Detailed information of oriT

oriT

The information of the oriT region


oriTDB ID   113275
Name   oriT_p_0307-213 in_silico
Organism   Salmonella enterica subsp. enterica serovar Newport
Sequence Completeness      -
NCBI accession of oriT (coordinates [strand])   NZ_MW244439 (85858..86112 [+], 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_p_0307-213
GGATTTAGGTTTTTTTTTAATCGCTTCACATTTCGTTAGCATGCGCAGGAATTTTTGATAAAATTCTGGTTAGTTTGGTTAAAAAGTGTTACAAGTAAGCGGTGTGGTTGAAGGGATAGATTTAAGGCTTATTCAAGCCTTAAGAAAATACTAAAAGTTACTTTTCACCCTACCGAACACCTAACAAAAAATCCATGTTGAAGATTTGAACAATTGTAATGGCGCAAGGACAATCAGCACATGTCAGAATCTGAT

Visualization of oriT structure

  oriT secondary structure

Predicted by RNAfold.

Download structure file


Relaxase

ID   8518 GenBank   WP_001011152
Name   mobH_KO196_RS00455_p_0307-213 insolico UniProt ID   A0A077W2P6
Length   1048 a.a. PDB ID   
Note   Predicted by oriTfinder 2.0

  Relaxase protein sequence


Download         Length: 1048 a.a.        Molecular weight: 117805.08 Da        Isoelectric Point: 4.6347

>WP_001011152.1 MULTISPECIES: MobH family relaxase [Enterobacteriaceae]
MNFRALYLCIKRILGIFSSQENDATSVMIEDISSLSPFAQILGDQKYTVPDHPNPEVLKFIEYPTRPTGI
QTFNEQSILSLYREKLHSISMMLAISDSDIRDDAYTFTNLVLKPLVEYVRWIHLLPASENHHHNGIGGLL
SHSLEVAILSLKNAHHSELRPIGYQDEEVVRRKVYLYAAFICGLVHDAGKVYDLDIVSLNLASPIIWTPS
SQSLLDWARENDVVEYEIHWRKRIHNQHNIWSSVFLERILNPVCLAFLDRVNKERVYSKMITALNVYTDG
NDFLSKCVRTADFYSTGTDLNVLRDPIMGLRSNDAAARAISTIKHNFTSININNYNAKPMHIIIVNGEVY
LNENAFLDFVLNDFELHKYNFPQGEAGKTVLVESLVQRGYVEPYDDERVVHYFIPGIYSENEISNIFRNG
IGKLEFYNLLKLRWIGLIFDSYKIPDSVPGLFSVNANKDFIYIDEQKTVTEYRRPVPGRDVITKITDTVE
TAVLKVNDLGRSSASIDVDIHSKKNEGSSDDFEKKAESDNEIDNDTQIVKSEGEEAADPVIPDIEESEDE
SAKDTESHVLVNQLHELLLSAPLSNDYIVCVDAVPYLNIDTTMALLPGLDEKAFSEEPYFQLTFREGSLD
GMWIVRDIDDLRLVQLGDNCAGFQLTYHEPRRPTTLKSLFNTSMYQALVINDESSVENSAPRPKQTLELP
PPRVNAVEEHSGDVEYHGTDSASATGPLKTEAVEYEHYQHLFEKEDEEHEIIDYTDFSQLSVSRPEVGSC
ATSSSVHNEKLLSEPSELPELNREQNADPQGTNERSMDVSVGQENSEPDTEGNCPPPAEVVYSQTEAAAT
SVMASEEPALPPVLEESNGEHAPTDAKGHHLSPALARLFAPTAPVEKQNPKRNRNKSSDKAEVQKPASPV
SGHNLNSKVFASTESDQNGEFSLISEGDVTELEFVEIALVLHQILSKMEVAFKRKRKNRFMVSTPNTLYL
TQSCVEKFGSQLEAQDLFNKLPQYLVNSGAVINTKCHAFNMPTLLAASDRAKVDIERIINNLKEAGNL

  Protein domains


Predicted by InterproScan.

Putative helicase (TraI_2)

(106-302)


  Protein structure


Source ID Structure
AlphaFold DB A0A077W2P6


T4CP

ID   9831 GenBank   WP_001284073
Name   traD_KO196_RS00450_p_0307-213 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: 1368..10575

Locus tag Coordinates Strand Size (bp) Protein ID Product Description
KO196_RS00005 1368..4049 - 2682 WP_000387412 TraC family protein virb4
KO196_RS00010 4058..5008 - 951 WP_001022588 IncHI-type conjugal transfer lipoprotein TrhV traV
KO196_RS00015 5018..5770 - 753 WP_182911723 protein-disulfide isomerase HtdT -
KO196_RS00020 5889..6371 - 483 WP_000377632 hypothetical protein -
KO196_RS00025 6379..7734 - 1356 WP_000351841 IncHI-type conjugal transfer protein TrhB traB
KO196_RS00030 7724..8185 - 462 WP_000521242 plasmid transfer protein HtdO -
KO196_RS00035 8187..9458 - 1272 WP_000592092 type-F conjugative transfer system secretin TraK traK
KO196_RS00040 9458..10246 - 789 WP_000783153 TraE/TraK family type IV conjugative transfer system protein traE
KO196_RS00045 10258..10608 - 351 WP_001447770 type IV conjugative transfer system protein TraL -
KO196_RS00050 10626..10979 - 354 WP_000423602 hypothetical protein -
KO196_RS00055 12128..13003 - 876 WP_000594611 RepB family plasmid replication initiator protein -
KO196_RS00060 13480..14532 + 1053 WP_001065778 hypothetical protein -
KO196_RS00065 14552..14752 + 201 WP_000594930 hypothetical protein -
KO196_RS00070 14749..15465 + 717 WP_000838219 zinc finger-like domain-containing protein -

Host bacterium

ID   13710 GenBank   NZ_MW244439
Plasmid name   p_0307-213 Incompatibility group   IncHI2A
Plasmid size   192620 bp Coordinate of oriT [Strand]   85858..86112 [+]
Host baterium   Salmonella enterica subsp. enterica serovar Newport

Cargo genes

Drug resistance gene   mcr-9, aph(3')-Ia
Virulence gene   -
Metal resistance gene   pcoS, pcoE, ncrC, rcnR/yohL, arsC, arsB, arsR, arsH
Degradation gene   -
Symbiosis gene   -
Anti-CRISPR   -