Detailed information of oriT

oriT

The information of the oriT region


oriTDB ID   104564
Name   oriT_SWHEFF_51|unnamed2 in_silico
Organism   Shigella dysenteriae strain SWHEFF_51
Sequence Completeness      -
NCBI accession of oriT (coordinates [strand])   NZ_CP055054 (31775..31875 [+], 101 nt)
oriT length   101 nt
IRs (inverted repeats)      32..38, 43..49  (TTACGAT..ATCGTAA)
 21..26, 38..43  (TTTTCA..TGAAAA)
Location of nic site      62..63
Conserved sequence flanking the
  nic site    		  GGTGTATAGC
Note   Predicted by oriTfinder 2.0

  oriT sequence  


Download         Length: 101 nt

>oriT_SWHEFF_51|unnamed2
AATTAGAATAATTTGTTTTGTTTTCAAGCATTTACGATGAAAATCGTAATTGCGTATGGTGTATAGCCGTTAAGGGATACCATACCACGCCTTTTTTAAGG

Visualization of oriT structure

  oriT secondary structure

Predicted by RNAfold.

Download structure file


Relaxase

ID   3290 GenBank   WP_063448733
Name   mobF_HUZ69_RS25065_SWHEFF_51|unnamed2 insolico UniProt ID   _
Length   969 a.a. PDB ID   
Note   Predicted by oriTfinder 2.0

  Relaxase protein sequence


Download         Length: 969 a.a.        Molecular weight: 108453.52 Da        Isoelectric Point: 9.7610

>WP_063448733.1 MULTISPECIES: MobF family relaxase [Enterobacteriaceae]
MLNITTITRQRVDKVVDYYADGADDYYAKDGNAMQWQGAGAEELGLTGEVEQKRFAKLLDGKVTDDISVM
RKTANSESKERLGYDLTFSAPKGVTLQALVNGDKRIIEAHDRAVTKAIEEAERLALGRFTVNKKTHVENT
NKLIVGKFRHETSRELDPDLHTHAFVMNLTKTSDGKWRSLTNDGIVNSLTLLGNVYKSELARELELAGYN
LRYDRNGTFDLAHFSQEQIAQFSQRSQQIEAELAKNGLSRETASHEQKNAAALKTRKSKGEVDRDVLYEG
WKNRAKELQIDFDSREWKGAANDDIARNTQPAALEKPIEYQADKVMTFAIRSLTERQSVITERELMDVAM
KHGYGRLTLDDIRAARERAITSGNLIKEEATYAAATANKKQQNVAMTREQWVTELVKAGRNKDEARKLVD
KGITNGRLVQQKPRFTTQLAQQRERNILKMEREGRGKIQTPYTREFSEGWLASRTLKPEQLKAVMGIIHT
PNQFISVHGFAGTGKSYMTKSAADFLKEQGVHVTSLAPYGSQVKALQAEGLESRTLQSFLRASDKKIGPG
SVVFIDEAGVIPARQMEETMRVIRDAGARAVFLGDTKQTKAVEAGKPFEQLIKAGMETAYMKDIQRQKDP
ELLKAALNAAEGKIKASLTHVTSIVEEKNHDQRYRRIVGDYVAMPPTDRANALIITGTNDSRKKINEYIQ
AELGLKGQGINYPLLNRLDTTQAQRQHSKYYEKGAVIIPERDYSNGLKRGAVYTVLDTGPGNKLTVSDGS
GDTIAFSPARFSKLSVYSVEKTELAVGDQVRITRNDAHLDLANGDRFKVKGVQSGEVLLENEKGRLVKID
ANKPMYLGLAYASTVHSAQGLTCDKVFINMDTRSLTTAKDVYYVAVTRAKHEAVIYTDDEKKLDKAASRE
GFKTAALELEQLKRYAKEQQHDAREKGRDKTEPTQEKDNAKRKGKGHDKNNDERAFTSL

  Protein domains


Predicted by InterproScan.

AAA domain (AAA_30)

(475-649)

UvrD-like helicase C-terminal domain (UvrD_C_2)

(850-896)

TrwC relaxase (TrwC)

(14-287)


  Protein structure



No available structure.




T4CP

ID   3229 GenBank   WP_001001035
Name   t4cp2_HUZ69_RS25070_SWHEFF_51|unnamed2 insolico UniProt ID   _
Length   525 a.a. PDB ID   _
Note   Predicted by oriTfinder 2.0

  T4CP protein sequence


Download         Length: 525 a.a.        Molecular weight: 59019.93 Da        Isoelectric Point: 9.5507

>WP_001001035.1 MULTISPECIES: type IV secretion system DNA-binding domain-containing protein [Enterobacterales]
MNEADKGKICLGALLFTPLVTWFIAAKTLYGFTPKDARERLVLLIQQTFDLWPLWGALLVGEIIAIIGLI
IFFKFNHQIFKGAPFKKIYRGTRLVSQRALASLTKEREPQITIADIPIPTKAEGTHISIAGATGVGKSTI
FAEMMKGCLMRGKMQRVASKKDRMIILDPDGDFLSRFYKKGDKILNPYDARTEGWVFFNEIKSDFDFERF
GVSIVPTAKDSQTEEWNGYGRLLFTEVSRKVFNTSRNPTMEEVFYWTNEVPLEELEEYVRGTKAQALFAG
SGRAVGSARFVLSNKLAAHLKMPAGNFSIREWLEDPKGGNLYITWTDEMREALKSLISCWTDSIFSIVLG
MSKSNTRKIWTYIDELESLDYLPSLRDALTKGRKKGLRVVTGYQSYSQVISIYGSDVAETLLSNHRTSVV
MAAGRLGERTLEFVSKSLGEIEGEREKTGISRRFGQMGTKNINDDHKRERAVTPTEIATLDDLTGYIAFP
GNLPVAKFETHHVNYTRSNPVPGVVLRESTAFAGM

  Protein domains


Predicted by InterproScan.

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

(111-499)

  Protein structure



No available structure.




T4SS

T4SS were predicted by using oriTfinder2.

Region 1: 13544..31333

Locus tag Coordinates Strand Size (bp) Protein ID Product Description
HUZ69_RS24925 (HUZ69_24670) 9288..9848 - 561 WP_275094608 recombinase family protein -
HUZ69_RS24930 (HUZ69_24675) 9888..10592 - 705 WP_001067855 IS6-like element IS26 family transposase -
HUZ69_RS24935 (HUZ69_24680) 11140..11385 + 246 WP_021536799 AbrB/MazE/SpoVT family DNA-binding domain-containing protein -
HUZ69_RS24940 (HUZ69_24685) 11397..11654 + 258 WP_016240387 hypothetical protein -
HUZ69_RS24945 (HUZ69_24690) 11644..11970 + 327 WP_016240388 endoribonuclease MazF -
HUZ69_RS24950 (HUZ69_24695) 11979..12416 + 438 WP_057517876 hypothetical protein -
HUZ69_RS24955 (HUZ69_24700) 12441..12677 - 237 WP_042041953 Hha/YmoA family nucleoid-associated regulatory protein -
HUZ69_RS24960 (HUZ69_24710) 12843..13568 - 726 WP_224132007 restriction endonuclease -
HUZ69_RS24965 (HUZ69_24715) 13544..13858 - 315 WP_023223516 hypothetical protein tfc15
HUZ69_RS24970 (HUZ69_24720) 13861..14178 - 318 WP_023223517 TrbM/KikA/MpfK family conjugal transfer protein -
HUZ69_RS24975 (HUZ69_24725) 14184..14621 - 438 WP_057517875 hypothetical protein -
HUZ69_RS24980 (HUZ69_24730) 14633..14869 - 237 WP_000089855 H-NS histone family protein -
HUZ69_RS24985 (HUZ69_24735) 14932..15672 + 741 WP_000815895 lytic transglycosylase domain-containing protein virB1
HUZ69_RS24990 (HUZ69_24740) 15695..16012 + 318 WP_001267114 hypothetical protein -
HUZ69_RS24995 (HUZ69_24745) 15996..16286 + 291 WP_057517874 TrbC/VirB2 family protein virB2
HUZ69_RS25000 (HUZ69_24750) 16336..16650 + 315 WP_001053888 VirB3 family type IV secretion system protein virB3
HUZ69_RS25005 (HUZ69_24755) 17007..19280 + 2274 WP_231225962 VirB4 family type IV secretion/conjugal transfer ATPase virb4
HUZ69_RS25010 (HUZ69_24760) 19290..19997 + 708 WP_000751606 type IV secretion system protein virB5
HUZ69_RS25015 (HUZ69_24765) 20001..20237 + 237 WP_000733633 EexN family lipoprotein -
HUZ69_RS25020 (HUZ69_24770) 20316..21299 + 984 WP_173671886 type IV secretion system protein virB6
HUZ69_RS25025 (HUZ69_24775) 21394..21564 + 171 WP_021536809 hypothetical protein -
HUZ69_RS25030 (HUZ69_24780) 21567..22283 + 717 WP_000914645 type IV secretion system protein virB8
HUZ69_RS25035 (HUZ69_24785) 22286..23173 + 888 WP_000744355 TrbG/VirB9 family P-type conjugative transfer protein virB9
HUZ69_RS25040 (HUZ69_24790) 23170..24324 + 1155 WP_015345225 type IV secretion system protein VirB10 virB10
HUZ69_RS25045 (HUZ69_24795) 24317..25348 + 1032 WP_000138004 P-type DNA transfer ATPase VirB11 virB11
HUZ69_RS25050 (HUZ69_24800) 25311..25865 + 555 WP_000616063 phospholipase D family protein -
HUZ69_RS25055 (HUZ69_24805) 25878..26360 + 483 WP_063448738 GNAT family protein -
HUZ69_RS25060 (HUZ69_24810) 26372..26566 + 195 WP_024249955 hypothetical protein -
HUZ69_RS25065 (HUZ69_24815) 26844..29753 - 2910 WP_063448733 MobF family relaxase -
HUZ69_RS25070 (HUZ69_24820) 29756..31333 - 1578 WP_001001035 type IV secretion system DNA-binding domain-containing protein virb4
HUZ69_RS25075 (HUZ69_24825) 31326..31673 - 348 WP_001139329 hypothetical protein -
HUZ69_RS25080 (HUZ69_24830) 32105..32548 + 444 WP_024249956 hypothetical protein -
HUZ69_RS25085 (HUZ69_24835) 32561..33271 + 711 WP_021544361 StbB family protein -
HUZ69_RS25090 (HUZ69_24840) 33273..33641 + 369 WP_015345231 plasmid stabilization protein StbC -
HUZ69_RS25095 (HUZ69_24845) 33846..34268 - 423 WP_021536823 hypothetical protein -
HUZ69_RS25100 (HUZ69_24850) 34975..35277 - 303 WP_057517860 TrfB-related DNA-binding protein -
HUZ69_RS25105 (HUZ69_24855) 35346..35825 - 480 WP_000168313 single-stranded DNA-binding protein -

Host bacterium

ID   5003 GenBank   NZ_CP055054
Plasmid name   SWHEFF_51|unnamed2 Incompatibility group   IncN
Plasmid size   41542 bp Coordinate of oriT [Strand]   31775..31875 [+]
Host baterium   Shigella dysenteriae strain SWHEFF_51

Cargo genes

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