Detailed information of oriT

oriT

The information of the oriT region


oriTDB ID   113325
Name   oriT_pIncI1-ST12 in_silico
Organism   Salmonella enterica subsp. enterica serovar Heidelberg isolate FT3-7B
Sequence Completeness      -
NCBI accession of oriT (coordinates [strand])   NZ_CP128262 (43313..43401 [-], 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_pIncI1-ST12
GGGGTGTCGGGGCGAAGCCCTGACCAGATGGTAATTGTAATAGCGTCGCGTGTGACGGTATTACAATTACACATCCTGTCCCGTTTTTC

Visualization of oriT structure

  oriT secondary structure

Predicted by RNAfold.

Download structure file


Relaxase

ID   8546 GenBank   WP_001474686
Name   nikB_QR684_RS23360_pIncI1-ST12 insolico UniProt ID   A0A2J0RB70
Length   899 a.a. PDB ID   
Note   Predicted by oriTfinder 2.0

  Relaxase protein sequence


Download         Length: 899 a.a.        Molecular weight: 103834.33 Da        Isoelectric Point: 7.3473

>WP_001474686.1 MULTISPECIES: IncI1-type relaxase NikB [Enterobacteriaceae]
MNAVIPKKRRDGKSSFEDLVSYVSVRDDMTDEELNLSSSSQAEQPHRSRFSRLVDYATRLRNESFVALVD
VMKDGCEWVNFYGVTCFHNCTSLETAAADMEYIAQQAHYAKDNTDPVFHYILSWQAHESPRPEQIYDSVR
HTLKSLGLGEHQYVSAVHTDTDNLHVHVAVNRVHPVTGYLNCLSWSQEKLSRACRELELKHGFAPDNGCW
VHAPGNRIVRKTAVERDRQNAWTRGKKQTFREYVAQTAVAGLRSEPVHDWLSLHRRLAEDGLYLSQMDGK
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 A0A2J0RB70


Auxiliary protein

ID   4940 GenBank   WP_001283947
Name   WP_001283947_pIncI1-ST12 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   9860 GenBank   WP_001289271
Name   trbC_QR684_RS23365_pIncI1-ST12 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: 86927.12 Da        Isoelectric Point: 6.7713

>WP_001289271.1 MULTISPECIES: F-type conjugative transfer protein TrbC [Enterobacteriaceae]
MSEHRVNPELLHRTAWGNPVWNALQSLNIYGFCLVASLVASFIWPLALPACLLFTLITMLVFSLQRWRCP
LRMPMTLECADPSQDRMIKRSLFSFWPTLFQYEVILESPASGIFYVGYQRVRDIGRELWLSMDDLTRHIM
FFATTGGGKTETIFAWAINPLCWARGFTLVDGKAQNDTARTIWYLARRFGREDDVEVINFMNGGKSRSEI
ILSGEKTRPQSNTWNPFCYSTEAFTAETMQSMLPQNVQGGEWQSRAIAMNKALVFGTKFWCVREGKTMSL
QMLREHMTLEGMAKLYCRGLDDQWPEEAIAPLRNYLQDVPGFDLSLVRTPSAWTEEPRKQHAYLSGQFSE
TFSTFTEAFGDIFAEDSGDIDIRDSIHSDRILMVMIPALDTSAHTTSALGRMFITQKSMILARDLGYRLE
GTDSDALEVKKYKGRFPYLCFLDEVGAYYTDRIAVEATQVRSLDFALILMAQDQERIEGQTTATNTATLM
QNTGTKFAGRIVSEGSTARTLKSAAGEEARARMNNLQRQDGIFGESWIDSPQISILMESKIDVQELIELH
PGEFFSIFRGETVPSASFFIPDNEKSCSSDPVVINRYISVDAPRLDRLRRLVPRTAQRRIPSPENVSAII
GVLTAKPSRKRRKIRTEPHTIVDTFQQRIAGRQAAMAMLEEYDTDINARESALWETAVNTLKTTTREERR
IRYITLNRPELPETKEENQISVRAERAGINLLTLPQDNNHLTGRPVNGFHHKKTNRPDWDGMY

  Protein domains



No domain identified.


  Protein structure



No available structure.




T4SS

T4SS were predicted by using oriTfinder2.

Region 1: 48779..90976

Locus tag Coordinates Strand Size (bp) Protein ID Product Description
QR684_RS23365 (QR684_23365) 46495..48786 - 2292 WP_001289271 F-type conjugative transfer protein TrbC -
QR684_RS23370 (QR684_23370) 48779..49849 - 1071 WP_000151575 IncI1-type conjugal transfer protein TrbB trbB
QR684_RS23375 (QR684_23375) 49868..51076 - 1209 WP_000121273 IncI1-type conjugal transfer protein TrbA trbA
QR684_RS23380 (QR684_23380) 51368..51520 + 153 WP_001303307 Hok/Gef family protein -
QR684_RS23385 (QR684_23385) 51592..51843 - 252 WP_001291965 hypothetical protein -
QR684_RS23390 (QR684_23390) 52204..52986 - 783 WP_001300609 IS21-like element IS100kyp family helper ATPase IstB -
QR684_RS23395 (QR684_23395) 52983..54005 - 1023 WP_001572805 IS21-like element IS100 family transposase -
QR684_RS23400 (QR684_23400) 54726..54902 - 177 WP_001054900 hypothetical protein -
QR684_RS23405 (QR684_23405) 55294..55503 + 210 WP_000062603 HEAT repeat domain-containing protein -
QR684_RS23410 (QR684_23410) 55575..56237 - 663 WP_000644794 plasmid IncI1-type surface exclusion protein ExcA -
QR684_RS23415 (QR684_23415) 56308..58476 - 2169 WP_000698368 DotA/TraY family protein traY
QR684_RS23420 (QR684_23420) 58573..59157 - 585 WP_001037998 conjugal transfer protein TraX -
QR684_RS23425 (QR684_23425) 59186..60388 - 1203 WP_001189158 IncI1-type conjugal transfer protein TraW traW
QR684_RS23430 (QR684_23430) 60355..60969 - 615 WP_000337394 IncI1-type conjugal transfer protein TraV traV
QR684_RS23435 (QR684_23435) 60969..64013 - 3045 WP_046340721 IncI1-type conjugal transfer protein TraU traU
QR684_RS23440 (QR684_23440) 64103..64903 - 801 WP_001164788 IncI1-type conjugal transfer protein TraT traT
QR684_RS23445 (QR684_23445) 64887..65075 - 189 WP_001277255 putative conjugal transfer protein TraS -
QR684_RS23450 (QR684_23450) 65139..65543 - 405 WP_000086960 IncI1-type conjugal transfer protein TraR traR
QR684_RS23455 (QR684_23455) 65594..66121 - 528 WP_001055569 conjugal transfer protein TraQ traQ
QR684_RS23460 (QR684_23460) 66121..66825 - 705 WP_000801920 IncI1-type conjugal transfer protein TraP traP
QR684_RS23465 (QR684_23465) 66825..68114 - 1290 WP_001271997 conjugal transfer protein TraO traO
QR684_RS23470 (QR684_23470) 68117..69100 - 984 WP_001191878 IncI1-type conjugal transfer protein TraN traN
QR684_RS23475 (QR684_23475) 69111..69803 - 693 WP_000138552 DotI/IcmL family type IV secretion protein traM
QR684_RS23480 (QR684_23480) 69800..70147 - 348 WP_001055900 conjugal transfer protein traL
QR684_RS23485 (QR684_23485) 70165..73932 - 3768 WP_001141535 LPD7 domain-containing protein -
QR684_RS23945 74022..74105 - 84 Protein_83 phospholipase D family protein -
QR684_RS23490 (QR684_23490) 74186..74611 + 426 WP_021514830 transposase -
QR684_RS23495 (QR684_23495) 74608..74958 + 351 WP_000624718 IS66 family insertion sequence element accessory protein TnpB -
QR684_RS23500 (QR684_23500) 74989..76581 + 1593 WP_021514829 IS66 family transposase -
QR684_RS23505 (QR684_23505) 76568..77092 - 525 WP_046340722 phospholipase D family protein -
QR684_RS23510 (QR684_23510) 77107..77397 - 291 WP_001299214 hypothetical protein traK
QR684_RS23515 (QR684_23515) 77394..78542 - 1149 WP_001024972 plasmid transfer ATPase TraJ virB11
QR684_RS23520 (QR684_23520) 78539..79357 - 819 WP_000646097 IncI1-type conjugal transfer lipoprotein TraI traI
QR684_RS23525 (QR684_23525) 79354..79812 - 459 WP_001079808 IncI1-type conjugal transfer lipoprotein TraH -
QR684_RS23530 (QR684_23530) 80207..80791 - 585 WP_000977517 histidine phosphatase family protein -
QR684_RS23535 (QR684_23535) 80851..82053 - 1203 WP_000976353 conjugal transfer protein TraF -
QR684_RS23540 (QR684_23540) 82139..82963 - 825 WP_001238927 conjugal transfer protein TraE traE
QR684_RS23545 (QR684_23545) 83114..84268 - 1155 WP_001139958 tyrosine-type recombinase/integrase -
QR684_RS23550 (QR684_23550) 85049..86470 - 1422 WP_289211204 shufflon system plasmid conjugative transfer pilus tip adhesin PilV -
QR684_RS23555 (QR684_23555) 86470..87126 - 657 WP_001193553 prepilin peptidase -
QR684_RS23560 (QR684_23560) 87111..87671 - 561 WP_000014116 lytic transglycosylase domain-containing protein virB1
QR684_RS23565 (QR684_23565) 87681..88295 - 615 WP_000959785 type 4 pilus major pilin -
QR684_RS23570 (QR684_23570) 88313..89410 - 1098 WP_001208805 type II secretion system F family protein -
QR684_RS23575 (QR684_23575) 89423..90976 - 1554 WP_046340687 GspE/PulE family protein virB11
QR684_RS23580 (QR684_23580) 90987..91439 - 453 WP_001247336 type IV pilus biogenesis protein PilP -
QR684_RS23585 (QR684_23585) 91426..92721 - 1296 WP_000752774 type 4b pilus protein PilO2 -
QR684_RS23590 (QR684_23590) 92714..94396 - 1683 WP_000748143 PilN family type IVB pilus formation outer membrane protein -
QR684_RS23595 (QR684_23595) 94410..94847 - 438 WP_000539807 type IV pilus biogenesis protein PilM -
QR684_RS23600 (QR684_23600) 94847..95914 - 1068 WP_000742600 type IV pilus biogenesis lipoprotein PilL -

Host bacterium

ID   13760 GenBank   NZ_CP128262
Plasmid name   pIncI1-ST12 Incompatibility group   IncI1
Plasmid size   101492 bp Coordinate of oriT [Strand]   43313..43401 [-]
Host baterium   Salmonella enterica subsp. enterica serovar Heidelberg isolate FT3-7B

Cargo genes

Drug resistance gene   blaCMY-2
Virulence gene   -
Metal resistance gene   -
Degradation gene   -
Symbiosis gene   -
Anti-CRISPR   -