Detailed information of oriT

oriT

The information of the oriT region


oriTDB ID   116363
Name   oriT_pK118-2 in_silico
Organism   Citrobacter koseri strain K118
Sequence Completeness      -
NCBI accession of oriT (coordinates [strand])   NZ_CP136817 (31086..31186 [+], 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_pK118-2
AATTAGAATAATTTGTTTTGTTTTCAAGCATTTACGATGAAAATCGTAATTGCGTATGGTGTATAGCCGTTAAGGGATACCATACCACGCCTTTTTTAAGG

Visualization of oriT structure

  oriT secondary structure

Predicted by RNAfold.

Download structure file


Relaxase

ID   10453 GenBank   WP_000932317
Name   mobF_R1019_RS22025_pK118-2 insolico UniProt ID   A0A626R2M1
Length   969 a.a. PDB ID   
Note   Predicted by oriTfinder 2.0

  Relaxase protein sequence


Download         Length: 969 a.a.        Molecular weight: 108425.51 Da        Isoelectric Point: 9.7925

>WP_000932317.1 MULTISPECIES: MobF family relaxase [Enterobacterales]
MLNITTITRQRVDKVVDYYADGADDYYAKDGNAMQWQGAGAEELGLTGEVEQKRFAKLLDGKVTDDISVM
RKTANSESKERLGYDLTFSAPKGVTLQALVNGDKRIIEAHDRAVTKAIEEAERLALGRFTVNKKTHVENT
NKLIVGKFRHETSRELDPDLHTHAFVMNLTKTSDGKWRSLTNDGIVNSLTLLGNVYKSELARELELAGYN
LRYDRNGTFDLAHFSQEQIAQFSQRSQQIEAELAKNGLSRETASHEQKNAAALKTRKSKGEVDRDVLYEG
WKNRAKELQIDFDSREWKGAANDDIARNTQPAALEKPIEYQADKVMTFAIRSLTERQSVITERELMDVAM
KHGYGRLTLDDIRAARERAITSGNLIKEEATYAAATTNKKQQNVAMTREQWVTELVKAGRNKDEARKLVD
KGITNGRLVQQKPRFTTQLAQQRERNILKMEREGRGKIQTPYTREFSEGWLASRTLKPEQLKAVMGIIHT
PNQFISVHGFAGTGKSYMTKSAADFLKEQGVHVTSLAPYGSQVKALQAEGLESRTLQSFLRASDKKIGPG
SVVFIDEAGVIPARQMEETMRVIRDAGARAVFLGDTKQTKAVEAGKPFEQLIKAGMETAYMKDIQRQKDP
ELLKAALNAAEGKIKASLTHVTSIVEEKNHDQRYRRIVGDYVAMPPTDRANALIITGTNDSRKKINAYIQ
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 A0A626R2M1


T4CP

ID   12206 GenBank   WP_021536815
Name   t4cp2_R1019_RS22030_pK118-2 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: 12855..30644

Locus tag Coordinates Strand Size (bp) Protein ID Product Description
R1019_RS21880 (R1019_21880) 8383..8967 - 585 WP_021544366 recombinase family protein -
R1019_RS21885 (R1019_21885) 9159..9464 + 306 WP_317346530 hypothetical protein -
R1019_RS21890 (R1019_21890) 9721..9966 + 246 WP_000195442 AbrB/MazE/SpoVT family DNA-binding domain-containing protein -
R1019_RS21895 (R1019_21895) 9966..10508 + 543 WP_317346533 hypothetical protein -
R1019_RS21900 (R1019_21900) 10478..10774 + 297 WP_317346534 hypothetical protein -
R1019_RS21905 (R1019_21905) 10764..11090 + 327 WP_000817647 endoribonuclease MazF -
R1019_RS21910 (R1019_21910) 11099..11536 + 438 WP_317346536 hypothetical protein -
R1019_RS21915 (R1019_21915) 11752..11988 - 237 WP_317346545 Hha/YmoA family nucleoid-associated regulatory protein -
R1019_RS21920 (R1019_21920) 12154..12879 - 726 WP_015345246 restriction endonuclease -
R1019_RS21925 (R1019_21925) 12855..13169 - 315 WP_000851068 hypothetical protein tfc15
R1019_RS21930 (R1019_21930) 13172..13489 - 318 WP_001226231 TrbM/KikA/MpfK family conjugal transfer protein -
R1019_RS21935 (R1019_21935) 13495..13932 - 438 WP_023187074 hypothetical protein -
R1019_RS21940 (R1019_21940) 13944..14180 - 237 WP_021536804 H-NS family nucleoid-associated regulatory protein -
R1019_RS21945 (R1019_21945) 14243..14983 + 741 WP_021536805 lytic transglycosylase domain-containing protein virB1
R1019_RS21950 (R1019_21950) 15006..15323 + 318 WP_001267114 hypothetical protein -
R1019_RS21955 (R1019_21955) 15307..15597 + 291 WP_023223518 TrbC/VirB2 family protein virB2
R1019_RS21960 (R1019_21960) 15647..15961 + 315 WP_001053888 type IV secretion system protein VirB3 virB3
R1019_RS21965 (R1019_21965) 16318..18591 + 2274 WP_317346542 VirB4 family type IV secretion/conjugal transfer ATPase virb4
R1019_RS21970 (R1019_21970) 18601..19308 + 708 WP_108714636 type IV secretion system protein virB5
R1019_RS21975 (R1019_21975) 19312..19548 + 237 WP_000733633 EexN family lipoprotein -
R1019_RS21980 (R1019_21980) 19603..20610 + 1008 WP_170879277 type IV secretion system protein virB6
R1019_RS21985 (R1019_21985) 20705..20875 + 171 WP_021536809 hypothetical protein -
R1019_RS21990 (R1019_21990) 20878..21594 + 717 WP_000914645 virB8 family protein virB8
R1019_RS21995 (R1019_21995) 21597..22484 + 888 WP_000744355 TrbG/VirB9 family P-type conjugative transfer protein virB9
R1019_RS22000 (R1019_22000) 22481..23635 + 1155 WP_317346515 type IV secretion system protein VirB10 virB10
R1019_RS22005 (R1019_22005) 23628..24659 + 1032 WP_042041926 P-type DNA transfer ATPase VirB11 virB11
R1019_RS22010 (R1019_22010) 24622..25176 + 555 WP_000616063 phospholipase D family protein -
R1019_RS22015 (R1019_22015) 25177..25671 + 495 WP_112361907 GNAT family N-acetyltransferase -
R1019_RS22020 (R1019_22020) 25683..25877 + 195 WP_000529710 hypothetical protein -
R1019_RS22025 (R1019_22025) 26155..29064 - 2910 WP_000932317 MobF family relaxase -
R1019_RS22030 (R1019_22030) 29067..30644 - 1578 WP_021536815 type IV secretion system DNA-binding domain-containing protein virb4
R1019_RS22035 (R1019_22035) 30637..30984 - 348 WP_001139329 hypothetical protein -
R1019_RS22040 (R1019_22040) 31460..31894 + 435 WP_317346521 hypothetical protein -
R1019_RS22045 (R1019_22045) 31907..32617 + 711 WP_021544361 StbB family protein -
R1019_RS22050 (R1019_22050) 32619..32987 + 369 WP_015345231 plasmid stabilization protein StbC -
R1019_RS22055 (R1019_22055) 33201..33971 + 771 WP_021536818 SprT-like domain-containing protein -
R1019_RS22060 (R1019_22060) 34012..34200 - 189 WP_317346522 hypothetical protein -
R1019_RS22065 (R1019_22065) 34205..34462 - 258 WP_021536820 hypothetical protein -
R1019_RS22070 (R1019_22070) 34535..34690 - 156 WP_021536821 hypothetical protein -
R1019_RS22075 (R1019_22075) 34794..35030 - 237 WP_317346524 hypothetical protein -

Host bacterium

ID   16796 GenBank   NZ_CP136817
Plasmid name   pK118-2 Incompatibility group   -
Plasmid size   35255 bp Coordinate of oriT [Strand]   31086..31186 [+]
Host baterium   Citrobacter koseri strain K118

Cargo genes

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