Detailed information of oriT

oriT

The information of the oriT region


oriTDB ID   101505
Name   oriT_pN1566-2 in_silico
Organism   Salmonella enterica subsp. enterica serovar Typhimurium strain 42
Sequence Completeness      -
NCBI accession of oriT (coordinates [strand])   NZ_JABBJM010000183 (170350..170604 [-], 255 nt)
oriT length   255 nt
IRs (inverted repeats)      153..158, 160..165  (AAAAGT..ACTTTT)
 122..130, 135..143  (TTAAGGCTT..AAGCCTTAA)
 49..55, 60..66  (GAATTTT..AAAATTC)
Location of nic site      78..79
Conserved sequence flanking the
  nic site    		  TTTGGTTAAA
Note   Predicted by oriTfinder 2.0

  oriT sequence  


Download         Length: 255 nt

>oriT_pN1566-2
GGATTTAGGTTTTTTTTTAATCGCTTCACATTTCGTTAGCATGCGCAGGAATTTTTGATAAAATTCTGGTTAGTTTGGTTAAAAAGTGTTACAAGTAAGCGGTGTGGTTGAAGGGATAGATTTAAGGCTTATTCAAGCCTTAAGAAAATACTAAAAGTTACTTTTCACCCTACCGAACACCTAACAAAAAATCCATGTTGAAGATTTGAACAATTGTAATGGCGCAAGGACAATCAGCACATGTCAGAATCTGAT

Visualization of oriT structure

  oriT secondary structure

Predicted by RNAfold.

Download structure file


Relaxase

ID   1342 GenBank   WP_179764680
Name   mobH_HII18_RS26190_pN1566-2 insolico UniProt ID   _
Length   1048 a.a. PDB ID   
Note   Predicted by oriTfinder 2.0

  Relaxase protein sequence


Download         Length: 1048 a.a.        Molecular weight: 117773.17 Da        Isoelectric Point: 4.6658

>WP_179764680.1 MobH family relaxase [Salmonella enterica]
MNFRALYLCIKRILGIFSSQENDATSVMIEDISSLSPFAQILGDQKYTVPDHPNPEVLKFIEYPTRPTGI
QTFNEQSILSLYREKLHSISMMLAISDSDIRDDAYTFTNLVLKPLVEYVRWIHLLPASENHHHNGIGGLL
SHSLEVAILSLKNAHHSELRPIGYQDEEVVRRKVYLYAAFICGLVHDAGKVYDLDIVSLNLASPIIWTPS
SQSLLDWARENDVVEYEIHWRKRIHNQHNIWSSVFLERILNPVCLAFLDRVNKERVYSKMITALNVYTDG
NDFLSKCVRTADFYSTGTDLNVLRDPIMGLRSNDAAARAISTIKHNFTSININNYNAKPMHIIIVNGEVY
LNENAFLDFVLNDFELHKYNFPQGEAGKTVLVESLVQRGYVEPYDDERVVHYFIPGIYSENEISNIFRNG
IGKLEFYNLLKLRWIGLIFDSYKIPDSVPGLFSVNANKDFIYIDEQKTVTEYRRPVPGRDVITKITDTVE
TAVLKVNDLGRSSASIDVDIHSKKNEGSSDDFEKKAESDNEIDNDTQIVKSEGEEAADPVIPDIEESEDE
SAKDTESHVLVNQLHELLLSAPLSNDYIVCVDAVPYLNIDATMALLPGLDEKAFSEEPYFQLTFREGSLD
GMWIVRDIDDLRLVQLGDNCAGFQLTYHEPRRPTTLKSLFNTSMYQALVINDESSVENSAPRPKQTLELP
PPRVNAVEEHSGDVEYHGTDSASATGPLKTEAVEYEHYQHLFEKEDEEHEIIDYTDFSQLSVSRPEVGSC
ATSSSVHNEKLLSEPSELPKLNREQNADPQGTIERSMDVSVGQENSEPDTEGNCPPPAEVVYSQTEAAAT
SVMASEEPALPPVLEESNGEHAPTDAKGHHLSPALARLFAPTAPVEKQNPKRNRNKSSDKAEVQKPASPV
SGHNLNSKVFASTESDQNGEFSLISEGDVTELEFVEIALVLHQILSKMEVAFKRKRKNRFMVSTPNTLYL
TQSCVEKFGSQLEAQDLFNKLPQYLVNSGAVINTKCHAFNMPTLLAASDRAKVDIERIINNLKEAGNL

  Protein domains


Predicted by InterproScan.

Putative helicase (TraI_2)

(106-302)


  Protein structure



No available structure.




T4CP

ID   971 GenBank   WP_001284073
Name   traD_HII18_RS26195_pN1566-2 insolico UniProt ID   _
Length   694 a.a. PDB ID   _
Note   Predicted by oriTfinder 2.0

  T4CP protein sequence


Download         Length: 694 a.a.        Molecular weight: 78123.91 Da        Isoelectric Point: 8.0177

>WP_001284073.1 MULTISPECIES: conjugative transfer system coupling protein TraD [Enterobacterales]
MSDSKRTNLHAQENFYRPILEYRSASILLICSVSMLYMGLSSDGLDIAPIVLFTSILLFLLCLYRCKTAA
PFLMAHWRVFKRHFMFVSLDSLRVINKSNFFSNERKYRQLVQDYQNKNKDIPERKSYFCDGFEWGPEHAD
RAYQIANLSSDKREIELPFVFNPIKRHFDAMARKMGGSNAIFAVERREPIFVTEDNWFGHTLITGNVGTG
KTVLQRLLSISMLHLGHVVVVIDPKNDAEWRESLMEEAKTLGLPFYKFHPGQPASSVCIDVCNTYTNVSD
LTSRLLSLVTVPGEVNPFVQYAKALVSNVISGLSYIEKKPSIYLIHKNMKSHMSIVNLTVKVMESCYARY
YGYDVWTEKVKYVANDTLPVRFKRLAEWFTAHFMNYEGSEQIDWLDTVSQLIDYSMSDPEHMAKMTAGIM
PVFDMLIEKPLNELLSPNPNSVSSREIVTSEGMFSTGGVLYISLDGLSNPDTAAAISQLIMSDLTSCAGS
RYNAQDGDMSANSRISIFVDEAHSAINNPMINLLAQGRAAKIALFICTQTISDFIAAASVETANRITGLC
NNYISLRVNDTPTQTLVVENFGKSAISTNMVTYTTGSETSLPHNNFSGSISERKQTTLEESIPKDLLGQV
PMFHIVARLQDGRKVVGQIPIAVAEKQMKPNTTLSEMLFKKAGKVTLRQNLDIKNLNKFLRKLH

  Protein domains


Predicted by InterproScan.

Type IV secretion-system coupling protein DNA-binding domain (TrwB_AAD_bind)

(406-609)

AAA-like domain (AAA_10)

(199-249)

  Protein structure



No available structure.




T4SS

T4SS were predicted by using oriTfinder2.

Region 1: 245569..254776

Locus tag Coordinates Strand Size (bp) Protein ID Product Description
HII18_RS26575 (HII18_26570) 240679..241395 - 717 WP_047745022 zinc finger-like domain-containing protein -
HII18_RS26580 (HII18_26575) 241392..241592 - 201 WP_000594930 hypothetical protein -
HII18_RS26585 (HII18_26580) 241612..242664 - 1053 WP_179764675 hypothetical protein -
HII18_RS26590 (HII18_26585) 243141..244016 + 876 WP_000594611 RepB family plasmid replication initiator protein -
HII18_RS26595 (HII18_26590) 245165..245518 + 354 WP_000423602 hypothetical protein -
HII18_RS26600 (HII18_26595) 245569..245886 + 318 WP_000043359 type IV conjugative transfer system protein TraL traL
HII18_RS26605 (HII18_26600) 245898..246686 + 789 WP_000783153 TraE/TraK family type IV conjugative transfer system protein traE
HII18_RS26610 (HII18_26605) 246686..247957 + 1272 WP_000592092 type-F conjugative transfer system secretin TraK traK
HII18_RS26615 (HII18_26610) 247959..248420 + 462 WP_000521241 plasmid transfer protein HtdO -
HII18_RS26620 (HII18_26615) 248410..249765 + 1356 WP_000351841 IncHI-type conjugal transfer protein TrhB traB
HII18_RS26625 (HII18_26620) 249773..250255 + 483 WP_040038370 hypothetical protein -
HII18_RS26630 (HII18_26625) 250374..251126 + 753 WP_182911723 protein-disulfide isomerase HtdT -
HII18_RS26635 (HII18_26630) 251136..252086 + 951 WP_001022588 IncHI-type conjugal transfer lipoprotein TrhV traV
HII18_RS26640 (HII18_26635) 252095..254776 + 2682 WP_179764681 TraC family protein virb4
HII18_RS26645 (HII18_26640) 257077..257238 + 162 WP_170989087 hypothetical protein -
HII18_RS26650 (HII18_26645) 258367..259620 + 1254 WP_001050364 ParA family protein -

Host bacterium

ID   1949 GenBank   NZ_JABBJM010000183
Plasmid name   pN1566-2 Incompatibility group   IncHI2
Plasmid size   265560 bp Coordinate of oriT [Strand]   170350..170604 [-]
Host baterium   Salmonella enterica subsp. enterica serovar Typhimurium strain 42

Cargo genes

Drug resistance gene   sul1, qacE, ant(3'')-Ia, tet(C), mcr-9
Virulence gene   flhD, fliA
Metal resistance gene   terW, terZ, terA, terB, terC, terD, terE, merR, merT, merP, merA, merD, merE, rcnR/yohL, pcoE, pcoS
Degradation gene   -
Symbiosis gene   -
Anti-CRISPR   -