Detailed information of oriT

oriT

The information of the oriT region


oriTDB ID   101276
Name   oriT_FEX725|unnamed7 in_silico
Organism   Escherichia coli strain FEX725
Sequence Completeness      -
NCBI accession of oriT (coordinates [strand])   NZ_PSOV01000025 (41559..41910 [-], 352 nt)
oriT length   352 nt
IRs (inverted repeats)      255..262, 271..278  (ACCGCTAG..CTAGCGGT)
 192..198, 206..212  (TATAAAA..TTTTATA)
 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: 352 nt

>oriT_FEX725|unnamed7
AGGTTGGTGGTTCTCACCACCAAAAGCACCACACCCCACGCAAAAACAAGTTTTTGCTGATTTTTCTTTATAAATAGAGTGTTATGAAAAATTAGTTTCTCTTACTCTCTTTATGATATTTAAAAAAGCGGTGTCGGCGCGGCTACAACAACGCGCCGACACCGTTTTGTAGGGGTGGTACTGACTATTTTTATAAAAAACATTATTTTATATTAGGGGTGCTGCTAGCGGCGCGGTGTGTTTTTTTATAGGATACCGCTAGGGGCGCTGCTAGCGGTGCGTCCCTGTTTGCATTATGAATTTTAGTGTTTCGAAATTAACTTTATTTTATGTTCAAAAAAGGTAATCTCTA

Visualization of oriT structure

  oriT secondary structure

Predicted by RNAfold.

Download structure file


Relaxase

ID   1231 GenBank   WP_104274901
Name   traI_C4M78_RS25210_FEX725|unnamed7 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: 191867.61 Da        Isoelectric Point: 6.1762

>WP_104274901.1 conjugative transfer relaxase/helicase TraI [Escherichia coli]
MMSIAQVRSAGSAGNYYTDKDNYYVLGSMGERWAGRGAEQLGLQGSVDKDVFTRLLEGKLPDGADLSRMQ
DGSNKHRPGYDLTFSAPKSVSVMAMLGGDKRLIDAHNQAVDFAVRQVEALASTRVMTDGQSETVLTGNLV
MALFNHDTSRDQEPQLHTHAVVANVTQHNGEWKTLSSDKVGKTGFIENVYANQIAFGRLYREKLKEQVEA
LGYETEVVGKHGMWEMPGVPVEAFSGRSQAIREAVGEDASLKSRDVAALDTRKSKQHVDPEIRMAEWMQT
LKETGFDIRAYRDAADQRAETRTQAPGAVSQEGPDVQQAVTQAIAGLSERKVQFTYTDVLARTVGILPPE
NGVIERARAGIDEAISREQLIPLDREKGLFTSGIHVLDELSVRALSRDIMKQNRVTVHPEKSVPRTAGYS
DAVSVLAQDRPSLAIVSGQGGAAGQRERVAELVMMAREQGREVQIIAADRRSQMNLKQDERLSGELITGR
RQLLEGMAFTPGSTVIVDQGEKLSLKETLTLLDGAARHNVQVLITDSGQRTGTGSALMAMKDAGVNTYRW
QGGEQRPATIISEPDRNVRYARLAGDFAASVKAGEESVAQVSGVREQAILTQAIRSELKTQGVLGHPEVT
MTALSPVWLDSRSRYLRDMYRPGMVMEQWNPETRSHDRYVIDRVTAQSHSLTLRDAQGETQVVRISSLDS
SWSLFRPEKMPVADGERLRVTGKIPGLRVSGGDRLQVASVSEDAMTVVVPGRAEPATLPVADSPFTALKL
ENGWVETPGHSVSDSAKVFASVTQMAMDNATLNGLARSGRDVRLYSSLDETRTAEKLARHPSFTVVSEQI
KARAGETSLETAISHQKSALNTPAQQAIHLALPVVESKNLAFSHVDLLTEAKSFAAEGTSFADLGREINA
QIKRGDLLHVDVAKGYGTDLLVSRASYEAEKSILRHILEGKEAVTPLMERVPGELMEKLTSGQRAATRMI
LETPDRFTVVQGYAGVGKTTQFRAVMSAVNMLPESERPRVVGLGPTHRAVGEMRSAGVDAQTLASFLHDT
QLQQRSGETPDFSNTLFLLDESSMVGNTDMARAYALIAAGGGRAVASGDTDQLQAIAPGQPFRLQQTRSA
ADVAIMKEIVRQTPELREAVYSLINRDVERALSGLESVKPSQVPRQEGAWVPEHSVTEFSHSQEAKLAEA
QQKAMLKGEAFPDIPMTLYEAIVRDYTGRTPEAREQTLIVTHLNEDRRVLNSMIHDAREKAGELGKEQVM
VPVLNTANIRDGELRRLSTWETHRDALALVDNVYHRIAGISKDDGLITLQDAEGNTRLISPREAVAEGVT
LYTPDTIRVGTGDRMRFTKSDRERGYVANSVWTVTAVSGDSVTLSDGQQTRVIRPGQERAEQHIGLAYAI
TAHGAQGASETFAIALEGTEGNRKQMAGFESAYVALSRMKQHVQVYTDNRQGWTDAINNAVQKGTAHDVL
EPKSDREVMNAERLFSTARELRDVVAGRAVLRQAGLAGGDSPARFIAPGRKYPQPYVALPAFDRNGKSAG
IWLNPLTTDDGNGLRGFSGEGRVKGSGDAQFVALQGSRNGESLLADNMQDGVRIARDNPDSGVVVRIAGE
GRPWNPGAITGGRVWGDIPNSSVQPGAGNGEPVTAEVLAQRQAEEAIRRETERRADEIVRKMAENKPDLP
DGKTEQAVRDIAGLERDRSAISEREAALPESVLREPQRVREAVREVARENLLQERLQQMERDMVRDLQKE
KTLGGD

  Protein domains


Predicted by InterproScan.

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

(633-712)

DNA helicase TraI (TraI_C)

(1434-1557)

TrwC relaxase (TrwC)

(10-283)

AAA domain (AAA_30)

(969-1156)

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

(575-626)


  Protein structure



No available structure.




Auxiliary protein

ID   430 GenBank   WP_001309237
Name   WP_001309237_FEX725|unnamed7 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

ID   431 GenBank   WP_001151524
Name   WP_001151524_FEX725|unnamed7 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


T4CP

ID   841 GenBank   WP_104274902
Name   traD_C4M78_RS25225_FEX725|unnamed7 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: 81508.06 Da        Isoelectric Point: 5.1145

>WP_104274902.1 type IV conjugative transfer system coupling protein TraD [Escherichia coli]
MSFNAKDMTQGGQIASMRIRMFSQIANIILYCLFIFFWILVGLVLWVKISWQTFVNGCIYWWCTTLEGMR
DLIRSQPVYEIQYYGKTFRMNAAQVLHDKYMIWCGEQLWSAFVLASVVALVICLITFFVVSWILGRQGKQ
QSENEITGGRQLTDNPKEVARMLKKDGKDSDIRIGDLPIIRDSEIQNFCLHGTVGAGKSEVIRRLANYAR
QRGDMVVIYDRSGEFVKSYYDPSIDKILNPLDARCAAWDLWKECLTQPDFDNTANTLIPMGTKEDPFWQG
SGRTIFAEAAYLMRNDPNRSYSKLVDTLLSIKIEKLRTFLRNSPAANLVEEKIEKTAISIRAVLTNYVKA
IRYLQGIEHNGESFTIRDWMRGVREDQKNGWLFISSNADTHASLKPVISMWLSIAIRGLLAMGENRNRRV
WFFCDELPTLHKLPDLVEILPEARKFGGCYVFGIQSYAQLEDIYGEKAAATLFDVMNTRAFFRSPSHKIA
EFAAGEIGEKEHLKASEQYSYGADPVRDGVSTGKDMERQTLVSYSDIQSLPDLTCYVTLPGPYPAVKLSL
KYQTRPKVAPEFIPRDINPEMENRLSAVLAAREAEGREMASLFEPDVPEVVSGEDVTQAEQPQQPVSPAI
NDKKSDAGVNVSAGGIEQELKMKPEEEMEQQLPPGISESGEVVDMAVYEAWQREQNPDIQQKMQRREEVN
INVHRERGENVEPGDDF

  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.



ID   842 GenBank   WP_001064247
Name   traC_C4M78_RS25330_FEX725|unnamed7 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: 99187.86 Da        Isoelectric Point: 5.8486

>WP_001064247.1 MULTISPECIES: type IV secretion system protein TraC [Gammaproteobacteria]
MNNPLEAVTQAVNSLVTALKLPDESAKANEVLGEMSFPQFSRLLPYRDYNQESGLFMNDTTMGFMLEAIP
INGANESIVEALDHMLRTKLPRGIPLCIHLMSSQLVGDRIEYGLREFSWSGEQAERFNAITRAYYMKAAA
TQFPLPEGMNLPLTLRHYRVFISYCSPSKKKSRADILEMENLVKIIRASLQGASITTQTVDAQAFIDIVG
EMINHNPDSLYPKRRQLDPYSDLNYQCVEDSFDLKVRADYLTLGLRENGRNSTARILNFHLARNPEIAFL
WNVADNYSNLLNPELSISCPFILTLTLVVEDQVKTHSEANLKYMDLEKKSKTSYAKWFPSVEKEAKEWGE
LRQRLGSGQSSVVSYFLNITAFCKDNNETALEVEQDILNSFRKNGFELISPRFNHMRNFLTCLPFMAGKG
LFKQLKEAGVVQRAESFNVANLMPLVADNPLTPAGLLAPTYRNQLAFIDIFFRGMNNTNYNMAVCGTSGA
GKTGLIQPLIRSVLDSGGFAVVFDMGDGYKSLCENMGGVYLDGETLRFNPFANITDIDQSAERVRDQLSV
MASPNGNLDEVHEGLLLQAVRASWLAKENRARIDDVVDFLKNASDSEQYVESPTIRSRLDEMIVLLDQYT
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.




T4SS

T4SS were predicted by using oriTfinder2.

Region 1: 13500..42481

Locus tag Coordinates Strand Size (bp) Protein ID Product Description
C4M78_RS25215 (C4M78_25220) 12866..13093 + 228 WP_000450520 toxin-antitoxin system antitoxin VapB -
C4M78_RS25220 (C4M78_25225) 13093..13491 + 399 WP_000911333 tRNA(fMet)-specific endonuclease VapC -
C4M78_RS25225 (C4M78_25230) 13500..15653 - 2154 WP_104274902 type IV conjugative transfer system coupling protein TraD virb4
C4M78_RS25230 (C4M78_25235) 15906..16637 - 732 WP_000850422 conjugal transfer complement resistance protein TraT -
C4M78_RS25235 (C4M78_25240) 16651..17160 - 510 WP_000628107 conjugal transfer entry exclusion protein TraS -
C4M78_RS25240 (C4M78_25245) 17157..19982 - 2826 WP_001007037 conjugal transfer mating-pair stabilization protein TraG traG
C4M78_RS25245 (C4M78_25250) 19979..21352 - 1374 WP_000944319 conjugal transfer pilus assembly protein TraH traH
C4M78_RS29220 21339..21731 - 393 Protein_20 F-type conjugal transfer protein TrbF -
C4M78_RS25260 (C4M78_25265) 21718..22059 - 342 WP_001442101 P-type conjugative transfer protein TrbJ -
C4M78_RS25265 (C4M78_25270) 21989..22534 - 546 WP_000059833 type-F conjugative transfer system pilin assembly thiol-disulfide isomerase TrbB traF
C4M78_RS25270 (C4M78_25275) 22521..22805 - 285 WP_000624108 type-F conjugative transfer system pilin chaperone TraQ -
C4M78_RS25275 (C4M78_25280) 23008..23754 - 747 WP_001016257 IS21-like element ISEc12 family helper ATPase IstB -
C4M78_RS25280 (C4M78_25285) 23769..25310 - 1542 WP_001298859 IS21-like element ISEc12 family transposase -
C4M78_RS25285 (C4M78_25290) 25556..25831 + 276 WP_001513501 hypothetical protein -
C4M78_RS25290 (C4M78_25295) 25833..26180 - 348 WP_001287907 conjugal transfer protein TrbA -
C4M78_RS25295 (C4M78_25300) 26196..26939 - 744 WP_001030367 type-F conjugative transfer system pilin assembly protein TraF traF
C4M78_RS25300 (C4M78_25305) 26932..27189 - 258 WP_000864318 conjugal transfer protein TrbE -
C4M78_RS25305 (C4M78_25310) 27216..29024 - 1809 WP_000821847 type-F conjugative transfer system mating-pair stabilization protein TraN traN
C4M78_RS25310 (C4M78_25315) 29021..29659 - 639 WP_000777688 type-F conjugative transfer system pilin assembly protein TrbC trbC
C4M78_RS25315 (C4M78_25320) 29668..30660 - 993 WP_000830187 conjugal transfer pilus assembly protein TraU traU
C4M78_RS25320 (C4M78_25325) 30657..31289 - 633 WP_001203720 type-F conjugative transfer system protein TraW traW
C4M78_RS25325 (C4M78_25330) 31286..31672 - 387 WP_000097319 type-F conjugative transfer system protein TrbI -
C4M78_RS25330 (C4M78_25335) 31669..34296 - 2628 WP_001064247 type IV secretion system protein TraC virb4
C4M78_RS25335 (C4M78_25340) 34456..34677 - 222 WP_001278689 conjugal transfer protein TraR -
C4M78_RS25340 (C4M78_25345) 34812..35327 - 516 WP_000809841 type IV conjugative transfer system lipoprotein TraV traV
C4M78_RS25345 (C4M78_25350) 35324..35575 - 252 WP_001038342 conjugal transfer protein TrbG -
C4M78_RS25350 (C4M78_25355) 35587..35784 - 198 WP_001324648 conjugal transfer protein TrbD -
C4M78_RS25355 (C4M78_25360) 35771..36361 - 591 WP_000002792 conjugal transfer pilus-stabilizing protein TraP -
C4M78_RS25360 (C4M78_25365) 36351..37778 - 1428 WP_000146692 F-type conjugal transfer pilus assembly protein TraB traB
C4M78_RS25365 (C4M78_25370) 37778..38506 - 729 WP_001230787 type-F conjugative transfer system secretin TraK traK
C4M78_RS25370 (C4M78_25375) 38493..39059 - 567 WP_000399792 type IV conjugative transfer system protein TraE traE
C4M78_RS25375 (C4M78_25380) 39081..39392 - 312 WP_000012106 type IV conjugative transfer system protein TraL traL
C4M78_RS25380 (C4M78_25385) 39407..39772 - 366 WP_000994779 type IV conjugative transfer system pilin TraA -
C4M78_RS25385 (C4M78_25390) 39805..40200 - 396 WP_001309237 conjugal transfer relaxosome DNA-bindin protein TraY -
C4M78_RS25390 (C4M78_25395) 40299..40988 - 690 WP_000283385 conjugal transfer transcriptional regulator TraJ -
C4M78_RS25395 (C4M78_25400) 41175..41558 - 384 WP_001151524 conjugal transfer relaxosome DNA-binding protein TraM -
C4M78_RS25400 (C4M78_25405) 41879..42481 + 603 WP_000243709 transglycosylase SLT domain-containing protein virB1
C4M78_RS25405 (C4M78_25410) 42778..43599 - 822 WP_001234469 DUF932 domain-containing protein -
C4M78_RS25410 (C4M78_25415) 43720..44007 - 288 WP_000107535 hypothetical protein -
C4M78_RS25415 (C4M78_25420) 44032..44238 - 207 WP_000547939 hypothetical protein -
C4M78_RS29225 44308..44481 + 174 Protein_53 hypothetical protein -
C4M78_RS25425 (C4M78_25430) 44479..44709 - 231 WP_001426396 hypothetical protein -
C4M78_RS25430 (C4M78_25435) 44929..45054 - 126 WP_001372321 type I toxin-antitoxin system Hok family toxin -
C4M78_RS29230 44996..45145 - 150 Protein_56 plasmid maintenance protein Mok -
C4M78_RS28745 45167..45355 + 189 WP_001299721 hypothetical protein -
C4M78_RS25435 (C4M78_25440) 45324..46086 - 763 Protein_58 plasmid SOS inhibition protein A -
C4M78_RS25440 (C4M78_25445) 46083..46517 - 435 WP_000845949 conjugation system SOS inhibitor PsiB -

Host bacterium

ID   1720 GenBank   NZ_PSOV01000025
Plasmid name   FEX725|unnamed7 Incompatibility group   IncFIC
Plasmid size   54933 bp Coordinate of oriT [Strand]   41559..41910 [-]
Host baterium   Escherichia coli strain FEX725

Cargo genes

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