Detailed information of oriT

oriT

The information of the oriT region


oriTDB ID   105745
Name   oriT_p75-02_3 in_silico
Organism   Shigella sonnei strain 75/02
Sequence Completeness      -
NCBI accession of oriT (coordinates [strand])   NZ_CP019691 (38071..38159 [+], 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_p75-02_3
GGGGTGTCGGGGCGAAGCCCTGACCAGATGGTAATTGTAATAGCGTCGCGTGTGACGGTATTACAATTACACATCCTGTCCCGTTTTTC

Visualization of oriT structure

  oriT secondary structure

Predicted by RNAfold.

Download structure file


Relaxase

ID   3891 GenBank   WP_024236743
Name   nikB_BZ172_RS27550_p75-02_3 insolico UniProt ID   _
Length   898 a.a. PDB ID   
Note   Predicted by oriTfinder 2.0

  Relaxase protein sequence


Download         Length: 898 a.a.        Molecular weight: 103815.28 Da        Isoelectric Point: 7.5153

>WP_024236743.1 MULTISPECIES: IncI1-type relaxase NikB [Enterobacteriaceae]
MNAVIPKKRRDGKSSFEDLVSYVSVRDDMTDEELNLSSSQAEQPHRSRFSRLVDYATRLRNESFVALVDV
MKDGCEWVNFYGVTCFHNCTSLETAAADMEYIAQQAHYAKDNTDPVFHYILSWQAHESPRPEQIYDSVRH
TLKSLGLGEHQYVSAVHTDTDNLHVHVAVNRVHPVTGYLNCLSWSQEKLSRACRELELKHGFAPDNGCWV
HAPGNRIVRKTAVERDRQNAWTRGKKQTFREYVAQTAVAGLRSEPVHDWLSLHRRLAEDGLYLSQKDGKF
LVMDGWDRNREGVQLDSFGPSWCAEKLMKKMGDYTPVPKDIFSQVEAPGRYNPDFIAADVRPEKIAETES
LQQYACRHLGERLPEMAREGRLENCQAIHRTLAEAGLWMRVQHGHLVICDGYDHNQTPVRADSVWSLLTL
DNVNQLDGGWQPVPTDIFRQVTPTERFRGRRMESCPATDKEWHRMRTGTGPQGAIKRELFSDKESLWGYS
ISHCSPQIEEMITQGEFTWQRCHELFAQQGLMLQKQHHGLVVVDAFNHEQTPVKASSIHPDLTLGRAEPQ
AGPFVSAPADLFDRVQPESRYNPELAVSDRYGVSSKRDPMLRRQRREARAEARADLRARYLAWREQWRKP
DLRYGERCREIHQACRLRKSHIRAQYDDPALRKLHYHIAEVQRMQALIRLKEDIRDERQKLIADGKWYPP
SYRQWVEIQAAQGDRAAVSQLRGWDYRDRRKDRSRTTTTDRCVVLCEPGGTPVYGNTGDLEARLQKNGSV
RFRDRRTGEFVCTDYGDRVVFRNHHDRNALADKLDLIAPVLFGRDPRMGFEPEGNDKQFNQVFAEMVAWH
NVTGRTGHEDYRITRPDVDHHREGSERYYRDYIAANSNDDASLPPPEQDKRWEPPSPG

  Protein domains


Predicted by InterproScan.

Relaxase/Mobilisation nuclease domain (Relaxase)

(61-313)


  Protein structure



No available structure.




Auxiliary protein

ID   1756 GenBank   WP_001283947
Name   WP_001283947_p75-02_3 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   3905 GenBank   WP_011264051
Name   trbC_BZ172_RS27545_p75-02_3 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: 86954.10 Da        Isoelectric Point: 6.7713

>WP_011264051.1 MULTISPECIES: F-type conjugative transfer protein TrbC [Enterobacteriaceae]
MSEHRVNPELLHRTAWGNPVWNALQSLNIYGFCLVASLVASFIWPLALPACLLFTLITMLVFSLQRWRCP
LRMPMTLECADPSQDRMIKRSLFSFWPTLFQYEVILESPASGIFYVGYQRVRDIGRELWLSMDDLTRHIM
FFATTGGGKTETIFAWAINPLCWARGFTLVDGKAQNDTARTIWYLARRFGREDDVEVINFMNGGKSRSEI
ILSGEKTRPQSNTWNPFCYSTEAFTAETMQSMLPQNVQGGEWQSRAIAMNKALVFGTKFWCVREGKTMSL
QMLREHMTLEGMAKLYCRGLDDQWPEEAIAPLRNYLQDVPGFDLSLVRTPSAWTEEPRKQHAYLSGQFSE
TFSTFTEAFGDIFAEDSGDIDIRDSIHSDRILMVMIPALDTSAHTTSALGRMFITQKSMILARDLGYRLE
GTDSDALEVKKYKGRFPYLCFLDEVGAYYTDRIAVEATQVRSLDFALILMAQDQERIEGQTTATNTATLM
QNTGTKFAGRIVSEGSTARTLKSAAGEEARARMNNLQRQDGIFGESWIDSPQISILMESKINVQELIELH
PGEFFSIFRGETVPSASFFIPDDEKSCSSDPVVINRYISVDAPRLDRLRRLVPRTTQRRIPSPENVSAII
GVLTAKPSRKRRKIRTEPHTIVDTFQQRIAGRQAAMAMLEEYDTDINARESALWETAVNTLKTTTREERR
IRYITLNRPELPETKEENQISVRAERAGINLLTLPQDNNHPTGRPVNGFHHKKNNRPDWDGMY

  Protein domains



No domain identified.


  Protein structure



No available structure.




T4SS

T4SS were predicted by using oriTfinder2.

Region 1: 3263..32696

Locus tag Coordinates Strand Size (bp) Protein ID Product Description
BZ172_RS27370 (BZ172_29165) 224..661 - 438 Protein_1 Rpn family recombination-promoting nuclease/putative transposase -
BZ172_RS27390 (BZ172_29190) 1958..3112 + 1155 WP_001139957 site-specific integrase -
BZ172_RS27395 (BZ172_29195) 3263..4087 + 825 WP_001238939 conjugal transfer protein TraE traE
BZ172_RS27400 (BZ172_29200) 4172..5374 + 1203 WP_000976351 conjugal transfer protein TraF -
BZ172_RS27405 (BZ172_29205) 5434..6018 + 585 WP_000977522 histidine phosphatase family protein -
BZ172_RS27410 (BZ172_29210) 6413..6871 + 459 WP_001079808 IncI1-type conjugal transfer lipoprotein TraH -
BZ172_RS27415 (BZ172_29215) 6868..7686 + 819 WP_000646098 IncI1-type conjugal transfer lipoprotein TraI traI
BZ172_RS27420 (BZ172_29220) 7683..8831 + 1149 WP_001024972 plasmid transfer ATPase TraJ virB11
BZ172_RS27425 (BZ172_29225) 8828..9118 + 291 WP_001299214 hypothetical protein traK
BZ172_RS27430 (BZ172_29230) 9133..9684 + 552 WP_000014583 phospholipase D family protein -
BZ172_RS27435 (BZ172_29235) 9774..13541 + 3768 WP_024236739 LPD7 domain-containing protein -
BZ172_RS27440 (BZ172_29240) 13559..13906 + 348 WP_001055900 conjugal transfer protein traL
BZ172_RS27445 (BZ172_29245) 13903..14595 + 693 WP_000138550 DotI/IcmL family type IV secretion protein traM
BZ172_RS27450 (BZ172_29250) 14606..15589 + 984 WP_001191877 IncI1-type conjugal transfer protein TraN traN
BZ172_RS27455 (BZ172_29255) 15592..16881 + 1290 WP_001272003 conjugal transfer protein TraO traO
BZ172_RS27460 (BZ172_29260) 16881..17585 + 705 WP_000801920 IncI1-type conjugal transfer protein TraP traP
BZ172_RS27465 (BZ172_29265) 17585..18112 + 528 WP_001055569 conjugal transfer protein TraQ traQ
BZ172_RS27470 (BZ172_29270) 18163..18567 + 405 WP_024236740 IncI1-type conjugal transfer protein TraR traR
BZ172_RS27475 (BZ172_29275) 18631..18819 + 189 WP_001277255 putative conjugal transfer protein TraS -
BZ172_RS27480 (BZ172_29280) 18803..19603 + 801 WP_001164788 IncI1-type conjugal transfer protein TraT traT
BZ172_RS27485 (BZ172_29285) 19693..22737 + 3045 WP_094112570 IncI1-type conjugal transfer protein TraU traU
BZ172_RS27490 (BZ172_29290) 22737..23351 + 615 WP_000337398 IncI1-type conjugal transfer protein TraV traV
BZ172_RS27495 (BZ172_29295) 23318..24520 + 1203 WP_001189160 IncI1-type conjugal transfer protein TraW traW
BZ172_RS27500 (BZ172_29300) 24549..25133 + 585 WP_001037987 IncI1-type conjugal transfer protein TraX -
BZ172_RS27505 (BZ172_29305) 25230..27398 + 2169 WP_000698357 DotA/TraY family protein traY
BZ172_RS27510 (BZ172_29310) 27472..28122 + 651 WP_001178506 plasmid IncI1-type surface exclusion protein ExcA -
BZ172_RS27515 (BZ172_29315) 28194..28403 - 210 WP_000062603 HEAT repeat domain-containing protein -
BZ172_RS30175 (BZ172_29325) 28795..28971 + 177 WP_001054897 hypothetical protein -
BZ172_RS30400 29036..29131 - 96 WP_000609148 DinQ-like type I toxin DqlB -
BZ172_RS27525 (BZ172_29335) 29632..29883 + 252 WP_024236741 hypothetical protein -
BZ172_RS27530 (BZ172_29340) 29955..30107 - 153 WP_001387489 Hok/Gef family protein -
BZ172_RS27535 (BZ172_29345) 30399..31607 + 1209 WP_000121273 IncI1-type conjugal transfer protein TrbA trbA
BZ172_RS27540 (BZ172_29350) 31626..32696 + 1071 WP_024236742 IncI1-type conjugal transfer protein TrbB trbB
BZ172_RS27545 (BZ172_29355) 32689..34980 + 2292 WP_011264051 F-type conjugative transfer protein TrbC -

Host bacterium

ID   6182 GenBank   NZ_CP019691
Plasmid name   p75-02_3 Incompatibility group   -
Plasmid size   40443 bp Coordinate of oriT [Strand]   38071..38159 [+]
Host baterium   Shigella sonnei strain 75/02

Cargo genes

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