Detailed information of oriT

oriT

The information of the oriT region


oriTDB ID   102212
Name   oriT_FWSEC0241|unnamed1 in_silico
Organism   Escherichia coli strain FWSEC0241
Sequence Completeness      -
NCBI accession of oriT (coordinates [strand])   NZ_RRIJ01000124 (8185..8534 [+], 350 nt)
oriT length   350 nt
IRs (inverted repeats)      253..260, 269..276  (ACCGCTAG..CTAGCGGT)
 190..196, 204..210  (TATAAAA..TTTTATA)
 38..45, 48..55  (GCAAAAAC..GTTTTTGC)
 2..9, 14..21  (TTGGTGGT..ACCACCAA)
Location of nic site      _
Conserved sequence flanking the
  nic site    		  _
Note   Predicted by oriTfinder 2.0

  oriT sequence  


Download         Length: 350 nt

>oriT_FWSEC0241|unnamed1
GTTGGTGGTTCTCACCACCAAAAGCACCACACCCCACGCAAAAACAAGTTTTTGCTGATTTTTCTTTATAAATAGAGTGTTATGAAAAATTAGTTTCTCTTACTCTCTTTATGATATTTAAAAAAGCGGTGTCGGCGCGGCTACAACAACGCGCCGACACCGCTTTGTAGGGGTGGTACTGACTATTTTTATAAAAAACATTATTTTATATTAGGGGTGCTGCTAGCGGCGCGGTGTGTTTTTTTATAGGATACCGCTAGGGGCGCTGCTAGCGGTGCGTCCCTGTTTGCATTATGAATTTTAGTGTTTCGAAATTAACTTTATTTTATGTTCAAAAAAGGTAATCTCTA

Visualization of oriT structure

  oriT secondary structure

Predicted by RNAfold.

Download structure file


Relaxase

ID   1710 GenBank   WP_064577599
Name   traI_C9028_RS27010_FWSEC0241|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: 192015.77 Da        Isoelectric Point: 5.8534

>WP_064577599.1 conjugative transfer relaxase/helicase TraI [Escherichia coli]
MMSIAQVRSAGSAGNYYTDKDNYYVLGSMGERWAGKGAEQLGLQGSVDKDVFTRLLEGRLPDGADLSRMQ
DGSNKHRPGYDLTFSAPKSVSMMAMLGGDKRLIDAHNQAVDFAVRQVEALASTRVMTDGQSETVLTGNLV
MALFNHDTSRDQEPQLHTHAVVANVTQYNGEWKTLSSDKVGKTGFIENVYANQIAFGRLYREKLKEQVEA
LGYETEVVGKHGMWEMPGVPVEAFSGRSQAIREAVGEDASLKSRDVAALDTRKSKQHVDPEVRMAEWMQT
LKETGFDIRAYRDAADQRAETRTQAPGAVSQEGPDVQQAVTQAIAGLSERKVQFTYTDVLARTVGILPPE
NGVIERARAGIDEAISREQLIPLDREKGLFTSGIHVLDELSVRALSRDIMKQNRVTVHPEKSVPRTAGYS
DTVSVLAQDRPSLAIVSGQGGAAGQRERVAELVMMAREQGREVQIIAADRRSQMNLKQDERLSGELITGR
RQLLEGMAFTPGSTVIVDQGEKLSLKETLTLLDGAARHNVQVLITDSGQRTGTGSALMAMKDAGVNTYRW
QGGEQRPATIISEPDRNVRYARLAGDFAASVKAGEESVAQVSGVREQAILTQAIRSELKTQGVLGHPEVT
MTALSPVWLDSRSRYLRDMYRPGMVMEQWNPETRSHDRYVIDRVTAQSHSLTLRDVQGETQVVRISSLDS
SWSLFRPEKMPVADGERLRVTGKIPGLRVSGGDRLQVASVSEDVMTVVVPGRAEPASLPVSDSPFTALKL
ENGWVETPGHSVSDSAKVFASVTQMAMDKATLNGLARSGRDVRLYSSLDETRTAEKLARHPSFTVVSEQI
KARAGETSLETAISHQKSALNTPAQQAIHLALPVVESKNLAFSHVDLLTEAKSFAAEGTSFADLGREINA
QIKRGDLLHVDVAKGYGTDLLVSRASYEAEKSILRHILEGKEAVTPLMERVPGELMEKLTSGQRAATRMI
LETPDRFTVVQGYAGVGKTTQFRAVMSAVNMLPESERPRVVGLGPTHRAVGEMRSAGVDAQTLASFLHDT
QLQQRSGETPDFSNTLFLLDESSMVGNTDMARAYALIAAGGGRAVASGDTDQLQAIAPGQPFRLQQTRSA
ADVAIMKEIVRQTPELREAVYSLINRDVERALSGLESVKPSQVPRLEGAWAPEYSVTEFSHSQEAKLAEA
QQKAMLKGEAFPDVPMTLYEAIVRDYTGRTPEAREQTLIVTHLNEDRRVLNSMIHDAREKAGELGKEQVM
VPVLNTANIRDGELRRLSTWENNPDALALVDSVYHRIAGISKDDGLITLEDAEGNTRLISPREAVAEGVT
LYTPDTIRVGTGDRMRFTKSDRERGYVANSVWTVTAVSGDSVTLSDGQQTRVIRPAREQAEQHIDLAYAI
TAHGAQGASETFAIALEGTEGGRKQMAGFESAYVALSRMKQHVQVYTDNRQGWTDAINNAVQKGTAHDVL
EPKPDREVMNAERLFSTARELRDVAAGRAVLRQAGLAGGDSPARFIAPGRKYPQPYVALPAFDRNGKSAG
IWLNPLTTDDGNGLRGFSGEGRVKGSGDAQFVALQGSRNGESLLADNMQDGVRIARDNPDSGVVVRIAGE
GRPWNPGAITGGRVWGDIPDNSVQPGAGNGEPVTAEVLAQRQAEEAIRRETERRADEIVRKMAENKPDLP
DGKTEQAVREIAAQERDRAAITEREAALPESVLRESQREREAVREIVRENLLQERLQQMERDMVRDLQKE
KTLGGD

  Protein domains


Predicted by InterproScan.

DNA helicase TraI (TraI_C)

(1434-1557)

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)

(575-626)

AAA domain (AAA_30)

(969-1156)


  Protein structure



No available structure.




Auxiliary protein

ID   669 GenBank   WP_001151524
Name   WP_001151524_FWSEC0241|unnamed1 insolico UniProt ID   A0A5W2DT22
Length   127 a.a. PDB ID   _
Note   Predicted by oriTfinder 2.0

  Auxiliary protein sequence


Download         Length: 127 a.a.        Molecular weight: 14517.48 Da        Isoelectric Point: 5.0516

>WP_001151524.1 MULTISPECIES: conjugal transfer relaxosome DNA-binding protein TraM [Gammaproteobacteria]
MAKVNLYISNDAYEKINAIIEKRRQEGAREKDVSFSATASMLLELGLRVHEAQMERKESAFNQTEFNKLL
LECVVKTQSSVAKILGIESLSPHVSGNPKFEYANMVEDIREKVSSEMERFFPKNDDE

  Protein domains


Predicted by InterproScan.

TraM protein, DNA-binding (Tra_M)

(1-126)


  Protein structure


Source ID Structure
AlphaFold DB A0A5W2DT22

ID   670 GenBank   WP_001369361
Name   WP_001369361_FWSEC0241|unnamed1 insolico UniProt ID   B7LI64
Length   133 a.a. PDB ID   _
Note   Predicted by oriTfinder 2.0

  Auxiliary protein sequence


Download         Length: 133 a.a.        Molecular weight: 15409.70 Da        Isoelectric Point: 9.9240

>WP_001369361.1 MULTISPECIES: conjugal transfer relaxosome DNA-bindin protein TraY [Gammaproteobacteria]
MLLKRFGTRSATGKMVKLKLPVDVESLLIEASNRSGRSRSFEAVIRLKDHLHRYPKFNRAGNIYGKSLVK
YLTMRLDDETNQLLIAAKNRSGWCKTDEAADRVIDHLIKFPDFYNSEIFREADKEEDITFNTL

  Protein domains


Predicted by InterproScan.

TraY domain (TraY)

(18-61)

TraY domain (TraY)

(72-119)


  Protein structure


Source ID Structure
AlphaFold DB B7LI64


T4CP

ID   1300 GenBank   WP_001064260
Name   traC_C9028_RS26915_FWSEC0241|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: 99179.80 Da        Isoelectric Point: 5.8486

>WP_001064260.1 MULTISPECIES: type IV secretion system protein TraC [Escherichia]
MNNPLEAVTQAVNSLVTALKLPDESAKANEVLGEMSFPQFSRLLPYRDYNQESGLFMNDTTMGFMLEAIP
INGANESIVEALDHMLRTKLPRGVPFCIHLMSSQLVGDRIEYGLREFSWSGEQAERFNAITRAYYMKAAA
TQFPLPEGMNLPLTLRHYRVFISYCSPSKKKSRADILEMENLVKIIRASLQGASITTQTVDAQAFIDIVG
EMINHNPDSLYPKRRQLDPYSDLNYQCVEDSFDLKVRADYLTLGLRENGRNSTARILNFHLARNPEIAFL
WNVADNYSNLLNPELSISCPFILTLTLVVEDQVKTHSEANLKYMDLEKKSKTSYAKWFPSVEKEAKEWGE
LRQRLGSGQSSVVSYFLNITAFCKDNNETALEVEQDILNSFRKNGFELISPRFNHMRNFLTCLPFMAGKG
LFKQLKEAGVVQRAESFNVANLMPLVADNPLTPAGLLAPTYRNQLAFIDIFFRGMNNTNYNMAVCGTSGA
GKTGLIQPLIRSVLDSGGFAVVFDMGDGYKSLCENMGGVYLDGETLRFNPFANITDIDQSAERVRDQLSV
MASPNGNLDEVHEGLLLQAVRASWLAKENRARIDDVVDFLKNASDSEQYAESPTIRSRLDEMIVLLDQYT
ANGTYGQYFNSDEPSLRDDAKMVVLELGGLEDRPSLLVAVMFSLIIYIENRMYRTPRNLKKLNVIDEGWR
LLDFKNHKVGEFIEKGYRTARRHTGAYITITQNIVDFDSDKASSAARAAWGNSSYKIILKQSAKEFAKYN
QLYPDQFLPLQRDMIGKFGAAKDQWFSSFLLQVENHSSWHRLFVDPLSRAMYSSDGPDFEFVQQKRKEGL
SIHEAVWQLAWKKSGPEMASLEAWLEEHEKYRSVA

  Protein domains


Predicted by InterproScan.

Family of unknown function (DUF5934) (DUF5934)

(289-446)

TraC protein (TraC_F_IV)

(38-276)

TraG P-loop domain (P-loop_TraG)

(467-771)

  Protein structure



No available structure.



ID   1301 GenBank   WP_136736736
Name   traD_C9028_RS27005_FWSEC0241|unnamed1 insolico UniProt ID   _
Length   723 a.a. PDB ID   _
Note   Predicted by oriTfinder 2.0

  T4CP protein sequence


Download         Length: 723 a.a.        Molecular weight: 82100.65 Da        Isoelectric Point: 5.1657

>WP_136736736.1 type IV conjugative transfer system coupling protein TraD [Escherichia coli]
MSFNAKDMTQGGQIASMRIRMFSQIANIMLYCLFIFFWILVGLVLWVKISWQTFVNGCIYWWCTTLEGMR
DLIKSQPVYEIQYYGKTFRMNAAQVLHDKYMIWCGEQLWSAFVLATVVALVICLITFFVVSWILGRQGKQ
QSENEVTGGRQLTDNPKDVARMLKKDGKDSDIRIGDLPIIRDSEIQNFCLHGTVGAGKSEVIRRLANYAR
QRGDMVVIYDRSGEFVKSYYDPSIDKILNPLDARCAAWDLWKECLTQPDFDNTANTLIPMGTKEDPFWQG
SGRTIFAEAAYLMRNDPNRSYSKLVDTLLSIKIEKLRTFLRNSPAANLVEEKIEKTAISIRAVLTNYVKA
IRYLQGIEHNGESFTIRDWMRGVREDQKNGWLFISSNADTHASLKPVISMWLSIAIRGLLAMGENRNRRV
WFFCDELPTLHKLPDLVEILPEARKFGGCYVFGIQSYAQLEDIYGEKAAATLFDVMNTRAFFRSPSHKIA
EFAAGEIGEKEHLKASEQYSYGADPVRDGVSTGKDMERQTLVSYSDIQSLPDLTCYVTLPGPYPAVKLSL
KYQTRPKVAPEFIPRDINPEMENRLSAVLAAREAEGRQMASLFEPEVASGEGVTQAEQPQQPQQPQQPQQ
PVSSVINDKKSDAGVSVPAGGIEQELKMKPEEEMEQQLPPGISESGEVVDMAAYEAWQQENHPDIQQQMQ
RREEVNINVHRERGEDVEPGDDF

  Protein domains


Predicted by InterproScan.

F sex factor protein N terminal (TraD_N)

(32-128)

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

(173-560)

  Protein structure



No available structure.




T4SS

T4SS were predicted by using oriTfinder2.

Region 1: 10701..33887

Locus tag Coordinates Strand Size (bp) Protein ID Product Description
C9028_RS27835 (C9028_26870) 5863..6069 + 207 WP_024167391 hypothetical protein -
C9028_RS26840 (C9028_26875) 6092..6388 + 297 WP_001272240 hypothetical protein -
C9028_RS26845 (C9028_26880) 6494..7315 + 822 WP_001234469 DUF932 domain-containing protein -
C9028_RS26850 (C9028_26885) 7612..8181 - 570 Protein_14 transglycosylase SLT domain-containing protein -
C9028_RS26855 (C9028_26890) 8535..8918 + 384 WP_001151524 conjugal transfer relaxosome DNA-binding protein TraM -
C9028_RS26860 (C9028_26895) 9105..9794 + 690 WP_000283384 conjugal transfer transcriptional regulator TraJ -
C9028_RS26865 (C9028_26900) 9893..10288 + 396 WP_001309237 conjugal transfer relaxosome DNA-bindin protein TraY -
C9028_RS26870 (C9028_26905) 10321..10686 + 366 WP_000994782 type IV conjugative transfer system pilin TraA -
C9028_RS26875 (C9028_26910) 10701..11012 + 312 WP_000012126 type IV conjugative transfer system protein TraL traL
C9028_RS26880 (C9028_26915) 11034..11600 + 567 WP_000399794 type IV conjugative transfer system protein TraE traE
C9028_RS26885 (C9028_26920) 11587..12315 + 729 WP_001230783 type-F conjugative transfer system secretin TraK traK
C9028_RS26890 (C9028_26925) 12315..13742 + 1428 WP_062898195 F-type conjugal transfer pilus assembly protein TraB traB
C9028_RS26895 (C9028_26930) 13732..14319 + 588 WP_062898196 conjugal transfer pilus-stabilizing protein TraP -
C9028_RS26900 (C9028_26935) 14306..14623 + 318 WP_024189706 conjugal transfer protein TrbD -
C9028_RS26905 (C9028_26940) 14623..15138 + 516 WP_000724020 type IV conjugative transfer system lipoprotein TraV traV
C9028_RS26910 (C9028_26945) 15273..15494 + 222 WP_001278689 conjugal transfer protein TraR -
C9028_RS26915 (C9028_26950) 15654..18281 + 2628 WP_001064260 type IV secretion system protein TraC virb4
C9028_RS26920 (C9028_26955) 18278..18664 + 387 WP_000214096 type-F conjugative transfer system protein TrbI -
C9028_RS26925 (C9028_26960) 18661..19293 + 633 WP_001203720 type-F conjugative transfer system protein TraW traW
C9028_RS26930 (C9028_26965) 19290..20282 + 993 WP_064577589 conjugal transfer pilus assembly protein TraU traU
C9028_RS26935 (C9028_26970) 20291..20929 + 639 WP_024233422 type-F conjugative transfer system pilin assembly protein TrbC trbC
C9028_RS26940 (C9028_26975) 20926..21306 + 381 WP_000174466 hypothetical protein -
C9028_RS26945 (C9028_26980) 21542..23404 + 1863 WP_249508035 type-F conjugative transfer system mating-pair stabilization protein TraN traN
C9028_RS26950 (C9028_26985) 23431..23688 + 258 WP_053264198 conjugal transfer protein TrbE -
C9028_RS26955 (C9028_26990) 23681..24424 + 744 WP_001030371 type-F conjugative transfer system pilin assembly protein TraF traF
C9028_RS26960 (C9028_26995) 24585..24821 + 237 WP_000270010 type-F conjugative transfer system pilin chaperone TraQ -
C9028_RS26965 (C9028_27000) 24808..25353 + 546 WP_064577591 type-F conjugative transfer system pilin assembly thiol-disulfide isomerase TrbB traF
C9028_RS26970 (C9028_27005) 25283..25624 + 342 WP_071849770 P-type conjugative transfer protein TrbJ -
C9028_RS26975 (C9028_27010) 25611..26003 + 393 WP_000662237 F-type conjugal transfer protein TrbF -
C9028_RS26980 (C9028_27015) 25990..27363 + 1374 WP_064577593 conjugal transfer pilus assembly protein TraH traH
C9028_RS26985 (C9028_27020) 27360..30182 + 2823 WP_064577595 conjugal transfer mating-pair stabilization protein TraG traG
C9028_RS26990 (C9028_27025) 30203..30700 + 498 WP_122998452 surface exclusion protein -
C9028_RS26995 (C9028_27030) 30732..31463 + 732 WP_024257478 conjugal transfer complement resistance protein TraT -
C9028_RS27005 (C9028_27040) 31716..33887 + 2172 WP_136736736 type IV conjugative transfer system coupling protein TraD virb4

Host bacterium

ID   2656 GenBank   NZ_RRIJ01000124
Plasmid name   FWSEC0241|unnamed1 Incompatibility group   -
Plasmid size   53026 bp Coordinate of oriT [Strand]   8185..8534 [+]
Host baterium   Escherichia coli strain FWSEC0241

Cargo genes

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