Detailed information of oriT

oriT

The information of the oriT region


oriTDB ID   100926
Name   oriT_pCFSAN001297_01 in_silico
Organism   Salmonella enterica subsp. enterica serovar Muenster str. 0315
Sequence Completeness      intact
NCBI accession of oriT (coordinates [strand])   NZ_CP019200 (12523..12877 [+], 355 nt)
oriT length   355 nt
IRs (inverted repeats)      IR1: 145..155, 161..171  (ATGTGTAATAC..GTATTACACAT)
  IR2: 208..218, 223..233  (GCATTTACGAT..ATCGTAATTGC)
  IR3: 336..344, 347..355  (CTTTCATGC..GCATGAAAG)
Location of nic site      242..243
Conserved sequence flanking the
  nic site    		  GGTGT|ATAGC
Note   predicted by the oriTfinder

  oriT sequence  


Download         Length: 355 nt

>oriT_pCFSAN001297_01
ACTCCGATACGTTGCCCTCCGAACGGTATTCAAGGTCGATTTTTTGCGCTTCGGTCACTCTTAAACTGATAGATGGCATAGGTTTCCTTTGTGTAATACCGATGTAATACATACAAATCTAGCATATATGCGGATTAATTCCATATGTGTAATACGTTGCGTATTACACATCAAAACACAAATTAGAATAATTTGTTTTGTTTTCAAGCATTTACGATGAAAATCGTAATTGCGTATGGTGTATAGCCGTTAAGGGATACCATACCACGCCTTTTTTAAGGGAGAAACCGGTGTTAAGTGCAAGTGAATCGCTCAAAAAGCGTTCACATTCACCACTTTCATGCTTGCATGAAAG

Visualization of oriT structure

  oriT secondary structure

Predicted by RNAfold.

Download structure file


Relaxase

ID   997 GenBank   WP_023223526
Name   Relaxase_pCFSAN001297_01 insolico UniProt ID   _
Length   969 a.a. PDB ID   
Note   putative relaxase

  Relaxase protein sequence


Download         Length: 969 a.a.        Molecular weight: 108393.42 Da        Isoelectric Point: 9.7306

>WP_023223526.1 MULTISPECIES: MobF family relaxase [Enterobacteriaceae]
MLNITTITRQRVDKVVDYYTDGADDYYAKDGNAMQWQGAGAEELGLTGEVEQQRFAKLLDGKVTDDISVM
RKTANSESKERLGYDLTFSAPKGVTLQALVSGDKRIIEAHDRAVAKAIEEAERLALGRFTVNKKTHVENT
NKLIVAKFRHETSRELDPELHTHAFVMNLTKTSDGKWRSLTNDGIVNSLTLLGNVYKSELARDLELAGYN
LRYDRNGTFDLAHFTPEQTAHFSQRSQQIEAELAKDGLSRETASHEQKNAAALKTRKSKGEVDRDVLYEG
WKNRAKELQIDFDSREWKGAANDDIARNTQPAALEKPIEYQADKVMTFAIRSLTERQSVITERELMDVAM
KHGYGRLTLDDIRAARERAITSGNLIKEEATYAAATTNKKQQNVAMTREQWVTELVKAGRNKDEARKLVD
KGITNGRLVQQKPRFTTQLAQQRERNILKMEREGRGKIQTPYTREFSEGWLASRTLKPEQLKAVMGIIHT
PNQFISVHGFAGTGKSYMTKSAADFLKEQGVHVTSLAPYGSQVKALQAEGLESRTLQSFLRASDKKIGPG
SVVFIDEAGVIPARQMEETMRVIRDAGARAVFLGDTKQTKAVEAGKPFEQLIKAGMETAYMKDIQRQKDP
ELLKAALNAAEGKIKASLTHVTSIVEEKNHDQRYRRIVGDYVAMPPTDRANALIITGTNDSRKKINAYIQ
AELGLKGQGINYPLLNRLDTTQAQRQHSKYYEKGAVIIPERDYSNGLKRGAVYTVLDTGPGNKLTVSDGS
GDTIAFSPARFSKLSVYSVEKTELAVGDQVRITRNDAHLDLANGDRFKVKGVQSGEVLLENEKGRLVKID
ANKPMYLGLAYASTVHSAQGLTCDKVFINMDTRSLTTAKDVYYVAVTRAKHEAVIYTDDEKKLDKAASRE
GFKTAALELEQLKRYAKEQQHDAREKGRDKTEPTQEKDNAKRKGKGHDKNNDERAFTSL

  Protein domains


Predicted by InterproScan.

TrwC relaxase (TrwC)

(14-287)

AAA domain (AAA_30)

(475-649)

UvrD-like helicase C-terminal domain (UvrD_C_2)

(850-896)


  Protein structure



No available structure.




T4SS

T4SS were predicted by using oriTfinder2.

Region 1: 216..12261

Locus tag Coordinates Strand Size (bp) Protein ID Product Description
SEEM0315_RS25345 (SEEM0315_025370) 216..923 + 708 WP_023187073 type IV secretion system protein virB5
SEEM0315_RS25350 (SEEM0315_025375) 927..1163 + 237 WP_000733633 EexN family lipoprotein -
SEEM0315_RS25355 (SEEM0315_025380) 1182..2225 + 1044 WP_023223520 type IV secretion system protein virB6
SEEM0315_RS26635 2320..2490 + 171 WP_021536809 hypothetical protein -
SEEM0315_RS25360 (SEEM0315_025385) 2493..3209 + 717 WP_023223521 type IV secretion system protein virB8
SEEM0315_RS25365 (SEEM0315_025390) 3212..4099 + 888 WP_000744355 TrbG/VirB9 family P-type conjugative transfer protein virB9
SEEM0315_RS25370 (SEEM0315_025395) 4096..5250 + 1155 WP_023223522 type IV secretion system protein VirB10 virB10
SEEM0315_RS25375 (SEEM0315_025400) 5243..6274 + 1032 WP_023223523 P-type DNA transfer ATPase VirB11 virB11
SEEM0315_RS25380 (SEEM0315_025405) 6237..6791 + 555 WP_023223524 phospholipase D family protein -
SEEM0315_RS25385 (SEEM0315_025410) 6804..7286 + 483 WP_023233763 GNAT family protein -
SEEM0315_RS25390 (SEEM0315_025415) 7298..7492 + 195 WP_000529710 hypothetical protein -
SEEM0315_RS25395 (SEEM0315_025420) 7772..10681 - 2910 WP_023223526 MobF family relaxase -
SEEM0315_RS25400 (SEEM0315_025425) 10684..12261 - 1578 WP_023223527 type IV secretion system DNA-binding domain-containing protein virb4
SEEM0315_RS25405 (SEEM0315_025430) 12254..12601 - 348 WP_001139329 hypothetical protein -
SEEM0315_RS25410 (SEEM0315_025435) 13077..13511 + 435 WP_023223528 hypothetical protein -
SEEM0315_RS25415 (SEEM0315_025440) 13524..14234 + 711 WP_021544361 StbB family protein -
SEEM0315_RS25420 (SEEM0315_025445) 14236..14604 + 369 WP_015345231 plasmid stabilization protein StbC -
SEEM0315_RS25425 (SEEM0315_025450) 14819..15589 + 771 WP_023223529 SprT-like domain-containing protein -
SEEM0315_RS25430 (SEEM0315_025455) 15631..15819 - 189 WP_001001010 hypothetical protein -
SEEM0315_RS25435 (SEEM0315_025460) 15824..16081 - 258 WP_021536820 hypothetical protein -
SEEM0315_RS26460 16154..16309 - 156 WP_021536821 hypothetical protein -
SEEM0315_RS25440 (SEEM0315_025465) 16462..16704 - 243 WP_023223530 hypothetical protein -
SEEM0315_RS25445 (SEEM0315_025470) 16758..17045 - 288 WP_001098466 hypothetical protein -

Host bacterium

ID   1385 GenBank   NZ_CP019200
Plasmid name   pCFSAN001297_01 Incompatibility group   _
Plasmid size   34175 bp Coordinate of oriT [Strand]   12523..12877 [+]
Host baterium   Salmonella enterica subsp. enterica serovar Muenster str. 0315

Cargo genes

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