Detailed information of oriT

oriT

The information of the oriT region


oriTDB ID   107515
Name   oriT_pPJT1-452kb in_silico
Organism   Salmonella sp. strain PJM1
Sequence Completeness      -
NCBI accession of oriT (coordinates [strand])   NZ_OM317741 (277746..277999 [-], 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_pPJT1-452kb
GGATTTAGGTTTTTTTTTAATCGCTTCACATTTCGTTAGCATGCGAAGAAATTTTGATAAAATTCTGGTCAGTTTGGTTAAAAAGTGTTACAAGTAAGCGGTGTGGTTGAAGGGATAGATTTAAGGCTTATTCAAGCCTTAAGAAAATACTAAAAGTTACTTTTCACCCTACCGAACACCTAACAAAAAATCCATGTTGAAGATTTGAACAATTGTAATGGCGCAAGGACAATCAGCACATGTCAGAATCTGAT

Visualization of oriT structure

  oriT secondary structure

Predicted by RNAfold.

Download structure file


Relaxase

ID   5038 GenBank   WP_241390991
Name   mobH_MOP46_RS01375_pPJT1-452kb insolico UniProt ID   _
Length   1021 a.a. PDB ID   
Note   Predicted by oriTfinder 2.0

  Relaxase protein sequence


Download         Length: 1021 a.a.        Molecular weight: 114700.45 Da        Isoelectric Point: 4.5826

>WP_241390991.1 MobH family relaxase [Shigella flexneri]
MIEDISSLSPFAQILGDQKYTVPDHPNPEVLKFIEYPTRPTGIQTFNEQSILSLYREKLHSISMMLAISD
SDIRDDAYTFTNLVLKPLVEYVRWIHLLPASENHHHNGIGGLLSHSLEVAILSLKNAHHSELRPIGYQDE
EVVRRKVYLYAAFICGLVHDAGKVYDLDIVSLNLASPIIWTPSSQSLLDWARENDVVEYEIHWRKRIHNQ
HNIWSSVFLERILNPVCLAFLDRVNKERVYSKMITALNVYTDGNDFLSKCVRTADFYSTGTDLNVLRDPI
MGLRSNDAAARAISTIKHNFTSININNYNAKPMHIIIVNGEVYLNENAFLDFVLNDFELHKYNFPQGEAG
KTVLVESLVQRGYVEPYDDERVVHYFIPGIYSENEISNIFRNGIGKLEFYNLLKLRWIGLIFDSYKIPDS
VPGLFSVNANKDFIYIDEQKTVTEYRRPVPGRDAITKITDTVETAVLKVNDLGRSTASIDVDIHSKKNEG
SSDDFEKKAESDNEIDNDTQIVKSEGEEAADPVIPDIEESEDESAKDTESHVLVNQLHELLLSAPLSNDY
IVCVDAVPYLNIDATMALLPGLDEKAFSEEPYFQLTFREGSLDGMWIVRDIDDLRLVQLGDNCAGFQLTY
HEPRRPTTLKSLFNTSMYQALVINDESSVENSAPRPKQTLELPPPRVNAVEEHSGDVEYHGTDSASATGP
LKTEAVEYEHYQHLFEEEDEEHEIIDYTDFTQLSVSRPEVGSCATSSSVHNEKLLPEPSELPELNREQNA
DPQGTIERSMDVSVGQENSEPDTEGNCPPPAEVVYSQTEAAATSVMASEEPALPPVLEESNGEHAPTDAK
GHHLSPALARLFAPTAPVEKQNPKRNRNKSSDKAEVQKPASPVSGHNLNSKVFATTESDQNGEFSLISEG
DVTELEFVEIASVLHQILSKMEVAFKRKRKNRFMVSTPNTLYLTQSCVEKFGSQLEAQDLFNKLPQYLVN
SGAVINTKCHAFNMPTLLAASDRAKVDIERIINNLKEAGNL

  Protein domains


Predicted by InterproScan.

Putative helicase (TraI_2)

(79-275)


  Protein structure



No available structure.




T4CP

ID   5251 GenBank   WP_001284076
Name   traD_MOP46_RS01380_pPJT1-452kb 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: 354178..363385

Locus tag Coordinates Strand Size (bp) Protein ID Product Description
MOP46_RS01760 (NPGAP_21460) 349287..350003 - 717 WP_000838218 zinc finger-like domain-containing protein -
MOP46_RS01765 (NPGAP_21465) 350000..350200 - 201 WP_000594931 hypothetical protein -
MOP46_RS01770 (NPGAP_21470) 350218..351273 - 1056 WP_065311103 hypothetical protein -
MOP46_RS01775 (NPGAP_21475) 351750..352625 + 876 WP_000594612 RepB family plasmid replication initiator protein -
MOP46_RS01780 (NPGAP_21485) 353774..354127 + 354 WP_000423602 hypothetical protein -
MOP46_RS01785 (NPGAP_21490) 354178..354495 + 318 WP_000043356 type IV conjugative transfer system protein TraL traL
MOP46_RS01790 (NPGAP_21495) 354507..355295 + 789 WP_000783153 TraE/TraK family type IV conjugative transfer system protein traE
MOP46_RS01795 (NPGAP_21500) 355295..356566 + 1272 WP_000592090 type-F conjugative transfer system secretin TraK traK
MOP46_RS01800 (NPGAP_21505) 356568..357029 + 462 WP_000521240 plasmid transfer protein HtdO -
MOP46_RS01805 (NPGAP_21510) 357019..358374 + 1356 WP_000351841 IncHI-type conjugal transfer protein TrhB traB
MOP46_RS01810 (NPGAP_21515) 358382..358864 + 483 WP_065311104 transcriptional regulator -
MOP46_RS01815 (NPGAP_21520) 358983..359735 + 753 WP_183079335 protein-disulfide isomerase HtdT -
MOP46_RS01820 (NPGAP_21525) 359745..360695 + 951 WP_001022587 IncHI-type conjugal transfer lipoprotein TrhV traV
MOP46_RS01825 (NPGAP_21530) 360704..363385 + 2682 WP_000387412 TraC family protein virb4

Host bacterium

ID   7950 GenBank   NZ_OM317741
Plasmid name   pPJT1-452kb Incompatibility group   IncHI2
Plasmid size   452929 bp Coordinate of oriT [Strand]   277746..277999 [-]
Host baterium   Salmonella sp. strain PJM1

Cargo genes

Drug resistance gene   aph(6)-Id, tet(A), sul3, aac(3)-IId, blaLAP-2, blaTEM-1B, blaCTX-M-55, qnrS1, mph(A), ARR-3, dfrA14, floR
Virulence gene   htpB, faeI, faeH, faeF, faeE, faeD, faeC
Metal resistance gene   cutA, actP/yjcG, terW, terZ, terA, terB, terC, terD, terE
Degradation gene   bhpD
Symbiosis gene   -
Anti-CRISPR   -