Detailed information of oriT

oriT

The information of the oriT region


oriTDB ID   107737
Name   oriT_pSC-31-1 in_silico
Organism   Salmonella enterica subsp. enterica serovar Typhimurium var. 5- strain CFSAN067217
Sequence Completeness      -
NCBI accession of oriT (coordinates [strand])   NZ_CP028315 (46935..47023 [-], 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_pSC-31-1
GGGGTGTCGGGGCGAAGCCCTGACCAGATGGTAATTGTAATAGCGTCGCGTGTGACGGTATTACAATTACACATCCTGTCCCGTTTTTC

Visualization of oriT structure

  oriT secondary structure

Predicted by RNAfold.

Download structure file


Relaxase

ID   5196 GenBank   WP_032163764
Name   nikB_C7X12_RS24435_pSC-31-1 insolico UniProt ID   A0A602JPR7
Length   899 a.a. PDB ID   
Note   Predicted by oriTfinder 2.0

  Relaxase protein sequence


Download         Length: 899 a.a.        Molecular weight: 103818.29 Da        Isoelectric Point: 7.3473

>WP_032163764.1 MULTISPECIES: IncI1-type relaxase NikB [Enterobacteriaceae]
MNAVIPKKRRDGKSSFEDLVSYVSVRDDMTDEELNLSSSSQAEQPHRSRFSRLVDYATRLRNESFVALVD
VMKDGCEWVNFYGVTCFHNCTSLETAAADMEYIAQQAHYAKDNTDPVFHYILSWQAHESPRPEQIYDSVR
HTLKSLGLGEHQYVSAVHTDTDNLHVHVAVNRVHPVTGYLNCLSWSQEKLSRACRELELKHGFAPDNGCW
VHAPGNRIVRKTAVERDRQNAWTRGKKQTFREYVAQTAVAGLRSEPVHDWLSLHRRLAEDGLYLSQMDGK
FLVMDGWDRNREGVQLDSFGPSWCAEKLMKKMGDYTPVPKDIFSQVEAPGRYNPDFIAADVRPEKIAETE
SLQQYACRHPGERLPEMAREGRLENCQAIHRTLAEAGLWMRVQHGHLVICDGYDHNQTPVRADSVWSLLT
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 A0A602JPR7


Auxiliary protein

ID   2366 GenBank   WP_001283947
Name   WP_001283947_pSC-31-1 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   5442 GenBank   WP_001289271
Name   trbC_C7X12_RS24440_pSC-31-1 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: 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: 52401..92095

Locus tag Coordinates Strand Size (bp) Protein ID Product Description
C7X12_RS24440 (C7X12_24985) 50117..52408 - 2292 WP_001289271 F-type conjugative transfer protein TrbC -
C7X12_RS24445 (C7X12_24990) 52401..53471 - 1071 WP_000151575 IncI1-type conjugal transfer protein TrbB trbB
C7X12_RS24450 (C7X12_24995) 53490..54698 - 1209 WP_000121273 IncI1-type conjugal transfer protein TrbA trbA
C7X12_RS24455 (C7X12_25000) 54990..55142 + 153 WP_001303307 Hok/Gef family protein -
C7X12_RS24460 (C7X12_25005) 55214..55465 - 252 WP_001291965 hypothetical protein -
C7X12_RS24465 (C7X12_25010) 55826..56608 - 783 WP_001300609 IS21-like element IS100kyp family helper ATPase IstB -
C7X12_RS24470 (C7X12_25015) 56605..57627 - 1023 WP_001572805 IS21-like element IS100 family transposase -
C7X12_RS25885 58348..58524 - 177 WP_001054900 hypothetical protein -
C7X12_RS24485 (C7X12_25030) 58916..59125 + 210 WP_000062603 HEAT repeat domain-containing protein -
C7X12_RS24490 (C7X12_25035) 59197..59859 - 663 WP_000644794 plasmid IncI1-type surface exclusion protein ExcA -
C7X12_RS24495 (C7X12_25040) 59930..62098 - 2169 WP_000698368 DotA/TraY family protein traY
C7X12_RS24500 (C7X12_25045) 62195..62779 - 585 WP_001037998 conjugal transfer protein TraX -
C7X12_RS24505 (C7X12_25050) 62808..64010 - 1203 WP_001189158 IncI1-type conjugal transfer protein TraW traW
C7X12_RS24510 (C7X12_25055) 63977..64591 - 615 WP_000337394 IncI1-type conjugal transfer protein TraV traV
C7X12_RS24515 (C7X12_25060) 64591..67635 - 3045 WP_001024751 IncI1-type conjugal transfer protein TraU traU
C7X12_RS24520 (C7X12_25065) 67725..68525 - 801 WP_001164788 IncI1-type conjugal transfer protein TraT traT
C7X12_RS24525 (C7X12_25070) 68509..68697 - 189 WP_001277255 putative conjugal transfer protein TraS -
C7X12_RS24530 (C7X12_25075) 68761..69165 - 405 WP_000086960 IncI1-type conjugal transfer protein TraR traR
C7X12_RS24535 (C7X12_25080) 69216..69743 - 528 WP_001055569 conjugal transfer protein TraQ traQ
C7X12_RS24540 (C7X12_25085) 69743..70447 - 705 WP_000801920 IncI1-type conjugal transfer protein TraP traP
C7X12_RS24545 (C7X12_25090) 70447..71736 - 1290 WP_001271997 conjugal transfer protein TraO traO
C7X12_RS24550 (C7X12_25095) 71739..72722 - 984 WP_001191878 IncI1-type conjugal transfer protein TraN traN
C7X12_RS24555 (C7X12_25100) 72733..73425 - 693 WP_000138552 DotI/IcmL family type IV secretion protein traM
C7X12_RS24560 (C7X12_25105) 73422..73769 - 348 WP_001055900 conjugal transfer protein traL
C7X12_RS24565 (C7X12_25110) 73787..77554 - 3768 WP_001141535 LPD7 domain-containing protein -
C7X12_RS24570 (C7X12_25115) 77644..78195 - 552 WP_000014584 phospholipase D family protein -
C7X12_RS24575 (C7X12_25120) 78210..78500 - 291 WP_001299214 hypothetical protein traK
C7X12_RS24580 (C7X12_25125) 78497..79645 - 1149 WP_001024972 plasmid transfer ATPase TraJ virB11
C7X12_RS24585 (C7X12_25130) 79642..80460 - 819 WP_000646097 IncI1-type conjugal transfer lipoprotein TraI traI
C7X12_RS24590 (C7X12_25135) 80457..80915 - 459 WP_001079808 IncI1-type conjugal transfer lipoprotein TraH -
C7X12_RS24595 (C7X12_25140) 81310..81894 - 585 WP_000977517 histidine phosphatase family protein -
C7X12_RS24600 (C7X12_25145) 81954..83156 - 1203 WP_000976353 conjugal transfer protein TraF -
C7X12_RS24605 (C7X12_25150) 83242..84066 - 825 WP_001238927 conjugal transfer protein TraE traE
C7X12_RS24610 (C7X12_25155) 84217..85371 - 1155 WP_001139958 site-specific integrase -
C7X12_RS24625 (C7X12_25170) 86301..87589 - 1289 Protein_98 shufflon system plasmid conjugative transfer pilus tip adhesin PilV -
C7X12_RS24630 (C7X12_25175) 87589..88245 - 657 WP_001193553 prepilin peptidase -
C7X12_RS24635 (C7X12_25180) 88230..88790 - 561 WP_000014116 lytic transglycosylase domain-containing protein virB1
C7X12_RS24640 (C7X12_25185) 88800..89414 - 615 WP_000959785 type 4 pilus major pilin -
C7X12_RS24645 (C7X12_25190) 89432..90529 - 1098 WP_001208805 type II secretion system F family protein -
C7X12_RS24650 (C7X12_25195) 90542..92095 - 1554 WP_000362202 ATPase, T2SS/T4P/T4SS family virB11
C7X12_RS24655 (C7X12_25200) 92106..92558 - 453 WP_001247336 type IV pilus biogenesis protein PilP -
C7X12_RS24660 (C7X12_25205) 92545..93840 - 1296 WP_000752774 type 4b pilus protein PilO2 -
C7X12_RS24665 (C7X12_25210) 93833..95515 - 1683 WP_000748143 PilN family type IVB pilus formation outer membrane protein -
C7X12_RS24670 (C7X12_25215) 95529..95966 - 438 WP_000539807 type IV pilus biogenesis protein PilM -
C7X12_RS24675 (C7X12_25220) 95966..97033 - 1068 WP_000742600 type IV pilus biogenesis lipoprotein PilL -

Host bacterium

ID   8172 GenBank   NZ_CP028315
Plasmid name   pSC-31-1 Incompatibility group   IncI1
Plasmid size   98989 bp Coordinate of oriT [Strand]   46935..47023 [-]
Host baterium   Salmonella enterica subsp. enterica serovar Typhimurium var. 5- strain CFSAN067217

Cargo genes

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