Detailed information of oriT

oriT

The information of the oriT region


oriTDB ID   105397
Name   oriT_p30168-1 in_silico
Organism   Salmonella enterica subsp. enterica serovar Schwarzengrund strain CVM 30168
Sequence Completeness      -
NCBI accession of oriT (coordinates [strand])   NZ_CP051351 (19270..19356 [+], 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_p30168-1
GGGGTGTCGGGGCGAAGCCCTGACCAGGAGGCAATTGTATAATCGCGCGTGCGCGGTTATACAATTGCACATCCTGTCCCGTTTTTC

Visualization of oriT structure

  oriT secondary structure

Predicted by RNAfold.

Download structure file


Relaxase

ID   3682 GenBank   WP_001354015
Name   nikB_HFT09_RS22445_p30168-1 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   1664 GenBank   WP_001281051
Name   WP_001281051_p30168-1 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   3662 GenBank   WP_001289276
Name   trbC_HFT09_RS22440_p30168-1 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: 1..13891

Locus tag Coordinates Strand Size (bp) Protein ID Product Description
HFT09_RS22375 1..801 + 801 WP_001164788 IncI1-type conjugal transfer protein TraT traT
HFT09_RS22380 (HFT09_22360) 891..3935 + 3045 WP_001024780 IncI1-type conjugal transfer protein TraU traU
HFT09_RS22385 (HFT09_22365) 3935..4549 + 615 WP_000337398 IncI1-type conjugal transfer protein TraV traV
HFT09_RS22390 (HFT09_22370) 4516..5718 + 1203 WP_001189160 IncI1-type conjugal transfer protein TraW traW
HFT09_RS22395 (HFT09_22375) 5747..6331 + 585 WP_001037987 IncI1-type conjugal transfer protein TraX -
HFT09_RS22400 (HFT09_22380) 6428..8590 + 2163 WP_000698351 DotA/TraY family protein traY
HFT09_RS22405 (HFT09_22385) 8655..9317 + 663 WP_000653334 plasmid IncI1-type surface exclusion protein ExcA -
HFT09_RS22410 (HFT09_22390) 9389..9598 - 210 WP_000062603 HEAT repeat domain-containing protein -
HFT09_RS22415 (HFT09_22395) 9990..10166 + 177 WP_001054904 hypothetical protein -
HFT09_RS23385 10231..10326 - 96 WP_000609148 DinQ-like type I toxin DqlB -
HFT09_RS23415 10887..11078 + 192 WP_174715448 hypothetical protein -
HFT09_RS22425 (HFT09_22405) 11150..11302 - 153 WP_001331364 Hok/Gef family protein -
HFT09_RS22430 (HFT09_22410) 11594..12802 + 1209 WP_000121274 IncI1-type conjugal transfer protein TrbA trbA
HFT09_RS22435 (HFT09_22415) 12821..13891 + 1071 WP_000151583 IncI1-type conjugal transfer protein TrbB trbB
HFT09_RS22440 (HFT09_22420) 13884..16175 + 2292 WP_001289276 F-type conjugative transfer protein TrbC -

Region 2: 85540..109707

Locus tag Coordinates Strand Size (bp) Protein ID Product Description
HFT09_RS22805 (HFT09_22790) 80602..81669 + 1068 WP_000742600 type IV pilus biogenesis lipoprotein PilL -
HFT09_RS22810 (HFT09_22795) 81669..82106 + 438 WP_000539807 type IV pilus biogenesis protein PilM -
HFT09_RS22815 (HFT09_22800) 82120..83802 + 1683 WP_000748143 PilN family type IVB pilus formation outer membrane protein -
HFT09_RS22820 (HFT09_22805) 83795..85090 + 1296 WP_000752774 type 4b pilus protein PilO2 -
HFT09_RS22825 (HFT09_22810) 85077..85529 + 453 WP_001247336 type IV pilus biogenesis protein PilP -
HFT09_RS22830 (HFT09_22815) 85540..87093 + 1554 WP_000362202 ATPase, T2SS/T4P/T4SS family virB11
HFT09_RS22835 (HFT09_22820) 87106..88203 + 1098 WP_001208805 type II secretion system F family protein -
HFT09_RS22840 (HFT09_22825) 88221..88835 + 615 WP_000959785 type 4 pilus major pilin -
HFT09_RS22845 (HFT09_22830) 88845..89405 + 561 WP_000014116 lytic transglycosylase domain-containing protein virB1
HFT09_RS22850 (HFT09_22835) 89390..90046 + 657 WP_001193553 prepilin peptidase -
HFT09_RS22855 (HFT09_22840) 90046..91338 + 1293 WP_001417545 shufflon system plasmid conjugative transfer pilus tip adhesin PilV -
HFT09_RS23335 91971..92252 + 282 WP_244666015 hypothetical protein -
HFT09_RS22865 (HFT09_22850) 93098..94252 + 1155 WP_001139957 site-specific integrase -
HFT09_RS22870 (HFT09_22855) 94403..95227 + 825 WP_001238939 conjugal transfer protein TraE traE
HFT09_RS22875 (HFT09_22860) 95312..96514 + 1203 WP_000976351 conjugal transfer protein TraF -
HFT09_RS22880 (HFT09_22865) 96574..97158 + 585 WP_000977522 histidine phosphatase family protein -
HFT09_RS22885 (HFT09_22870) 97553..98011 + 459 WP_001079808 IncI1-type conjugal transfer lipoprotein TraH -
HFT09_RS22890 (HFT09_22875) 98008..98826 + 819 WP_000646098 IncI1-type conjugal transfer lipoprotein TraI traI
HFT09_RS22895 (HFT09_22880) 98823..99971 + 1149 WP_001024972 plasmid transfer ATPase TraJ virB11
HFT09_RS22900 (HFT09_22885) 99968..100258 + 291 WP_001299214 hypothetical protein traK
HFT09_RS22905 (HFT09_22890) 100273..100824 + 552 WP_000014583 phospholipase D family protein -
HFT09_RS22910 (HFT09_22895) 100914..104681 + 3768 WP_001141529 LPD7 domain-containing protein -
HFT09_RS22915 (HFT09_22900) 104699..105046 + 348 WP_001055900 conjugal transfer protein traL
HFT09_RS22920 (HFT09_22905) 105043..105735 + 693 WP_000138548 DotI/IcmL family type IV secretion protein traM
HFT09_RS22925 (HFT09_22910) 105746..106729 + 984 WP_001191877 IncI1-type conjugal transfer protein TraN traN
HFT09_RS22930 (HFT09_22915) 106732..108021 + 1290 WP_001272005 conjugal transfer protein TraO traO
HFT09_RS22935 (HFT09_22920) 108021..108725 + 705 WP_000801920 IncI1-type conjugal transfer protein TraP traP
HFT09_RS22940 (HFT09_22925) 108725..109252 + 528 WP_001055569 conjugal transfer protein TraQ traQ
HFT09_RS22945 (HFT09_22930) 109303..109707 + 405 WP_000086957 IncI1-type conjugal transfer protein TraR traR

Host bacterium

ID   5835 GenBank   NZ_CP051351
Plasmid name   p30168-1 Incompatibility group   IncI1
Plasmid size   109942 bp Coordinate of oriT [Strand]   19270..19356 [+]
Host baterium   Salmonella enterica subsp. enterica serovar Schwarzengrund strain CVM 30168

Cargo genes

Drug resistance gene   ant(3'')-Ia, aac(3)-VIa, qacE, sul1, blaTEM-1A
Virulence gene   htpB
Metal resistance gene   -
Degradation gene   -
Symbiosis gene   -
Anti-CRISPR   -