Detailed information of oriT

oriT

The information of the oriT region


oriTDB ID   122301
Name   oriT1_pF179_2 in_silico
Organism   Enterococcus faecium strain F179
Sequence Completeness      -
NCBI accession of oriT (coordinates [strand])   NZ_CP072886 (19387..19590 [+], 204 nt)
oriT length   204 nt
IRs (inverted repeats)      125..130, 143..148  (AAATCC..GGATTT)
 66..72, 83..89  (ACCCCCC..GGGGGGT)
Location of nic site      135..136
Conserved sequence flanking the
  nic site    		  TTTGGTTACA
Note   Predicted by oriTfinder 2.0

  oriT sequence  


Download         Length: 204 nt

>oriT1_pF179_2
AAGCGGAAGTCGCAGGTGTGGACTGATCTTGCTGGCTGGTGTGGCAATAGCCACGCCAGCACTTAACCCCCCGTATCTAACAGGGGGGTACAAATCGACAGGAAACAGTCAAAAAAACATTAGAAAATCCTTTGGTTACAAGGGATTTACAAAATTTCAGCGTATGTCAAATGGGCTTTAAAAGTTGACATACGCCTTTTTGAT

Visualization of oriT structure

  oriT secondary structure

Predicted by RNAfold.

Download structure file


Relaxase

ID   14066 GenBank   WP_000398284
Name   mobT_J9540_RS13480_pF179_2 insolico UniProt ID   A0A3P3PY43
Length   401 a.a. PDB ID   
Note   Predicted by oriTfinder 2.0

  Relaxase protein sequence


Download         Length: 401 a.a.        Molecular weight: 47398.10 Da        Isoelectric Point: 6.5091

>WP_000398284.1 MULTISPECIES: MobT family relaxase [Bacteria]
MEGFLLNEQTWLQHLKEKRLAYGLSQNRLAVATGITRQYLSDIETGKVKPSEDLQQSLWEALERFNPDAP
LEMLFDYVRIRFPTTDVQQVVENILQLKLSYFLHEDYGFYSYSEHYALGDIFVLCSHELDKGVLVELKGR
GCRQFESYLLAQQRSWYEFFMDVLVAGGVMKRLDLAINDKTGILNIPVLTEKCQQEECISVFRSFKSYRS
GELVRKEEKECMGNTLYIGSLQSEVYFCIYEKDYEQYKKNDIPIEDAEVKNRFEIRLKNERAYYAVRDLL
VYDNPEHTAFKIINRYIRFVDKDDSKPRSDWKLNEEWAWFIGNNRERLKLTTKPEPYSFQRTLNWLSHQV
APTLKVAIKLDEINQTQVVKDILDHAKLTDRHKQILKQQSVKEQDVITTKK

  Protein domains


Predicted by InterproScan.

Helix-turn-helix (HTH_3)

(15-53)

Replication initiation factor (Rep_trans)

(169-373)

Rolling Circle replication initiation protein N-terminal domain (Rol_Rep_N)

(73-161)


  Protein structure


Source ID Structure
AlphaFold DB A0A3P3PY43


T4CP

ID   16427 GenBank   WP_000813488
Name   tcpA_J9540_RS13470_pF179_2 insolico UniProt ID   _
Length   461 a.a. PDB ID   _
Note   Predicted by oriTfinder 2.0

  T4CP protein sequence


Download         Length: 461 a.a.        Molecular weight: 53370.27 Da        Isoelectric Point: 9.0687

>WP_000813488.1 MULTISPECIES: FtsK/SpoIIIE domain-containing protein [Bacteria]
MKQRGKRIRPSGKDLVFHFTIASLLPVFLLVVGLFHVKTIQQINWQDFNLSQADKIDIPYLIISFSVAIL
ICLLVAFVFKRVRYDTVKQLYHRQKLAKMILENKWYESEQVKTEGFFKDSAGRTKEKITYFPKMYYRLKN
GLIQIRVEITLGKYQDQLLHLEKKLESGLYCELTDKELKDSYVEYTLLYDTIASRISIDEVEAKDGKLRL
MKNVWWEYDKLPHMLIAGGTGGGKTYFILTLIEALLHTDSKLYILDPKNADLADLGSVMANVYYRKEDLL
SCIETFYEEMMKRSEEMKQMKNYKTGKNYAYLGLPAHFLIFDEYVAFMEMLGTKENTAVMNKLKQIVMLG
RQAGFFLILACQRPDAKYLGDGIRDQFNFRVALGRMSEMGYGMMFGSDVQKDFFLKRIKGRGYVDVGTSV
ISEFYTPLVPKGYDFLEEIKKLSNSRQSTQATCEAEVAGVD

  Protein domains


Predicted by InterproScan.

FtsK/SpoIIIE family (FtsK_SpoIIIE)

(217-301)

  Protein structure



No available structure.




T4SS

T4SS were predicted by using oriTfinder2.

Region 1: 17282..28692

Locus tag Coordinates Strand Size (bp) Protein ID Product Description
J9540_RS13430 (J9540_13430) 12325..12597 - 273 WP_000301765 antitoxin -
J9540_RS13435 (J9540_13435) 12614..12829 - 216 WP_001835296 peptide-binding protein -
J9540_RS13440 (J9540_13440) 12893..13789 - 897 WP_001835294 ParA family protein -
J9540_RS13445 (J9540_13445) 13892..16036 - 2145 WP_000108741 type IA DNA topoisomerase -
J9540_RS13450 (J9540_13450) 16036..16653 - 618 WP_001062589 recombinase family protein -
J9540_RS13455 (J9540_13455) 16667..16837 - 171 WP_000713594 hypothetical protein -
J9540_RS13460 (J9540_13460) 17282..17596 + 315 WP_000420682 YdcP family protein orf23
J9540_RS13465 (J9540_13465) 17612..17998 + 387 WP_000985015 YdcP family protein orf23
J9540_RS13470 (J9540_13470) 18027..19412 + 1386 WP_000813488 FtsK/SpoIIIE domain-containing protein virb4
J9540_RS13475 (J9540_13475) 19415..19567 + 153 WP_000879507 hypothetical protein -
J9540_RS13480 (J9540_13480) 19590..20795 + 1206 WP_000398284 MobT family relaxase -
J9540_RS13485 (J9540_13485) 20838..21059 + 222 WP_001009056 hypothetical protein orf19
J9540_RS13490 (J9540_13490) 21176..21673 + 498 WP_000342539 antirestriction protein ArdA -
J9540_RS13495 (J9540_13495) 21762..22154 + 393 WP_000723888 conjugal transfer protein orf17a
J9540_RS13500 (J9540_13500) 22138..24585 + 2448 WP_000331160 ATP-binding protein virb4
J9540_RS13505 (J9540_13505) 24588..26765 + 2178 WP_001574271 CD3337/EF1877 family mobilome membrane protein orf15
J9540_RS13510 (J9540_13510) 26762..27763 + 1002 WP_001574272 lysozyme family protein orf14
J9540_RS13515 (J9540_13515) 27760..28692 + 933 WP_001224319 conjugal transfer protein orf13
J9540_RS14155 29006..29053 + 48 Protein_34 hypothetical protein -
J9540_RS13525 (J9540_13525) 29069..30988 + 1920 WP_001574275 tetracycline resistance ribosomal protection protein Tet(M) -
J9540_RS13535 (J9540_13535) 31182..32558 + 1377 WP_001574277 tetracycline efflux MFS transporter Tet(L) -
J9540_RS13540 (J9540_13540) 33122..33376 + 255 Protein_37 plasmid recombination protein -

Host bacterium

ID   22728 GenBank   NZ_CP072886
Plasmid name   pF179_2 Incompatibility group   -
Plasmid size   53837 bp Coordinate of oriT [Strand]   19387..19590 [+]; 33015..33052 [+]
Host baterium   Enterococcus faecium strain F179

Cargo genes

Drug resistance gene   lnu(B), aph(3')-III, erm(B), tet(M), tet(L), ant(6)-Ia
Virulence gene   -
Metal resistance gene   -
Degradation gene   -
Symbiosis gene   -
Anti-CRISPR   -