Detailed information of oriT

oriT

The information of the oriT region


oriTDB ID   109773
Name   oriT_MEI002|p2 in_silico
Organism   Citrobacter freundii strain MEI002
Sequence Completeness      -
NCBI accession of oriT (coordinates [strand])   NZ_CP071267 (23632..23732 [+], 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_MEI002|p2
AATTAGAATAATTTGTTTTGTTTTCAAGCATTTACGATGAAAATCGTAATTGCGTATGGTGTATAGCCATTAAGGGATACCATAACACGCCTTTTTTAAGG

Visualization of oriT structure

  oriT secondary structure

Predicted by RNAfold.

Download structure file


Relaxase

ID   6472 GenBank   WP_250351773
Name   mobF_J0G25_RS23975_MEI002|p2 insolico UniProt ID   _
Length   968 a.a. PDB ID   
Note   Predicted by oriTfinder 2.0

  Relaxase protein sequence


Download         Length: 968 a.a.        Molecular weight: 108403.46 Da        Isoelectric Point: 9.7662

>WP_250351773.1 MobF family relaxase [Citrobacter freundii]
MLNITTITRQRVDRVVDYYADGADDYYAKDGNAMQWQGAGAEELGLTGEVEQKRFAKLLDGKVTDDISVM
RKTANSESKERLGYDLTFSAPKGVTLQALVNGDKRIIEAHDRAVTKAIEEAERLALGRFTVNKKTHVENT
NKLIVGKFRHETSRELDPDLHTHAFVMNLTKTSDGKWRSLTNDGIVNSLTLLGNVYKSELARELELAGYN
LRYDRNGTFDLAHFSQEQIAQFSQRSQQIEAELAKNGLSRETASHEQKNAAALKTRKSKGEVDRDVLYEG
WKNRAKELQIDFDSREWKGAANDDIARNTQPAALEKPIEYQADKVMTFAIRSLTERQSVITERELMDVAM
KHGYGRLTLDDIRAARERAITSGNLIKEEATYAAATTNKKQQNVAMTREQWVTELVKAGRSKDEARKLVD
KGITNGRLVQQKPRFTTQLAQQRERNILKMEREGRGKIQTPYTREFSEGWLASRTLKPEQLKAVMGIIHT
PNQFISVHGFAGTGKSYMTKSAADFLKEQGVHVTSLAPYGSQVKALQAEGLESRTLQSFLRASDKKIGPG
SVVFIDEAGVIPARQMEETMRVIRDAGARAVFLGDTKQTKAVEAGKPFEQLIKAGMETAYMKDIQRQKDP
ELLKAALNAAEGKIKASLTHVTSIVEEKNHDQRYRRIVGDYVAMPPTDRANALIITGTNDSRKKINEYIQ
AELGLKGQGINYPLLNRLDTTQAQRQHSKYYEKGAVIIPERDYSNGLKRGAVYTVLDTGPGNKLTVSDGS
GDTIAFSPARFSKLSVYSVEKTELAVGDQVRITRNDAHLDLANGDRFKVKSVQSGEVLLENEKGRLVKID
ANKPMYLGLAYASTVHSAQGLTCDKVFINMDTRSLTTAKDVYYVAVTRAKHEAVIYTDDEKKLDKAASRE
GFKTAALELEQLKRYAKEQQHDTREKGRDKAEPTQDKGNARPKDKGHEKNNDDRALRL

  Protein domains


Predicted by InterproScan.

AAA domain (AAA_30)

(475-649)

TrwC relaxase (TrwC)

(14-287)

UvrD-like helicase C-terminal domain (UvrD_C_2)

(850-896)


  Protein structure



No available structure.




T4CP

ID   7096 GenBank   WP_033544596
Name   t4cp2_J0G25_RS23980_MEI002|p2 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: 58972.82 Da        Isoelectric Point: 9.4812

>WP_033544596.1 MULTISPECIES: type IV secretion system DNA-binding domain-containing protein [Enterobacteriaceae]
MNEADKGKICLGALLFTPLVTWFIAAKALYGFTPKDARERLVLLIQQTFDLWPLWGALLVGEIIAIIGLI
IFFKFNHQIFKGAPFKKIYRGTRLVSQRALASITKEREPQITIADIPIPTKAEGTHISIAGATGVGKSTI
FAEMMKCCLMRGKKQRIASNKDRMIILDPDGDFLSRFYKKGDKILNPYDARTEGWVFFNEIKSDFDFERF
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: 6497..23190

Locus tag Coordinates Strand Size (bp) Protein ID Product Description
J0G25_RS23840 (J0G25_23765) 2525..2770 + 246 WP_106684584 AbrB/MazE/SpoVT family DNA-binding domain-containing protein -
J0G25_RS23845 (J0G25_23770) 2770..3312 + 543 WP_053901031 hypothetical protein -
J0G25_RS23850 (J0G25_23775) 3282..3578 + 297 WP_226426392 hypothetical protein -
J0G25_RS23855 (J0G25_23780) 3568..3894 + 327 WP_000817647 endoribonuclease MazF -
J0G25_RS24195 4008..4409 - 402 WP_306415735 Hha/YmoA family nucleoid-associated regulatory protein -
J0G25_RS23865 (J0G25_23790) 4410..5135 - 726 WP_226426391 restriction endonuclease -
J0G25_RS23870 (J0G25_23795) 5111..5425 - 315 WP_033544579 hypothetical protein -
J0G25_RS23875 (J0G25_23800) 5429..5743 - 315 WP_033544580 TrbM/KikA/MpfK family conjugal transfer protein -
J0G25_RS23880 (J0G25_23805) 5746..6186 - 441 WP_208510164 hypothetical protein -
J0G25_RS23885 (J0G25_23810) 6201..6434 - 234 WP_033544582 H-NS histone family protein -
J0G25_RS23890 (J0G25_23815) 6497..7237 + 741 WP_077899966 lytic transglycosylase domain-containing protein virB1
J0G25_RS23895 (J0G25_23820) 7260..7577 + 318 WP_050008675 hypothetical protein -
J0G25_RS23900 (J0G25_23825) 7561..7851 + 291 WP_033544584 TrbC/VirB2 family protein virB2
J0G25_RS23905 (J0G25_23830) 7903..8217 + 315 WP_033544585 VirB3 family type IV secretion system protein virB3
J0G25_RS23910 (J0G25_23835) 8574..10847 + 2274 WP_249745183 VirB4 family type IV secretion/conjugal transfer ATPase -
J0G25_RS23915 (J0G25_23840) 10857..11564 + 708 WP_250351775 type IV secretion system protein virB5
J0G25_RS23920 (J0G25_23845) 11568..11804 + 237 WP_000733633 EexN family lipoprotein -
J0G25_RS23925 (J0G25_23850) 11823..12866 + 1044 WP_106661471 type IV secretion system protein virB6
J0G25_RS23930 (J0G25_23855) 12961..13131 + 171 WP_021536809 hypothetical protein -
J0G25_RS23935 (J0G25_23860) 13134..13850 + 717 WP_000914645 type IV secretion system protein virB8
J0G25_RS23940 (J0G25_23865) 13853..14740 + 888 WP_033544590 TrbG/VirB9 family P-type conjugative transfer protein virB9
J0G25_RS23945 (J0G25_23870) 14737..15891 + 1155 WP_050008676 type IV secretion system protein VirB10 virB10
J0G25_RS23950 (J0G25_23875) 15884..16915 + 1032 WP_053273077 P-type DNA transfer ATPase VirB11 virB11
J0G25_RS23955 (J0G25_23880) 16878..17432 + 555 WP_000616063 phospholipase D family protein -
J0G25_RS23960 (J0G25_23885) 17433..17927 + 495 WP_050008677 GNAT family protein -
J0G25_RS23965 (J0G25_23890) 17939..18133 + 195 WP_033544593 hypothetical protein -
J0G25_RS23970 (J0G25_23895) 18407..18694 - 288 WP_033544594 hypothetical protein -
J0G25_RS23975 (J0G25_23900) 18704..21610 - 2907 WP_250351773 MobF family relaxase -
J0G25_RS23980 (J0G25_23905) 21613..23190 - 1578 WP_033544596 type IV secretion system DNA-binding domain-containing protein virb4
J0G25_RS23985 (J0G25_23910) 23183..23530 - 348 WP_001139329 hypothetical protein -
J0G25_RS23990 (J0G25_23915) 24017..24442 + 426 WP_170983145 plasmid stabilization protein StbA -
J0G25_RS23995 (J0G25_23920) 24451..25167 + 717 WP_033544598 StbB family protein -
J0G25_RS24000 (J0G25_23925) 25169..25537 + 369 WP_015345231 plasmid stabilization protein StbC -
J0G25_RS24005 (J0G25_23930) 25751..26521 + 771 WP_039026342 SprT-like domain-containing protein -
J0G25_RS24010 (J0G25_23935) 26641..26796 - 156 WP_021536821 hypothetical protein -
J0G25_RS24015 (J0G25_23940) 26948..27190 - 243 WP_042036420 hypothetical protein -
J0G25_RS24020 (J0G25_23945) 27226..27513 - 288 WP_001098466 hypothetical protein -
J0G25_RS24025 (J0G25_23950) 27864..28040 - 177 WP_156649898 hypothetical protein -

Host bacterium

ID   10208 GenBank   NZ_CP071267
Plasmid name   MEI002|p2 Incompatibility group   -
Plasmid size   33463 bp Coordinate of oriT [Strand]   23632..23732 [+]
Host baterium   Citrobacter freundii strain MEI002

Cargo genes

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