Detailed information of oriT

oriT

The information of the oriT region


oriTDB ID   113977
Name   oriT_pConj58k in_silico
Organism   Salmonella enterica subsp. enterica serovar Anatum strain R13.0957_pConj58k
Sequence Completeness      -
NCBI accession of oriT (coordinates [strand])   NZ_MK033500 (22590..22690 [+], 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_pConj58k
AATTAGAATAATTTGTTTTGTTTTCAAGCATTTACGATGAAAATCGTAATTGCGTATGGTGTATAGCCATTAAGGGATACCATAACACGCCTTTTTTAAGG

Visualization of oriT structure

  oriT secondary structure

Predicted by RNAfold.

Download structure file


Relaxase

ID   8975 GenBank   WP_049286431
Name   mobF_HTW65_RS00150_pConj58k insolico UniProt ID   A0A3G4RLH4
Length   969 a.a. PDB ID   
Note   Predicted by oriTfinder 2.0

  Relaxase protein sequence


Download         Length: 969 a.a.        Molecular weight: 108469.56 Da        Isoelectric Point: 9.7925

>WP_049286431.1 MULTISPECIES: MobF family relaxase [Enterobacteriaceae]
MLNITTITRQRVDKVVDYYADGADDYYAKDGNAMQWQGAGAEELGLTGEVEQKRFAKLLDGKVTDDISVM
RKTANSESKERLGYDLTFSAPKGVTLQALVNGDKRIIEAHDRAVTKAIEEAERLALGRFTVNKKTHVENT
NKLIVGKFRHETSRELDPDLHTHAFVMNLTKTSDGKWRSLTNDGIVNSLTLLGNVYKSELARELELAGYN
LRYDRNGTFDLAHFSQEQIAQFSQRSQQIEAELAKNGLSRETASHEQKNAAALKTRKSKGEVDRDVLYEG
WKNRAKELQIDFDSREWKGAANDDIARNTQPAALEKPIEYQADKVMTFAIRSLTERQSVITERELMDVAM
KHGYGRLTLDDIRAARERAITTGNLIKEEATYAAATTNKKQQNVAMTREQWVTELVKAGRNKDEARKLVD
KGITNGRLVQQKPRFTTQLAQQRERNILKMEREGRGKIQTPYTREFSEGWLASRTLKPEQLKAVMGIIHT
PNQFISVHGFAGTGKSYMTKSAADFLKEQGVHVTSLAPYGSQVKALQAEGLESRTLQSFLRASDKKIGPG
SVVFIDEAGVIPARQMEETMRVIRDAGARAVFLGDTKQTKAVEAGKPFEQLIKAGMETAYMKDIQRQKDP
ELLKAALNAAEGKIKASLTHVTSIVEEKNHDQRYRRIVGDYVTMPPTDRANALIITGTNDSRKKINAYIQ
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


Source ID Structure
AlphaFold DB A0A3G4RLH4


T4CP

ID   10413 GenBank   WP_021536815
Name   t4cp2_HTW65_RS00155_pConj58k 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: 58961.81 Da        Isoelectric Point: 9.3727

>WP_021536815.1 MULTISPECIES: type IV secretion system DNA-binding domain-containing protein [Enterobacterales]
MNEADKGKICLGALLFTPLVTWFIAAKALYGFTPKDARERLVLLIQQTFDLWPLWGALLVGEIIAIIGLI
IFFKFNHQIFKGAPFKKIYRGTRLVSQRALASITKEREPQITIADIPIPTKAEGTHISIAGATGVGKSTI
FAEMMKCCLMRGKMQRVASNKDRMIILDPDGDFLSRFYKKGDKILNPYDARTEGWVFFNEIKSDFDFERF
GVSIVPTAKDSQTEEWNGYGRLLFTEVSRKVFNTSRNPTMEEVFYWTNEVPLEELEEYVRGTKAQALFAG
SGRAVGSARFVLSNKLAAHLKMPAGNFSIREWLEDPKGGNLYITWTDEMREALKSLISCWTDSIFSIVLG
MSKSNSRKIWTFIDELESLDYLPSLRDALTKGRKKGLRVVTGYQSYSQVISIYGSDVAETLLSNHRTSVV
MAAGRLGERTLEFVSKSLGEIEGEREKTGISRRFGQLGTKNTNDDHKRERAVTPTEIATLDDLTGYIAFP
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: 4358..22148

Locus tag Coordinates Strand Size (bp) Protein ID Product Description
HTW65_RS00005 1..885 - 885 WP_063448731 replication protein RepA -
HTW65_RS00010 918..1502 - 585 WP_021544366 recombinase family protein -
HTW65_RS00015 1728..1922 + 195 WP_000468405 hypothetical protein -
HTW65_RS00020 1954..2199 + 246 WP_021536799 AbrB/MazE/SpoVT family DNA-binding domain-containing protein -
HTW65_RS00025 2240..2416 - 177 WP_172686111 hypothetical protein -
HTW65_RS00030 2458..2784 + 327 WP_016240388 endoribonuclease MazF -
HTW65_RS00035 2793..3230 + 438 WP_042041938 hypothetical protein -
HTW65_RS00040 3255..3491 - 237 WP_042041953 Hha/YmoA family nucleoid-associated regulatory protein -
HTW65_RS00045 3657..4382 - 726 WP_224132007 restriction endonuclease -
HTW65_RS00050 4358..4672 - 315 WP_110962185 hypothetical protein tfc15
HTW65_RS00055 4675..4992 - 318 WP_059324879 TrbM/KikA/MpfK family conjugal transfer protein -
HTW65_RS00060 4997..5434 - 438 WP_023187074 hypothetical protein -
HTW65_RS00065 5446..5682 - 237 WP_021536804 H-NS family nucleoid-associated regulatory protein -
HTW65_RS00070 5745..6485 + 741 WP_059324881 lytic transglycosylase domain-containing protein virB1
HTW65_RS00075 6508..6825 + 318 WP_001267114 hypothetical protein -
HTW65_RS00080 6809..7099 + 291 WP_023223518 TrbC/VirB2 family protein virB2
HTW65_RS00085 7151..7465 + 315 WP_001053888 type IV secretion system protein VirB3 virB3
HTW65_RS00090 7465..10095 + 2631 WP_042041932 VirB4 family type IV secretion/conjugal transfer ATPase virb4
HTW65_RS00095 10105..10812 + 708 WP_023187073 type IV secretion system protein virB5
HTW65_RS00100 10816..11052 + 237 WP_000733633 EexN family lipoprotein -
HTW65_RS00105 11071..12114 + 1044 WP_021536808 type IV secretion system protein virB6
HTW65_RS00110 12164..12379 + 216 WP_087871672 hypothetical protein -
HTW65_RS00115 12382..13098 + 717 WP_000914645 virB8 family protein virB8
HTW65_RS00120 13101..13988 + 888 WP_000744355 TrbG/VirB9 family P-type conjugative transfer protein virB9
HTW65_RS00125 13985..15139 + 1155 WP_001224296 type IV secretion system protein VirB10 virB10
HTW65_RS00130 15132..16163 + 1032 WP_000138004 P-type DNA transfer ATPase VirB11 virB11
HTW65_RS00135 16126..16680 + 555 WP_000616063 phospholipase D family protein -
HTW65_RS00140 16681..17175 + 495 WP_052765801 GNAT family N-acetyltransferase -
HTW65_RS00145 17187..17381 + 195 WP_110962186 hypothetical protein -
HTW65_RS00150 17659..20568 - 2910 WP_049286431 MobF family relaxase -
HTW65_RS00155 20571..22148 - 1578 WP_021536815 type IV secretion system DNA-binding domain-containing protein virb4
HTW65_RS00160 22141..22521 - 381 WP_015345229 hypothetical protein -
HTW65_RS00165 22975..23409 + 435 WP_045348531 hypothetical protein -
HTW65_RS00170 23422..24132 + 711 WP_000686338 StbB family protein -
HTW65_RS00175 24134..24502 + 369 WP_049286430 plasmid stabilization protein StbC -
HTW65_RS00180 24674..25378 - 705 WP_001067855 IS6-like element IS26 family transposase -
HTW65_RS00185 25444..25665 + 222 Protein_36 tyrosine-type recombinase/integrase -
HTW65_RS00190 25962..26519 + 558 WP_001162012 recombinase family protein -

Host bacterium

ID   14412 GenBank   NZ_MK033500
Plasmid name   pConj58k Incompatibility group   -
Plasmid size   57900 bp Coordinate of oriT [Strand]   22590..22690 [+]
Host baterium   Salmonella enterica subsp. enterica serovar Anatum strain R13.0957_pConj58k

Cargo genes

Drug resistance gene   dfrA23, sul1, blaDHA-1, qnrB4, lnu(F), aadA2
Virulence gene   -
Metal resistance gene   -
Degradation gene   -
Symbiosis gene   -
Anti-CRISPR   -