Detailed information of oriT

oriT

The information of the oriT region


oriTDB ID   114154
Name   oriT_psg_wt5 in_silico
Organism   Salmonella enterica subsp. enterica serovar Albany strain sg_wt5
Sequence Completeness      -
NCBI accession of oriT (coordinates [strand])   NZ_CP037994 (39084..39172 [+], 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_psg_wt5
GGGGTGTCGGGGCGAAGCCCTGACCAGATGGTAATTGTAATAGCGTCGCGTGTGACGGTATTACAATTACACATCCTGTCCCGTTTTTC

Visualization of oriT structure

  oriT secondary structure

Predicted by RNAfold.

Download structure file


Relaxase

ID   9091 GenBank   WP_071447698
Name   nikB_DBZ76_RS24250_psg_wt5 insolico UniProt ID   A0A1S7B047
Length   899 a.a. PDB ID   
Note   Predicted by oriTfinder 2.0

  Relaxase protein sequence


Download         Length: 899 a.a.        Molecular weight: 103868.35 Da        Isoelectric Point: 7.4198

>WP_071447698.1 MULTISPECIES: IncI1-type relaxase NikB [Enterobacteriaceae]
MNAVIPKKRRDGKSSFEDLVSYVSVRDDMTDEELNLSSSSQAEQPHRSRFSRLVDYATRLRNESFVALVD
VMKDGCEWVNFYGVTCFHNCTSLETAAADMEYIAQQAHYAKDNTDPVFHYILSWQAHESPRPEQIYDSVR
HTLKSLGLGEHQYVSAVHTDTDNLHVHVAVNRVHPVTGYLNCLSWSQEKLSRACRELELKHGFAPDNGCW
VHAPGNRIVRKTAVERDRQNAWTRGKKQTFREYVAQTAVAGLRSEPVNDWLSLHRRLAEDGLYLSQMEGK
FLVMDGWDRNREGVQLDSFGPSWCAEKLMKKMGDYTPVPKDIFSQVEAPGRYNPDFIAADVRPEKIAETE
SLQQYACRHLGERLPEMAREGRLENCQAIHRTLAEAGLWMRVQHGHLVICDGYDHNQTPVRADSVWSLLT
LDNVNQLDGGWQPVPTDIFRQVTPTERFRGRRMESCPATDKEWHRMRTGTGPQGAIKRELFSDKESLWGY
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 A0A1S7B047


Auxiliary protein

ID   5306 GenBank   WP_001283947
Name   WP_001283947_psg_wt5 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   10536 GenBank   WP_001289275
Name   trbC_DBZ76_RS24245_psg_wt5 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: 86957.15 Da        Isoelectric Point: 6.7713

>WP_001289275.1 MULTISPECIES: F-type conjugative transfer protein TrbC [Enterobacteriaceae]
MSEHRVNPELLHRTAWGNPVWNALQSLNIYGFCLVASLVASFIWPLALPACLLFTLITMLVFSLQRWRCP
LRMPMTLECADPSQDRMIKRSLFSFWPTLFQYEVILESPASGIFYVGYQRVRDIGRELWLSMDDLTRHIM
FFATTGGGKTETIFAWAINPLCWARGFTLVDGKAQNDTARTIWYLARRFGREDDVEVINFMNGGKSRSEI
ILSGEKTRPQSNTWNPFCYSTEAFTAETMQSMLPQNVQGGEWQSRAIAMNKALVFGTKFWCVREGKTMSL
QMLREHMTLEGMAKLYCRGLDDQWPEEAIAPLRNYLQDVPGFDLSLVRTPSAWTEEPRKQHAYLSGQFSE
TFSTFTEAFGDIFAEDSGDIDIRDSIHSDRILMVMIPALDTSAHTTSALGRMFITQKSMILARDLGYRLE
GTDSDALEVKKYKGRFPYLCFLDEVGAYYTDRIAVEATQVRSLDFALILMAQDQERIEGQTTATNTATLM
QNTGTKFAGRIVSEGSTARTLKSAAGEEARARMNNLQRQDGIFGESWIDSPQISILMESKINVQELIELH
PGEFFSIFRGETVPSASFFIPDDEKSCSSDPVVINRYISVDAPRLDRLRRLVPRTTQRRIPSPENVSAII
GVLTAKPSRKRRKIRTEPHTIVDTFQQRIAGRQAAMAMLEEYDTDINARESALWETAVNTLKTTTREERR
IRYITLNRPELPETKEENQISVRAERAGINLLTLPQDNNHLTGRPVNGFHHKKTNRPDWDGMY

  Protein domains



No domain identified.


  Protein structure



No available structure.




T4SS

T4SS were predicted by using oriTfinder2.

Region 1: 3146..33706

Locus tag Coordinates Strand Size (bp) Protein ID Product Description
DBZ76_RS24090 (DBZ76_24150) 1841..2995 + 1155 WP_001139955 tyrosine-type recombinase/integrase -
DBZ76_RS24095 (DBZ76_24155) 3146..3970 + 825 WP_015058912 conjugal transfer protein TraE traE
DBZ76_RS24100 (DBZ76_24160) 4056..5258 + 1203 WP_000976357 conjugal transfer protein TraF -
DBZ76_RS24105 (DBZ76_24165) 5318..5902 + 585 WP_000977520 histidine phosphatase family protein -
DBZ76_RS24110 (DBZ76_24170) 6297..6755 + 459 WP_001079808 IncI1-type conjugal transfer lipoprotein TraH -
DBZ76_RS24115 (DBZ76_24175) 6752..7570 + 819 WP_000646097 IncI1-type conjugal transfer lipoprotein TraI traI
DBZ76_RS24120 (DBZ76_24180) 7567..8715 + 1149 WP_001024976 plasmid transfer ATPase TraJ virB11
DBZ76_RS24125 (DBZ76_24185) 8712..9002 + 291 WP_001299214 hypothetical protein traK
DBZ76_RS24130 (DBZ76_24190) 9017..9568 + 552 WP_000014584 phospholipase D family protein -
DBZ76_RS24135 (DBZ76_24195) 9658..13425 + 3768 WP_006855639 LPD7 domain-containing protein -
DBZ76_RS24140 (DBZ76_24200) 13443..13790 + 348 WP_001055900 conjugal transfer protein traL
DBZ76_RS24145 (DBZ76_24205) 13787..14479 + 693 WP_000138552 DotI/IcmL family type IV secretion protein traM
DBZ76_RS24150 (DBZ76_24210) 14490..15473 + 984 WP_130046598 IncI1-type conjugal transfer protein TraN traN
DBZ76_RS24155 (DBZ76_24215) 15476..16765 + 1290 WP_001271994 conjugal transfer protein TraO traO
DBZ76_RS24160 (DBZ76_24220) 16765..17469 + 705 WP_023155244 IncI1-type conjugal transfer protein TraP traP
DBZ76_RS24165 (DBZ76_24225) 17469..17996 + 528 WP_001055569 conjugal transfer protein TraQ traQ
DBZ76_RS24170 (DBZ76_24230) 18047..18451 + 405 WP_000086960 IncI1-type conjugal transfer protein TraR traR
DBZ76_RS24175 (DBZ76_24235) 18515..18703 + 189 WP_001277255 putative conjugal transfer protein TraS -
DBZ76_RS24180 (DBZ76_24240) 18687..19487 + 801 WP_001164792 IncI1-type conjugal transfer protein TraT traT
DBZ76_RS24185 (DBZ76_24245) 19577..22621 + 3045 WP_001024776 IncI1-type conjugal transfer protein TraU traU
DBZ76_RS24190 (DBZ76_24250) 22621..23235 + 615 WP_000337399 IncI1-type conjugal transfer protein TraV traV
DBZ76_RS24195 (DBZ76_24255) 23202..24404 + 1203 WP_001189156 IncI1-type conjugal transfer protein TraW traW
DBZ76_RS24200 (DBZ76_24260) 24433..25017 + 585 WP_001037996 IncI1-type conjugal transfer protein TraX -
DBZ76_RS24205 (DBZ76_24265) 25114..27282 + 2169 WP_077250315 DotA/TraY family protein traY
DBZ76_RS24210 (DBZ76_24270) 27347..28009 + 663 WP_000644792 plasmid IncI1-type surface exclusion protein ExcA -
DBZ76_RS24215 (DBZ76_24275) 28081..28290 - 210 WP_000062602 HEAT repeat domain-containing protein -
DBZ76_RS24735 28622..28798 + 177 WP_001054900 hypothetical protein -
DBZ76_RS25095 28863..28958 - 96 WP_001303310 DinQ-like type I toxin DqlB -
DBZ76_RS24220 (DBZ76_24280) 29457..29708 + 252 WP_001291964 hypothetical protein -
DBZ76_RS24225 (DBZ76_24285) 29780..29932 - 153 WP_001331364 Hok/Gef family protein -
DBZ76_RS24230 (DBZ76_24290) 30205..31191 + 987 WP_001257838 hypothetical protein -
DBZ76_RS24235 (DBZ76_24295) 31409..32617 + 1209 WP_001383960 IncI1-type conjugal transfer protein TrbA trbA
DBZ76_RS24240 (DBZ76_24300) 32636..33706 + 1071 WP_000151583 IncI1-type conjugal transfer protein TrbB trbB
DBZ76_RS24245 (DBZ76_24305) 33699..35990 + 2292 WP_001289275 F-type conjugative transfer protein TrbC -

Host bacterium

ID   14589 GenBank   NZ_CP037994
Plasmid name   psg_wt5 Incompatibility group   IncI1
Plasmid size   84511 bp Coordinate of oriT [Strand]   39084..39172 [+]
Host baterium   Salmonella enterica subsp. enterica serovar Albany strain sg_wt5

Cargo genes

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