Detailed information of oriT

oriT

The information of the oriT region


oriTDB ID   102722
Name   oriT_FWSEC0623|unnamed1 in_silico
Organism   Escherichia coli strain FWSEC0623
Sequence Completeness      -
NCBI accession of oriT (coordinates [strand])   NZ_RRTN01000175 (14588..14940 [+], 353 nt)
oriT length   353 nt
IRs (inverted repeats)      192..198, 206..212  (TATAAAA..TTTTATA)
 197..202, 204..209  (AAAATA..TATTTT)
 186..192, 196..202  (TATTTTT..AAAAATA)
 104..110, 118..124  (TTTAAAT..ATTTAAA)
 106..111, 113..118  (TAAATC..GATTTA)
 93..98, 106..111  (GATTTA..TAAATC)
 40..47, 50..57  (GCAAAAAC..GTTTTTGC)
 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: 353 nt

>oriT_FWSEC0623|unnamed1
AGGTTGGTGGTTCTCACCACCAAAAGCACCACACCCCACGCAAAAACAAGTTTTTGCTGATTTGCGTTTAATATCATTGAGTTGTATTTGTGGATTTATATTGTTTAAATCTGATTTATTTAAAGCAGCGTCGTTAACGCAGCTACAGCAACGCGCCGACACCGCTTTGTAGGGGTGGTACTAACTATTTTTATAAAAAATATTATTTTATATTAGGGGGGGCTGCTAGCGGCGCGGTGTATTTTTTTATAGGATACCGCCAGGGGCGCTGCTAGCGGTGCGTCCCTGCTTGCATTATGAACTCTAGTGTTTCGAAATTAACTTTATTTTATGTTCAAAAAAGGTAATCTCTA

Visualization of oriT structure

  oriT secondary structure

Predicted by RNAfold.

Download structure file


Relaxase

ID   2003 GenBank   WP_047662558
Name   traI_C9343_RS25935_FWSEC0623|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: 191924.72 Da        Isoelectric Point: 5.8503

>WP_047662558.1 conjugative transfer relaxase/helicase TraI [Escherichia coli]
MMSIAQVRSAGSAGNYYTDKDNYYVLGSMGERWAGRGAEQLGLQGSVDKDVFTRLLEGKLPDGADLSRMQ
DGSNRHRPGYDLTFSAPKSVSMMAMPGGDKRLIDAHNQAVDFAVCQVEALASTRVMTDGQSETVLTGNLV
MALFNHDTSRDQEPQLHTHAVVANVTQHNGEWKTLSSDKVGKTGFIENVYANQIAFGRLYREKLKEQVEA
LGYETEVVGKHGMWEMPGVPVEAFSGRSQAIREAVGEDASLKSRDVAALDTRKSKQHVDPEVRMAEWMQT
LKETGFDIRAYRDAADQRAESRMQTPGPASQDGPDVQQAVTQAIAGLSERKVQFTYTDVLARTVGILPPE
NGVIERARAGIDEAISREQLIPLDREKGLFTSGIHVLDELSVRALSRDIMKQNRVTVHPEKSVPRTTGYS
DAVSVLAQDRPSLAIVSGQGGAAGQRERVAELAMMAREQGREVQIIAADRRSQMNLKQDERLSGELITGR
RQLLEGMAFTPGSTVIVDQGEKLSLKETLTLLDGAARHNVQVLISDSGQRTGTGSALMAMKDAGVNTYRW
QGGEQRPATIISEPDRNVRYARLAGDFAASVKAGEESVAQVSGVREQAILTQAIRSELKTQGVLGHPEVT
MTALSPVWLDSRSRYLRDMYRPGMVMEQWNPETRSHDRYVIDRVTAQSHSLTLRDAQGETQVVRISSLDS
SWSLFRPEKIPVAEGERLRVTGKIPGLRISGGDRLQVASVSEDAMTVVVPGRAEPASLPVGYSPFTALKL
ESGWVETPGHSVSDSATVFASVTQMAMDNATLNGLARSGRDVRLYSSLDETRTAEKLARHPSFTVVSEQI
KARAGETLLETAISLQKAGLHTPAQQAIHLALPVVESKNLAFSQVDLLTEAKSFAAEGTRFTDLGREINA
QIKRGDLLYVDVAKGYGTGLLVSRASYEAEKSILRHILEGKEAVTPLMERVPGELMEKLTSGQRAATRMI
LETIDRFTVVQGYAGVGKTTQFRAVMSAVNMLPESERPRVVGLGPTHRAVGEMRSAGVDAQTLASFLHDT
QLQQRSGETPDFSNTLFLLDESSMVGNTDMARAYALIAAGGGRAVASGDTDQLQAIAPGQPFRLQQTRSA
ADVAIMKEIVRQTPELREAVYSLINRDVERALSGLESVKPSQVPRQEGAWAPEHSVTEFSHSQEAKLAEA
QQKAMLKGEAFPDVPMTLYEAIVRDYTGRTPEAREQTLIVTHLNEDRRVLNSMIHDAREKAGELGKEQVM
VPVLNTANIRDGELRRLSTWENNPDALVLVDNVYHRIAGISRDDGLIILQDAEGNTRLISPREAVAEGVT
LYTPDKIRVGTGDRMRFTKSDRERGYVANSVWTVMAVSGDSVTLSDGQQTRVIRPGQERAEQHIDLAYAI
TAHGAQGASETFAIALEGTEGGRKQMAGFESAYVALSRMKQHVQVYTDNCQGWTDAINNAVQKGTAHDVL
EPKPDREVMNAERLFSTARELRDVAAGRAVLRQAGLAGGDSPARFIAPGRKYPQPYVALPAFDRNGRSAG
IWLNPLTTDDGNGLRGFSGEGRVKGSGDAQFVALQGSRNGESLLADNMQDGVRIARDNPDSGVVVRIAGE
GRPWNPGAITGGRVWGDIPGNSVQPGGGNGEPVTAEVLAQRQAEEAIRRETERRADEIVRKMAEEKPDQP
DDKTEQAVRDIAGQERDRAVTSEREAVLPESVLREPQRVQDAVREVARENLLQERLQQMERDMVRDLQKE
KTLGGD

  Protein domains


Predicted by InterproScan.

TrwC relaxase (TrwC)

(10-283)

DNA helicase TraI (TraI_C)

(1434-1557)

AAA domain (AAA_30)

(969-1156)

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

(633-712)

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

(575-626)


  Protein structure



No available structure.




Auxiliary protein

ID   815 GenBank   WP_001151539
Name   WP_001151539_FWSEC0623|unnamed1 insolico UniProt ID   A0A0B1KNX7
Length   125 a.a. PDB ID   _
Note   Predicted by oriTfinder 2.0

  Auxiliary protein sequence


Download         Length: 125 a.a.        Molecular weight: 14339.42 Da        Isoelectric Point: 5.3221

>WP_001151539.1 MULTISPECIES: conjugal transfer relaxosome DNA-binding protein TraM [Escherichia]
MAKVNLYISNDAYEKINVIIEKRRQEGAREKDVSFSATASMLLELGLRVYEAQMERKESAFNQIEFNKLL
LECVVKTQSSVAKILGIESLSPHVSGNPKFEYANMVEDIREKVSSEMERFFPKND

  Protein domains


Predicted by InterproScan.

TraM protein, DNA-binding (Tra_M)

(1-124)


  Protein structure


Source ID Structure
AlphaFold DB A0A0B1KNX7


T4CP

ID   1646 GenBank   WP_047088906
Name   traC_C9343_RS25805_FWSEC0623|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: 99295.98 Da        Isoelectric Point: 5.9660

>WP_047088906.1 type IV secretion system protein TraC [Escherichia coli]
MNNPLEAVTQAVNSLLTALKLPDESAKANEVLGEMSFPQFSRLLPYRDYNQESGLFMNDTTMGFMLEAIP
INGANESIVEALDHMLRTKLPRGIPLCIHLMSSQLVGDRIEYGLREFSWSGEQAERFNAITRAYYMKAAA
TQFPLPEGMNLPLTLRHYRVFISYCSPSKKKSRADILEMENLVKIIRASLQGASITTQTVDAQAFIDIVG
EMINHNPDSLYPKRRQLDPYSDLNYQCVEDSFDLKVRADYLTLGLRENGRNSTARILNFHLARNPEIAFL
WNMADNYSNLLNPELSISCPFILTLTLVVEDQVKTHSEANLKYMDLEKKSKTSYAKWFPSVEKEAKEWGE
LRQRLGSGQSSVVSYFLNITAFCKDNNETALEVEQDILNSFRKNGFELISPRFNHMRNFLTCLPFMAGKG
LFKQLKEAGVVQRAESFNVANLMPLVADNPLTPAGLLAPTYRNQLAFIDIFFRGMNNTNYNMAVCGTSGA
GKTGLIQPLIRSVLDSGGFAVVFDMGDGYKSLCENMGGVYLDGETLRFNPFANITDIDQSAERVRDQLSV
MASPNGNLDEVHEGLLLQAVRASWLAKENRARIDDVVDFLKNASDSEQYAESPTIRSRLDEMIVLLDQYT
ANGTYGRYFNSDEPSLRDDARMVVLELGGLEDRPSLLVAVMFSLIIYIENRMYRTPRNFKKLNVIDEGWR
LLDFKNHKVGEFIEKGYRTARRHTGAYITITQNIVDFDSDKASSAARAAWGNSSYKIILKQSAKEFAKYN
QLYPDQFLPLQRDMIGKFGAAKDQWFSSFLLQVENHSSWHRLFVDPLSRAMYSSDGPDFEFVQQKRKEGL
SIHEAVWQLAWKKSGPEMASLEAWLEEHEKYRSVA

  Protein domains


Predicted by InterproScan.

TraG P-loop domain (P-loop_TraG)

(467-771)

TraC protein (TraC_F_IV)

(38-276)

Family of unknown function (DUF5934) (DUF5934)

(289-446)

  Protein structure



No available structure.



ID   1647 GenBank   WP_047088736
Name   traD_C9343_RS25920_FWSEC0623|unnamed1 insolico UniProt ID   _
Length   717 a.a. PDB ID   _
Note   Predicted by oriTfinder 2.0

  T4CP protein sequence


Download         Length: 717 a.a.        Molecular weight: 81410.98 Da        Isoelectric Point: 5.0486

>WP_047088736.1 MULTISPECIES: type IV conjugative transfer system coupling protein TraD [Escherichia]
MSFNAKDMTQGGQIASMRIRMFSQIANIMLYCLFIFFWILVGLVLWVKLSWQTFVNGCIYWWCTTLEGMR
DLIRSQPVYEIQYYGKTFRMNAAQVLHDKYMIWCGEQLWSAFVLATIVALVICLITFFVVSWILGRQGKQ
QSENEVTGGRQLTDNPKDVARMLKKDGKDSDIRIGDLPIIRDSEIQNFCLHGTVGAGKSEVIRRLANYAR
QRGDMVVIYDRSGEFVKSYYDPSIDKILNPLDARCAAWDLWKECLTQPDFDNTANTLIPMGTKEDPFWQG
SGRTIFAEAAYLMRNDPNRSYSKLVDTLLSIKIEKLRTFLRNSPAANLVEEKIEKTAISIRAVLTNYVKA
IRYLQGIEHNGEPFTIRDWMRGVREDQKNGWLFISSNADTHASLKPVISMWLSIAIRGLLAMGENRNRRV
WFFCDELPTLHKLPDLVEILPEARKFGGCYVFGIQSYAQLEDIYGEKAAATLFDVMNTRAFFRSPSHKIA
EFAAGEIGEKEHLKASEQYSYGADPVRDGVSTGKDMERQTLVSYSDIQSLPDLTCYVTLPGPYPAVKLSL
KYQARPKVAPEFIPRDLNPEMENRLSAVLAAREAEGRQMASLFEPDVPEVVSGENVTQGEQPQQPASSVI
NDKKSDAGVSVPAGGIEQELKMKPEEEMEQQLPPGISESGEVVDMAVYEAWQREQNPDIQQQMQRCEEVN
INVHRERGEDVEPGDDF

  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: 14017..42552

Locus tag Coordinates Strand Size (bp) Protein ID Product Description
C9343_RS25700 (C9343_25815) 9031..9817 + 787 Protein_13 plasmid SOS inhibition protein A -
C9343_RS27510 9762..9950 - 189 WP_001355331 hypothetical protein -
C9343_RS28275 9972..10121 + 150 Protein_15 plasmid maintenance protein Mok -
C9343_RS25705 (C9343_25820) 10063..10188 + 126 WP_001372321 type I toxin-antitoxin system Hok family toxin -
C9343_RS28280 10641..10813 - 173 Protein_17 hypothetical protein -
C9343_RS28285 (C9343_25830) 10883..11143 + 261 WP_000547943 hypothetical protein -
C9343_RS25720 (C9343_25835) 11237..12241 - 1005 WP_169073100 IS110 family transposase -
C9343_RS25725 (C9343_25840) 12492..12779 + 288 WP_001774287 hypothetical protein -
C9343_RS25735 (C9343_25845) 12898..13719 + 822 Protein_21 DUF932 domain-containing protein -
C9343_RS25740 (C9343_25850) 14017..14664 - 648 WP_000602508 transglycosylase SLT domain-containing protein virB1
C9343_RS25745 (C9343_25855) 14941..15318 + 378 WP_001151539 conjugal transfer relaxosome DNA-binding protein TraM -
C9343_RS25750 (C9343_25860) 15518..16165 + 648 WP_042966703 transcriptional regulator TraJ family protein -
C9343_RS25755 (C9343_25865) 16284..16511 + 228 WP_000589558 conjugal transfer relaxosome protein TraY -
C9343_RS25760 (C9343_25870) 16545..16904 + 360 WP_000340268 type IV conjugative transfer system pilin TraA -
C9343_RS25765 (C9343_25875) 16919..17230 + 312 WP_000012108 type IV conjugative transfer system protein TraL traL
C9343_RS25770 (C9343_25880) 17252..17818 + 567 WP_000399757 type IV conjugative transfer system protein TraE traE
C9343_RS25775 (C9343_25885) 17805..18533 + 729 WP_001355329 type-F conjugative transfer system secretin TraK traK
C9343_RS25780 (C9343_25890) 18533..19951 + 1419 WP_097493992 F-type conjugal transfer pilus assembly protein TraB traB
C9343_RS25785 (C9343_25895) 19941..20528 + 588 WP_047088903 conjugal transfer pilus-stabilizing protein TraP -
C9343_RS25790 (C9343_25900) 20515..20835 + 321 WP_047088904 conjugal transfer protein TrbD -
C9343_RS25795 (C9343_25905) 20832..21347 + 516 WP_047088905 type IV conjugative transfer system lipoprotein TraV traV
C9343_RS25800 (C9343_25910) 21482..21703 + 222 WP_042966711 conjugal transfer protein TraR -
C9343_RS25805 (C9343_25915) 21863..24490 + 2628 WP_047088906 type IV secretion system protein TraC virb4
C9343_RS25810 (C9343_25920) 24487..24873 + 387 WP_047088907 type-F conjugative transfer system protein TrbI -
C9343_RS25815 (C9343_25925) 24870..25502 + 633 WP_047088908 type-F conjugative transfer system protein TraW traW
C9343_RS25820 (C9343_25930) 25499..26491 + 993 WP_047088909 conjugal transfer pilus assembly protein TraU traU
C9343_RS25825 (C9343_25935) 26767..27285 + 519 WP_064236900 hypothetical protein -
C9343_RS25830 (C9343_25940) 27312..27950 + 639 WP_040091622 type-F conjugative transfer system pilin assembly protein TrbC trbC
C9343_RS25835 (C9343_25945) 27947..28327 + 381 WP_024213661 hypothetical protein -
C9343_RS25840 28316..28549 - 234 WP_169073207 hypothetical protein -
C9343_RS25845 (C9343_25950) 28562..30466 + 1905 WP_236927347 type-F conjugative transfer system mating-pair stabilization protein TraN traN
C9343_RS25850 (C9343_25955) 30480..30737 + 258 WP_040091333 conjugal transfer protein TrbE -
C9343_RS25855 (C9343_25960) 30730..31473 + 744 WP_040091331 type-F conjugative transfer system pilin assembly protein TraF traF
C9343_RS28725 (C9343_25965) 31487..31850 + 364 Protein_46 hypothetical protein -
C9343_RS25870 (C9343_25975) 32229..32510 + 282 WP_000049684 type-F conjugative transfer system pilin chaperone TraQ -
C9343_RS25875 (C9343_25980) 32497..33033 + 537 WP_040091329 type-F conjugative transfer system pilin assembly thiol-disulfide isomerase TrbB traF
C9343_RS25880 (C9343_25985) 33023..33337 + 315 WP_064236902 P-type conjugative transfer protein TrbJ -
C9343_RS25885 (C9343_25990) 33291..33683 + 393 WP_040091326 F-type conjugal transfer protein TrbF -
C9343_RS25890 (C9343_25995) 33670..35043 + 1374 WP_024212142 conjugal transfer pilus assembly protein TraH traH
C9343_RS25895 (C9343_26000) 35040..37862 + 2823 WP_047088737 conjugal transfer mating-pair stabilization protein TraG traG
C9343_RS25900 (C9343_26005) 37878..38375 + 498 WP_040090738 entry exclusion protein -
C9343_RS25905 (C9343_26010) 38407..39138 + 732 WP_040090739 conjugal transfer complement resistance protein TraT -
C9343_RS25910 (C9343_26015) 39198..39458 + 261 WP_040090733 hypothetical protein -
C9343_RS25915 (C9343_26020) 39626..40343 + 718 Protein_56 hypothetical protein -
C9343_RS25920 (C9343_26025) 40399..42552 + 2154 WP_047088736 type IV conjugative transfer system coupling protein TraD virb4
C9343_RS25925 (C9343_26030) 42561..42959 - 399 WP_040090742 type II toxin-antitoxin system VapC family toxin -
C9343_RS25930 (C9343_26035) 42959..43186 - 228 WP_000450526 toxin-antitoxin system antitoxin VapB -

Host bacterium

ID   3165 GenBank   NZ_RRTN01000175
Plasmid name   FWSEC0623|unnamed1 Incompatibility group   -
Plasmid size   51730 bp Coordinate of oriT [Strand]   14588..14940 [+]
Host baterium   Escherichia coli strain FWSEC0623

Cargo genes

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