
Host baterium   Salmonella enterica subsp. enterica serovar Typhimurium strain 97

Cargo genes

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