Detailed information of oriT

oriT

The information of the oriT region


oriTDB ID   101500
Name   oriT_p2165-3 in_silico
Organism   Escherichia coli strain GN02165
Sequence Completeness      -
NCBI accession of oriT (coordinates [strand])   NZ_JALJQH010000005 (53285..53636 [+], 352 nt)
oriT length   352 nt
IRs (inverted repeats)      255..262, 271..278  (ACCGCTAG..CTAGCGGT)
 192..198, 206..212  (TATAAAA..TTTTATA)
 40..46, 51..57  (GCAAAAA..TTTTTGC)
 4..11, 16..23  (TTGGTGGT..ACCACCAA)
Location of nic site      _
Conserved sequence flanking the
  nic site    		  _
Note   Predicted by oriTfinder 2.0

  oriT sequence  


Download         Length: 352 nt

>oriT_p2165-3
AGGTTGGTGGTTCTCACCACCAAAAGCACCACACCCCACGCAAAAACAATTTTTTGCTGATTTTTCTTTATAAATAGAGTGTTATGAAAAATTAGTTTCTCTTACTCTCTTTATGATATTTAAAAAAGCGGTGTCGGCGCGGCTACAACAACGCGCCGACACCGCTTTGTAGGGGTGGTACTGACTATTTTTATAAAAAACATCATTTTATATTAGGGGCGCTGCTAGCGGCGCGGTGTGTTTTTTTATAGGATACCGCTAGGGGCGCTGCTAGCGGTGCGTCCCTGTTTGTATTATGAATTTTAGTGTTCCGAAATTAACTTTATTTTATGTTCAAAAAAGGTAATCTCTA

Visualization of oriT structure

  oriT secondary structure

Predicted by RNAfold.

Download structure file


Auxiliary protein

ID   476 GenBank   WP_001151538
Name   WP_001151538_p2165-3 insolico UniProt ID   A0A8B3KK21
Length   127 a.a. PDB ID   _
Note   Predicted by oriTfinder 2.0

  Auxiliary protein sequence


Download         Length: 127 a.a.        Molecular weight: 14559.51 Da        Isoelectric Point: 4.8662

>WP_001151538.1 MULTISPECIES: conjugal transfer relaxosome DNA-binding protein TraM [Enterobacteriaceae]
MAKVNLYISNDAYEKINSIIEKRRQEGAREKDVSFSATASMLLELGLRVYEAQMERKESAFNQTEFNKLL
LECVVKTQSSVAKILGIESLSPHVSGNPKFEYANMVEDIREKVSSEMERFFPKNDDE

  Protein domains


Predicted by InterproScan.

TraM protein, DNA-binding (Tra_M)

(1-126)


  Protein structure


Source ID Structure
AlphaFold DB A0A8B3KK21

ID   477 GenBank   WP_001309237
Name   WP_001309237_p2165-3 insolico UniProt ID   A0A5W1N5T0
Length   131 a.a. PDB ID   _
Note   Predicted by oriTfinder 2.0

  Auxiliary protein sequence


Download         Length: 131 a.a.        Molecular weight: 15183.38 Da        Isoelectric Point: 9.9240

>WP_001309237.1 MULTISPECIES: conjugal transfer relaxosome DNA-bindin protein TraY [Gammaproteobacteria]
MKRFGTRSATGKMVKLKLPVDVESLLIEASNRSGRSRSFEAVIRLKDHLHRYPKFNRAGNIYGKSLVKYL
TMRLDDETNQLLIAAKNRSGWCKTDEAADRVIDHLIKFPDFYNSEIFREADKEEDITFNTL

  Protein domains


Predicted by InterproScan.

TraY domain (TraY)

(70-117)

TraY domain (TraY)

(16-59)


  Protein structure


Source ID Structure
AlphaFold DB A0A5W1N5T0


T4CP

ID   963 GenBank   WP_268652540
Name   traD_MWG53_RS25635_p2165-3 insolico UniProt ID   _
Length   759 a.a. PDB ID   _
Note   Predicted by oriTfinder 2.0

  T4CP protein sequence


Download         Length: 759 a.a.        Molecular weight: 86375.25 Da        Isoelectric Point: 5.2364

>WP_268652540.1 type IV conjugative transfer system coupling protein TraD [Escherichia coli]
MSFNAKDMTQGGQIASMRIRMFSQIANIMLYCLFIFFWILIGLVLWVKISWQTFINGCIYWWCTSLEGMR
DLIKSQPVYEIQYYGKTFRMNAAQVLHDKYMIWCGEQLWSAFVLASVVALVICLITFFVVSWILGHQGKQ
QSENEVTGGRQLTDNPKEVARMLKKDGKDSDIRIGDLPIIRDSEIQNFCLHGTVGAGKSEVIRRLANYAR
QRGDMVVIYDRSGEFVKSYYDPSIDKILNPLDARCAAWDLWKECLTQPDFDNTANTLIPMGTKEDPFWQG
SGRTIFAEAAYLMRNDPNRSYRKLVDTLLSIKIEKLRTFLRNSPAANLVEEKIEKTAISIRAVLTNYVKA
IRYLQGIEHNGESFTIRDWMRGVREDQKNGWLFISSNADTHASLKPVISMWLSIAIRGLLAMGENRNRRV
WFFCDELPTLHKLPDLVEILPEARKFGGCYVFGIQSYAQLEDIYGEKAAATLFDVMNTRAFFRSPSHKIA
EFAAGEIGEKEHLKASEQYSYGADPVRDGVSTGKDMERQTLVSYSDIQSLPDLTCYVTLPGPYPAVKLSL
KYQARPKVAPEFIPRDINPEMENRLSAVLAAREAEGRQMASLFEPEVASGEGVTQAEQPQQPQQPQQPQQ
PQQPQQPQQPQQPQQPQQPQQPQQPQQPQQPQQPQQPVSSVINDKKSDAGVSVPAGGIEQELKMKPEEEM
EQQLPPGISESGEVVDMAAYEAWQQENHPDIQQQMQRREEVNINVHRERGEDVEPGDDF

  Protein domains


Predicted by InterproScan.

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

(173-560)

F sex factor protein N terminal (TraD_N)

(32-128)

  Protein structure



No available structure.



ID   964 GenBank   WP_032152342
Name   traC_MWG53_RS25990_p2165-3 insolico UniProt ID   _
Length   876 a.a. PDB ID   _
Note   Predicted by oriTfinder 2.0

  T4CP protein sequence


Download         Length: 876 a.a.        Molecular weight: 99342.22 Da        Isoelectric Point: 6.7391

>WP_032152342.1 MULTISPECIES: type IV secretion system protein TraC [Enterobacteriaceae]
MSNNPLEAVTQAVNSLVTALKLPDESAKANEVLGEMSFPQFSRLLPYRDYNQESGLFMNDTTMGFMLEAI
PINGANKSIVEALDHMLRTKLPRGIPLCIHLMSSQLVGDRIEYGLREFSWSGEQAERFNAITRAYYMKAA
ATQFPLPEGMNLPLTLRHYRVFISYCSPSKKKSRADILEMENLVKIIRASFHGAKITTQTVDAQAFIEIV
GEMINHNPDSLYPKRRQLDPYSDLNYQCVEDSFDLNVRADYLTLGLRENGRNSTARILNFHLARNPEIAF
LWNMADNYSNLLNPEMSISCPFILTLTLVVEDQVKTHSEANLKYMDLEKKSKTSYAKWFPSVEKEAKEWG
ELRQRLGSGQSSVVSYFLNITAFCKDNNETALEVEQDILNSFRKNGFELISPRFNHMRNFLTCLPFMAGK
GLFKQLKEAGVVQRAESFNVANLMPLVADNPLTPAGLLAPTYRNQLAFIDIFFKGMNNTNYNMAVCGTSG
AGKTGLIQPLIRSVLDSGGFAVVFDMGDGYKSLCENMGGVYLDGETLRFNPFANITDIDQSAERVRDQLS
VMASPNGNLDEVHEGLLLQAVKASWLAKKNQARIDDVVNFLKNASDSEQYAGSPTIRSRLDEMIVLLDQY
TANGTYGRYFNSDEPSLRDDARMVVLELGGLEDRPSLLVAVMFSLIIYIENRMYRTPRTLKKLNVIDEGW
RLLDFKNRKVGEFIQKGYRTCRRHTGAYITITQNIVDFDSDKASSAARAAWGNSSYKIILKQSAKEFAKY
NQLFPDQFQPLQRDMIGKFGAAKDQWFSSFLLQVENHSSWHRLFVDPLSRAMYSSDGPDFEFVQQKRREG
LSIHEAVWQLAWKKSGPEMASLEAWLEEHEKYRSVA

  Protein domains


Predicted by InterproScan.

TraC protein (TraC_F_IV)

(39-277)

Family of unknown function (DUF5934) (DUF5934)

(291-447)

TraG P-loop domain (P-loop_TraG)

(468-764)

  Protein structure



No available structure.




T4SS

T4SS were predicted by using oriTfinder2.

Region 1: 52714..70342

Locus tag Coordinates Strand Size (bp) Protein ID Product Description
MWG53_RS25870 (MWG53_25895) 48704..49138 + 435 WP_000845953 conjugation system SOS inhibitor PsiB -
MWG53_RS25875 (MWG53_25900) 49135..49897 + 763 Protein_55 plasmid SOS inhibition protein A -
MWG53_RS25880 (MWG53_25905) 49875..50054 - 180 WP_001309233 hypothetical protein -
MWG53_RS25885 (MWG53_25910) 50076..50225 + 150 Protein_57 plasmid maintenance protein Mok -
MWG53_RS25890 (MWG53_25915) 50167..50292 + 126 WP_001372321 type I toxin-antitoxin system Hok family toxin -
MWG53_RS25895 (MWG53_25920) 50593..50890 - 298 Protein_59 hypothetical protein -
MWG53_RS25900 (MWG53_25925) 51190..51486 + 297 WP_001272251 hypothetical protein -
MWG53_RS25905 (MWG53_25930) 51596..52417 + 822 WP_001234445 DUF932 domain-containing protein -
MWG53_RS25910 (MWG53_25935) 52714..53223 - 510 WP_000759173 transglycosylase SLT domain-containing protein virB1
MWG53_RS25915 (MWG53_25940) 53637..54020 + 384 WP_001151538 conjugal transfer relaxosome DNA-binding protein TraM -
MWG53_RS25920 (MWG53_25945) 54207..54896 + 690 WP_016239105 conjugal transfer transcriptional regulator TraJ -
MWG53_RS25925 (MWG53_25950) 54995..55390 + 396 WP_001309237 conjugal transfer relaxosome DNA-bindin protein TraY -
MWG53_RS25930 (MWG53_25955) 55423..55782 + 360 WP_019842162 type IV conjugative transfer system pilin TraA -
MWG53_RS25935 (MWG53_25960) 55797..56108 + 312 WP_000012113 type IV conjugative transfer system protein TraL traL
MWG53_RS25940 (MWG53_25965) 56130..56696 + 567 WP_000399801 type IV conjugative transfer system protein TraE traE
MWG53_RS25945 (MWG53_25970) 56683..57411 + 729 WP_001230771 type-F conjugative transfer system secretin TraK traK
MWG53_RS25950 (MWG53_25975) 57411..58862 + 1452 WP_000146663 F-type conjugal transfer pilus assembly protein TraB traB
MWG53_RS25955 (MWG53_25980) 58852..59418 + 567 WP_000896598 conjugal transfer pilus-stabilizing protein TraP -
MWG53_RS25960 (MWG53_25985) 59405..59722 + 318 WP_001057297 conjugal transfer protein TrbD -
MWG53_RS25965 (MWG53_25990) 59722..60237 + 516 WP_000809872 type IV conjugative transfer system lipoprotein TraV traV
MWG53_RS25970 (MWG53_25995) 60372..60593 + 222 WP_001278695 conjugal transfer protein TraR -
MWG53_RS25975 (MWG53_26000) 60586..61063 + 478 Protein_75 hypothetical protein -
MWG53_RS25980 (MWG53_26005) 61143..61361 + 219 WP_000556745 hypothetical protein -
MWG53_RS25985 (MWG53_26010) 61389..61736 + 348 WP_000836682 hypothetical protein -
MWG53_RS25990 (MWG53_26015) 61862..64492 + 2631 WP_032152342 type IV secretion system protein TraC virb4
MWG53_RS25995 (MWG53_26020) 64489..64875 + 387 WP_000214084 type-F conjugative transfer system protein TrbI -
MWG53_RS26000 (MWG53_26025) 64872..65504 + 633 WP_001203720 type-F conjugative transfer system protein TraW traW
MWG53_RS26005 (MWG53_26030) 65501..66493 + 993 WP_000830849 conjugal transfer pilus assembly protein TraU traU
MWG53_RS26010 (MWG53_26035) 66523..66828 + 306 WP_000224418 hypothetical protein -
MWG53_RS26015 (MWG53_26040) 66837..67475 + 639 WP_001080251 type-F conjugative transfer system pilin assembly protein TrbC trbC
MWG53_RS26020 (MWG53_26045) 67472..69322 + 1851 WP_000821860 type-F conjugative transfer system mating-pair stabilization protein TraN traN
MWG53_RS26025 (MWG53_26050) 69349..69606 + 258 WP_000864329 conjugal transfer protein TrbE -
MWG53_RS26030 (MWG53_26055) 69599..70342 + 744 WP_001030371 type-F conjugative transfer system pilin assembly protein TraF traF
MWG53_RS26035 (MWG53_26060) 70356..70700 + 345 WP_000556796 conjugal transfer protein TrbA -
MWG53_RS26040 (MWG53_26065) 70819..71103 + 285 WP_000624194 type-F conjugative transfer system pilin chaperone TraQ -
MWG53_RS26045 (MWG53_26070) 71090..71657 + 568 Protein_89 type-F conjugative transfer system pilin assembly thiol-disulfide isomerase TrbB -

Host bacterium

ID   1944 GenBank   NZ_JALJQH010000005
Plasmid name   p2165-3 Incompatibility group   IncFIC
Plasmid size   71800 bp Coordinate of oriT [Strand]   53285..53636 [+]
Host baterium   Escherichia coli strain GN02165

Cargo genes

Drug resistance gene   blaTEM-1B
Virulence gene   -
Metal resistance gene   -
Degradation gene   -
Symbiosis gene   -
Anti-CRISPR   -