Detailed information of oriT

oriT

The information of the oriT region


oriTDB ID   102081
Name   oriT_FWSEC0502|unnamed1 in_silico
Organism   Escherichia coli strain FWSEC0502
Sequence Completeness      -
NCBI accession of oriT (coordinates [strand])   NZ_RRRH01000113 (2807..2999 [+], 193 nt)
oriT length   193 nt
IRs (inverted repeats)      33..39, 47..53  (TATAAAA..TTTTATA)
Location of nic site      _
Conserved sequence flanking the
  nic site    		  _
Note   Predicted by oriTfinder 2.0

  oriT sequence  


Download         Length: 193 nt

>oriT_FWSEC0502|unnamed1
CACCGCTTTGTAGGGGTGGTACTGACTATTTTTATAAAAAACATTATTTTATATTAGGGGTGCTGCTAGCGGCGCGGTGTATTTTTTTATAGGATACCGCCAGGGGCGCAGCTAGCGGTGCGTCCCTGTTTGCATTATGAACTCTGGTGTTTCGAAATTAACTTTATTTTATGTTCAAAAAAGGTAATCTCTA

Visualization of oriT structure

  oriT secondary structure

Predicted by RNAfold.

Download structure file


Relaxase

ID   1655 GenBank   WP_136755842
Name   traI_C9273_RS24920_FWSEC0502|unnamed1 insolico UniProt ID   _
Length   1756 a.a. PDB ID   
Note   Predicted by oriTfinder 2.0

  Relaxase protein sequence


Download         Length: 1756 a.a.        Molecular weight: 191850.39 Da        Isoelectric Point: 5.6917

>WP_136755842.1 conjugative transfer relaxase/helicase TraI [Escherichia coli]
MMSIAQVRSAGSAGNYYTDKDNYYVLGSMGERWAGRGAEQLGLQGSVDKDVFTRLLEGRLPDGADLSRMQ
DGSNKHRPGYDLTFSAPKSVSMMAMLGGDKRLIDAHNQAVDFAVRQVEALASTRVMTDGQSETVLTGNLV
MALFNHDTSRDQEPQLHTHAVVANVTQHNGEWKTLSSDKVGKTGFIENVYANQIAFGRLYREKLKEQVEA
LGYETEVVGKHGMWEMPGVPVEAFSGRSQTIREAVGEDASLKSRDVAALDTRKSKQHVDPEVRMAEWMQT
LKETGFDIRAYRDAVDQRAETRTQTPGPASQDGPDVQQAVTQAIAGLSERKVQFTYTDVLARTVGILPPE
NGVIERARAGIDEAISREQLIPLDREKGLFTSGIHVLDELSVRALSRDIMKQNRVTVHPEKSVPRTTGYS
DAVSVLAQDRPSLAIVSGQGGAAGQRERVAELVMMAREQGREVQIIAADRRSQMNLKQDERLSGELITGR
RQLLEGMAFTPGSTVIVDQGEKLSLKETLTLLDGAARHNVQVLITDSGQRTGTGSALMAMKDAGVNTYRW
QGGEQRPATIISEADRNVRYARLAGDFVASVKAGEESVAQVSGVREQAILTQTIRSELKTQGVLGQREVT
MTALSPVWLDSRSRYLRDMYRPGMVMEQWNPETRSHDRYVIDRVTAQSHSLTLRDAQGETQVVRISSLDS
SWSLFRPEKMPVADGERLRVTGKIPGLRVSGGDRLQVASVSEDAMTVVVPGRAEPDSLPVSDSPFTALKL
ENGWVETPGHSVSDSATVFASVTQMAMDNATLNGLARSGRDVRLYSSLDETRTAEKLARHPSFTVVSEQI
KARAGETLLETAISLQKAGLHTPAQQAIHLALPVLESKNLAFSMVDLLTEAKSFAAEGTSFTELGGEINA
QIKRGDLLYVDVAKGYGTGLLVSRASYEAEKSILRHILEGKEAVTPLMERVPGELMETLTSGQRAATRMI
LETSDRFTVVQGYAGVGKTTQFRAVMSAVNMLPESERPRVVGLGPTHRAVGEMRSAGVDAQTLASFLHDT
QLQQRSGETPDFSNTLFLLDESSMVGNTDMARAYALIAAGGGRAVASGDTDQLQAIAPGQPFRLQQTRSA
ADVVIMKEIVRQTPELREAVYSLINRDVERALSGLESVKPSQVPRQEGAWAPEHSVTEFSHSQEAKLAEA
QQKAMLKGEAFPDVPMTLYEAIVRDYTGRTPEAREQTLIVTHLNEDRRVLNSMIHDAREKAGELGKEQVM
VPVLNTANIRDGELRRLSTWETHRDALALVDNVYHRIAGISKDDGLITLEDAEGNTRLISAREALAEGVT
LYTPDTIRVGSGDRMRFTKSDRERGYVANSVWTVMAVSGDSVTLSDGQQTRVIRPGQEQAEQHIDLAYAI
TAHGAQGASETFAIALEGTEGNRKQMAGFESAYVALSRMKQHVQVYTDNRQGWTDAISKAVQKGTAHDVL
EPGADREVMNAERLFSTARELRDVAAGRAVLRQAGLAGGDSPARFIAPGRKYPQPYVALPAFDRNGKSAG
IWLNPLTTDDGNGLRGFSGEGRVKGSGDAQFVALQGSRNGESLLADNMQDGVRIARDNPDSGVVVRIAGE
GRPWNPGAITGGRVWGDIPDNSVQPGAGNGEPVTAEVLAQRQAEEAIRRETERRADEIVRKMAQEKPDQP
DGKTEQAVRAIAGQEQDRASSSERETALPESVLREPQRVQDAVREVARENLLQERLQQMERDMVRDLQKE
KTLGGD

  Protein domains


Predicted by InterproScan.

DNA helicase TraI (TraI_C)

(1434-1557)

AAA domain (AAA_30)

(968-1156)

DNA relaxase TraI 2B/2B-like domain (TraI_2B)

(633-712)

TrwC relaxase (TrwC)

(10-283)

single-stranded DNA binding TraI N-terminal subdomain (ssDNA_TraI_N)

(575-627)


  Protein structure



No available structure.




Auxiliary protein

ID   663 GenBank   WP_001151535
Name   WP_001151535_FWSEC0502|unnamed1 insolico UniProt ID   A0A085NWE2
Length   127 a.a. PDB ID   _
Note   Predicted by oriTfinder 2.0

  Auxiliary protein sequence


Download         Length: 127 a.a.        Molecular weight: 14569.59 Da        Isoelectric Point: 4.8742

>WP_001151535.1 conjugal transfer relaxosome DNA-binding protein TraM [Escherichia coli]
MAKVNLYISNDAYEKINAIIEKRRQEGAREKDVSFSATASMLLELGLRVYEAQMERKESAFNQIEFNKLL
LECVVKTQSSVAKILGIESLSPHVSGNPKFEYANMVEDIREKVSSEMERFFPKNDEE

  Protein domains


Predicted by InterproScan.

TraM protein, DNA-binding (Tra_M)

(1-126)


  Protein structure


Source ID Structure
AlphaFold DB A0A085NWE2


T4CP

ID   1283 GenBank   WP_136755836
Name   traC_C9273_RS24775_FWSEC0502|unnamed1 insolico UniProt ID   _
Length   875 a.a. PDB ID   _
Note   Predicted by oriTfinder 2.0

  T4CP protein sequence


Download         Length: 875 a.a.        Molecular weight: 99348.98 Da        Isoelectric Point: 5.6251

>WP_136755836.1 type IV secretion system protein TraC [Escherichia coli]
MNNPLEAVTQAVNSLVTALKLPDESAKANEVLGEMSFPQFSRLLPYRDYNQESGLFMNDSTMGFMLEAIP
INGANESIVEALDHMLRTKLPRGIPLCIHLMSSQLVGDRIEYGLREFSWSGEQAERFNAITRAYYMKAAE
TLFPLPEGLNLPLTLRHYRVFISYCSPSKKKSRADILEMENLVKIIRASLQGAYITTQTVDAQAFIDIVG
EMINHNPDSLYPKRRQLDPYSDLNYQCVEDSFDLKVRADYLTLGLRENGRNSTARILNFHLARNPEIAFL
WNMADNYSNLLNPELSISCPFILTLTLVVEDQVKTHSEANLKYMDLEKKSKTSYAKWFPSVEKEAKEWGE
LRQRLGSGQSSVVSYFLNITAFCKDNNETALEVEQDILNSFRKNGFELISPRFNHMRNFLTCLPFMAGKG
LFRQLKEAGVVQRAESFNVANLMPLVADNPLTPAGLLAPTYRNQLAFIDIFFRGMNNTNYNMAVCGTSGA
GKTGLIQPLIRSVLDSGGFAVVFDMGDGYKSLCENMGGVYLDGETLRFNPFANITDIDQSAERIRDQLSV
MASPNGNLDEVHEGLLLQAVRASWLAKENRARIDDVVDFLKNASDSEQYAESPTIRSRLDEMIVLLDQYT
ANGTYGQYFNSDEPSLRDDARMVVLELGGLEDRPSLLVAVMFSLIIYIENRMYRTPRNLKKLNVIDEGWR
LLDFKNHKVGEFIEKGYRTARRHTGAYITITQNIVDFDSDKASSAARAAWGNSSYKIILKQSAKEFAKYN
QLFPDQFLPLQRDMIGKFGAAKDQWFSSFLLQVENHSSWHRLFVDPLSRAMYSSDGPDFEFVQQKRQEGL
SIHEAVWQLAWKKSGPEMASLESWLEEHEKYRSVA

  Protein domains


Predicted by InterproScan.

TraG P-loop domain (P-loop_TraG)

(467-770)

Family of unknown function (DUF5934) (DUF5934)

(289-446)

TraC protein (TraC_F_IV)

(38-276)

  Protein structure



No available structure.



ID   1284 GenBank   WP_136755841
Name   traD_C9273_RS24915_FWSEC0502|unnamed1 insolico UniProt ID   _
Length   735 a.a. PDB ID   _
Note   Predicted by oriTfinder 2.0

  T4CP protein sequence


Download         Length: 735 a.a.        Molecular weight: 83605.31 Da        Isoelectric Point: 5.0524

>WP_136755841.1 type IV conjugative transfer system coupling protein TraD [Escherichia coli]
MSFNAKDMTQGGQIASMRIRMFSQIANIMLYCLFIFFWILVGLVLWVKISWQTFINGCIYWWCTTLEGMR
DLIKSQPVYEIQYYGKTFRMNAAQVLHDKYMIWCGEQLWSAFVLATVVALVICLITFFVVSWILGRQGKQ
QSENEVTGGRQLTENPKDVARMLKKDGKDSDIRIGDLPIIRDSEIQNFCLHGTVGAGKSEVIRRLANYAR
QRGDMVVIYDRSGEFVKSYYDPSIDKILNPLDARCAAWDLWKECLTQPDFDNTANTLIPMGTKEDPFWQG
SGRTIFAEAAYLMRNDPNRSYSKLVDTLLSIKIEKLRTFLRNSPAANLVEEKIEKTAISIRAVLTNYVKA
IRYLQGIEHNGEPFTIRDWMRGVREDQKNGWLFISSNADTHASLKPVISMWLSIAIRGLLAMGENRNRRV
WFFCDELPTLHKLPDLVEILPEARKFGGCYVFGIQSYAQLEDIYGEKAAATLFDVMNTRAFFRSPSHKIA
EFAAGEIGEKEHLKASEQYSYGADPVRDGVSTGKDMERQTLISYSDIQSLPDLTCYVTLPGPYPAVKLSL
KYQARPKVAPEFIPRDINPEMENRLSAVLAAREAEGRQMASLFEPDVPEVVSGEDVTQAEQPQQPQQPQQ
PQQPQQPQQPQQPVSPAINDKKSDSGVNVPAGGIEQELKMKPEEEMEQQLPPGISESGEVVDMAAYEAWQ
QENHPDIQQQMQRREEVNINVHRERGEDVEPGDDF

  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.




T4SS

T4SS were predicted by using oriTfinder2.

Region 1: 2077..32778

Locus tag Coordinates Strand Size (bp) Protein ID Product Description
C9273_RS25425 (C9273_24745) 1..71 + 71 Protein_0 single-stranded DNA-binding protein -
C9273_RS24690 (C9273_24750) 95..397 + 303 WP_001272236 hypothetical protein -
C9273_RS24700 (C9273_24760) 554..841 + 288 WP_000107543 hypothetical protein -
C9273_RS24705 (C9273_24765) 960..1781 + 822 WP_001234499 DUF932 domain-containing protein -
C9273_RS24710 (C9273_24770) 2077..2724 - 648 WP_000602507 transglycosylase SLT domain-containing protein virB1
C9273_RS24715 (C9273_24775) 3000..3383 + 384 WP_001151535 conjugal transfer relaxosome DNA-binding protein TraM -
C9273_RS24720 (C9273_24780) 3577..4224 + 648 WP_000332526 transcriptional regulator TraJ family protein -
C9273_RS24725 (C9273_24785) 4343..4570 + 228 WP_024180943 conjugal transfer relaxosome protein TraY -
C9273_RS24730 (C9273_24790) 4605..4958 + 354 WP_136755835 type IV conjugative transfer system pilin TraA -
C9273_RS24735 (C9273_24795) 4973..5284 + 312 WP_000012099 type IV conjugative transfer system protein TraL traL
C9273_RS24740 (C9273_24800) 5306..5872 + 567 WP_000399759 type IV conjugative transfer system protein TraE traE
C9273_RS24745 (C9273_24805) 5859..6587 + 729 WP_001365587 type-F conjugative transfer system secretin TraK traK
C9273_RS24750 (C9273_24810) 6587..8017 + 1431 WP_000146622 F-type conjugal transfer pilus assembly protein TraB traB
C9273_RS24755 (C9273_24815) 8007..8594 + 588 WP_000002895 conjugal transfer pilus-stabilizing protein TraP -
C9273_RS24760 (C9273_24820) 8581..8901 + 321 WP_028985886 conjugal transfer protein TrbD -
C9273_RS24765 (C9273_24825) 8898..9413 + 516 WP_028985887 type IV conjugative transfer system lipoprotein TraV traV
C9273_RS24770 (C9273_24830) 9548..9769 + 222 WP_001278980 conjugal transfer protein TraR -
C9273_RS24775 (C9273_24835) 9929..12556 + 2628 WP_136755836 type IV secretion system protein TraC virb4
C9273_RS24780 (C9273_24840) 12553..12939 + 387 WP_000214100 type-F conjugative transfer system protein TrbI -
C9273_RS24785 (C9273_24845) 12936..13568 + 633 WP_000877293 type-F conjugative transfer system protein TraW traW
C9273_RS24790 (C9273_24850) 13565..14557 + 993 WP_000817328 conjugal transfer pilus assembly protein TraU traU
C9273_RS24795 (C9273_24855) 14571..15113 + 543 WP_001365589 hypothetical protein -
C9273_RS24805 (C9273_24865) 15841..16287 + 447 WP_001289131 hypothetical protein -
C9273_RS24810 (C9273_24870) 16343..16467 + 125 Protein_23 TraU family protein -
C9273_RS24815 (C9273_24875) 16488..16667 + 180 WP_000970212 hypothetical protein -
C9273_RS24820 (C9273_24880) 16664..16903 - 240 WP_050439339 hypothetical protein -
C9273_RS24825 (C9273_24885) 17096..17734 + 639 WP_001035176 type-F conjugative transfer system pilin assembly protein TrbC trbC
C9273_RS24830 (C9273_24890) 17731..18111 + 381 WP_032206670 hypothetical protein -
C9273_RS24835 (C9273_24895) 18205..20109 + 1905 WP_249869018 type-F conjugative transfer system mating-pair stabilization protein TraN traN
C9273_RS24840 (C9273_24900) 20123..20380 + 258 WP_135255449 conjugal transfer protein TrbE -
C9273_RS24845 (C9273_24905) 20373..21116 + 744 WP_136755837 type-F conjugative transfer system pilin assembly protein TraF traF
C9273_RS24850 (C9273_24910) 21130..21495 + 366 WP_086258348 hypothetical protein -
C9273_RS25840 21540..21623 + 84 Protein_32 hypothetical protein -
C9273_RS24855 (C9273_24915) 21627..21971 + 345 WP_032206675 conjugal transfer protein TrbA -
C9273_RS26050 (C9273_24920) 21952..22287 - 336 WP_032206676 hypothetical protein -
C9273_RS24865 (C9273_24925) 22369..22659 + 291 WP_032206677 type-F conjugative transfer system pilin chaperone TraQ -
C9273_RS24870 (C9273_24930) 22646..23191 + 546 WP_136755852 type-F conjugative transfer system pilin assembly thiol-disulfide isomerase TrbB traF
C9273_RS24875 (C9273_24935) 23121..23462 + 342 WP_136755838 P-type conjugative transfer protein TrbJ -
C9273_RS24880 (C9273_24940) 23449..23841 + 393 WP_235155630 F-type conjugal transfer protein TrbF -
C9273_RS24885 (C9273_24945) 23828..25201 + 1374 WP_032206680 conjugal transfer pilus assembly protein TraH traH
C9273_RS24890 (C9273_24950) 25198..28044 + 2847 WP_100035889 conjugal transfer mating-pair stabilization protein TraG traG
C9273_RS24895 (C9273_24955) 28041..28550 + 510 WP_136755840 conjugal transfer entry exclusion protein TraS -
C9273_RS24900 (C9273_24960) 28564..29295 + 732 WP_062871552 conjugal transfer complement resistance protein TraT -
C9273_RS24905 (C9273_24965) 29355..29615 + 261 WP_001077900 hypothetical protein -
C9273_RS24910 (C9273_24970) 29783..30520 + 738 WP_000199895 hypothetical protein -
C9273_RS24915 (C9273_24975) 30571..32778 + 2208 WP_136755841 type IV conjugative transfer system coupling protein TraD virb4

Host bacterium

ID   2525 GenBank   NZ_RRRH01000113
Plasmid name   FWSEC0502|unnamed1 Incompatibility group   IncFII
Plasmid size   67713 bp Coordinate of oriT [Strand]   2807..2999 [+]
Host baterium   Escherichia coli strain FWSEC0502

Cargo genes

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