Detailed information of oriT

oriT

The information of the oriT region


oriTDB ID   107512
Name   oriT_pPJ-T17-213kb in_silico
Organism   Salmonella sp. strain PJM1
Sequence Completeness      -
NCBI accession of oriT (coordinates [strand])   NZ_OL598602 (30346..30599 [-], 254 nt)
oriT length   254 nt
IRs (inverted repeats)      152..157, 159..164  (AAAAGT..ACTTTT)
 121..129, 134..142  (TTAAGGCTT..AAGCCTTAA)
 50..55, 59..64  (AATTTT..AAAATT)
Location of nic site      77..78
Conserved sequence flanking the
  nic site    		  TTTGGTTAAA
Note   Predicted by oriTfinder 2.0

  oriT sequence  


Download         Length: 254 nt

>oriT_pPJ-T17-213kb
GGATTTAGGTTTTTTTTTAATCGCTTCACATTTCGTTAGCATGCGAAGAAATTTTGATAAAATTCTGGTCAGTTTGGTTAAAAAGTGTTACAAGTAAGCGGTGTGGTTGAAGGGATAGATTTAAGGCTTATTCAAGCCTTAAGAAAATACTAAAAGTTACTTTTCACCCTACCGAACACCTAACAAAAAATCCATGTTGAAGATTTGAACAATTGTAATGGCGCAAGGACAATCAGCACATGTCAGAATCTGAT

Visualization of oriT structure

  oriT secondary structure

Predicted by RNAfold.

Download structure file


Relaxase

ID   5035 GenBank   WP_001011151
Name   mobH_MMZ88_RS00185_pPJ-T17-213kb insolico UniProt ID   A0A1P8VU63
Length   1048 a.a. PDB ID   
Note   Predicted by oriTfinder 2.0

  Relaxase protein sequence


Download         Length: 1048 a.a.        Molecular weight: 117773.04 Da        Isoelectric Point: 4.6054

>WP_001011151.1 MULTISPECIES: MobH family relaxase [Enterobacterales]
MNFRALYLCIKRILGIFSSQENDATSVMIEDISSLSPFAQILGDQKYTVPDHPNPEVLKFIEYPTRPTGI
QTFNEQSILSLYREKLHSISMMLAISDSDIRDDAYTFTNLVLKPLVEYVRWIHLLPASENHHHNGIGGLL
SHSLEVAILSLKNAHHSELRPIGYQDEEVVRRKVYLYAAFICGLVHDAGKVYDLDIVSLNLASPIIWTPS
SQSLLDWARENDVVEYEIHWRKRIHNQHNIWSSVFLERILNPVCLAFLDRVNKERVYSKMITALNVYTDG
NDFLSKCVRTADFYSTGTDLNVLRDPIMGLRSNDAAARAISTIKHNFTSININNYNAKPMHIIIVNGEVY
LNENAFLDFVLNDFELHKYNFPQGEAGKTVLVESLVQRGYVEPYDDERVVHYFIPGIYSENEISNIFRNG
IGKLEFYNLLKLRWIGLIFDSYKIPDSVPGLFSVNANKDFIYIDEQKTVTEYRRPVPGRDAITKITDTVE
TAVLKVNDLGRSTASIDVDIHSKKNEGSSDDFEKKAESDNEIDNDTQIVKSEGEEAADPVIPDIEESEDE
SAKDTESHVLVNQLHELLLSAPLSNDYIVCVDAVPYLNIDATMALLPGLDEKAFSEEPYFQLTFREGSLD
GMWIVRDIDDLRLVQLGDNCAGFQLTYHEPRRPTTLKSLFNTSMYQALVINDESSVENSAPRPKQTLELP
PPRVNAVEEHSGDVEYHGTDSASATGPLKTEAVEYEHYQHLFEEEDEEHEIIDYTDFTQLSVSRPEVGSC
ATSSSVHNEKLLPEPSELPELNREQNADPQGTIERSMDVSVGQENSEPDTEGNCPPPAEVVYSQTEAAAT
SVMASEEPALPPVLEESNGEHAPTDAKGHHLSPALARLFAPTAPVEKQNPKRNRNKSSDKAEVQKPASPV
SGHNLNSKVFATTESDQNGEFSLISEGDVTELEFVEIASVLHQILSKMEVAFKRKRKNRFMVSTPNTLYL
TQSCVEKFGSQLEAQDLFNKLPQYLVNSGAVINTKCHAFNMPTLLAASDRAKVDIERIINNLKEAGNL

  Protein domains


Predicted by InterproScan.

Putative helicase (TraI_2)

(106-302)


  Protein structure


Source ID Structure
AlphaFold DB A0A1P8VU63


T4CP

ID   5247 GenBank   WP_001284076
Name   traD_MMZ88_RS00190_pPJ-T17-213kb 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: 78137.93 Da        Isoelectric Point: 8.0177

>WP_001284076.1 MULTISPECIES: conjugative transfer system coupling protein TraD [Enterobacterales]
MSDSKRTNLHAQENFYRPILEYRSASILLICSVSMLYMGLSSDGLDIAPIVLFTSILLFLLCLYRCKTAA
PFLMAHWRVFKRHFMFVSLDSLRVINKSNFFSNERKYRQLVQDYQNKNKDIPERKSYFCDGFEWGPEHAD
RAYQIANLSSDKREIELPFVFNPIKRHFDAMARKMGGSNAIFAVERREPIFVTEDNWFGHTLITGNVGTG
KTVLQRLLSISMLHLGHVVVVIDPKNDAEWRESLMEEAKTLGLPFYKFHPGQPASSVCIDVCNTYTNVSD
LTSRLLSLVTVPGEVNPFVQYAKALVSNVISGLSYIEKKPSIYLIHKNMKSHMSIVNLTVKVMESCYARY
YGYDVWTEKVKYVANETLPVRFKRLAEWFTAHFMNYEGSEQIDWLDTVSQLIDYSMSDPEHMAKMTAGIM
PVFDMLIEKPLNELLSPNPNSVSSREIVTSEGMFSTGGVLYISLDGLSNPDTAAAISQLIMSDLTSCAGS
RYNAQDGDMSANSRISIFVDEAHSAINNPMINLLAQGRAAKIALFICTQTISDFIAAASVETANRITGLC
NNYISLRVNDTPTQTLVVENFGKSAISTNMVTYTTGSETSLPHNNFSGSISERKQTTLEESIPKDLLGQV
PMFHIVARLQDGRKVVGQIPIAVAEKQMKPNTTLSEMLFKKAGKVTLRQNLDIKNLNKFLRKLH

  Protein domains


Predicted by InterproScan.

AAA-like domain (AAA_10)

(199-249)

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

(406-609)

  Protein structure



No available structure.




T4SS

T4SS were predicted by using oriTfinder2.

Region 1: 106778..115981

Locus tag Coordinates Strand Size (bp) Protein ID Product Description
MMZ88_RS00565 101887..102603 - 717 WP_000838218 zinc finger-like domain-containing protein -
MMZ88_RS00570 102600..102800 - 201 WP_000594931 hypothetical protein -
MMZ88_RS00575 102818..103873 - 1056 WP_065311103 hypothetical protein -
MMZ88_RS00580 104350..105225 + 876 WP_000594612 RepB family plasmid replication initiator protein -
MMZ88_RS00585 106374..106727 + 354 WP_000423602 hypothetical protein -
MMZ88_RS00590 106778..107095 + 318 WP_000043356 type IV conjugative transfer system protein TraL traL
MMZ88_RS00595 107107..107376 + 270 WP_240679510 hypothetical protein traE
MMZ88_RS00600 107517..107891 + 375 WP_240679511 type IV conjugative transfer system protein TraE traE
MMZ88_RS00605 107891..109162 + 1272 WP_240679512 type-F conjugative transfer system secretin TraK traK
MMZ88_RS00610 109164..109625 + 462 WP_000521240 plasmid transfer protein HtdO -
MMZ88_RS00615 109615..110970 + 1356 WP_000351841 IncHI-type conjugal transfer protein TrhB traB
MMZ88_RS00620 110978..111460 + 483 WP_065311104 transcriptional regulator -
MMZ88_RS00625 111579..112331 + 753 WP_183079335 protein-disulfide isomerase HtdT -
MMZ88_RS00630 112341..113291 + 951 WP_001022587 IncHI-type conjugal transfer lipoprotein TrhV traV
MMZ88_RS00635 113300..115981 + 2682 WP_000387412 TraC family protein virb4

Host bacterium

ID   7947 GenBank   NZ_OL598602
Plasmid name   pPJ-T17-213kb Incompatibility group   IncHI2
Plasmid size   213369 bp Coordinate of oriT [Strand]   30346..30599 [-]
Host baterium   Salmonella sp. strain PJM1

Cargo genes

Drug resistance gene   qnrS1, mph(A), ARR-3, dfrA14, floR, blaCTX-M-55
Virulence gene   -
Metal resistance gene   terW, terZ, terA, terB, terC, terD, terE
Degradation gene   -
Symbiosis gene   -
Anti-CRISPR   -