Detailed information of oriT

oriT

The information of the oriT region


oriTDB ID   102001
Name   oriT_FWSEC0429|unnamed1 in_silico
Organism   Escherichia coli strain FWSEC0429
Sequence Completeness      -
NCBI accession of oriT (coordinates [strand])   NZ_RROY01000063 (58214..58565 [+], 352 nt)
oriT length   352 nt
IRs (inverted repeats)      255..260, 264..269  (ACCGCC..GGCGGT)
 192..198, 206..212  (TATAAAA..TTTTATA)
 124..132, 136..144  (AGCGGCGTT..AACGCCGCT)
 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: 352 nt

>oriT_FWSEC0429|unnamed1
AGGTTGGTGGTTCTCACCACCAAAAGCACCACACACTACGCAAAAACAAGTTTTTGCTGATTTGCGTTTAACATCATTGAGTTATATTTGTGGATTTATATTGTTTAAATCTGATTTATTTAAAGCGGCGTTGTTAACGCCGCTACAGCAACGCGCCGACACCGCTTTGTAGGGGTGGTACTGACTATTTTTATAAAAAACATTATTTTATATTAGGGGTGCTGCTAGCGGCGCGGTGTATTTTTTTATAGGATACCGCCAGGGGCGGTGCTAGCGGTGCGTCCCTGTTTGCATTATGAATTTTAGTGTTTCGAAATTAACTTTATTTTATGTTCAAAAAAGGTAATCTCTA

Visualization of oriT structure

  oriT secondary structure

Predicted by RNAfold.

Download structure file


Relaxase

ID   1598 GenBank   WP_062878297
Name   traI_C9204_RS24880_FWSEC0429|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: 191508.99 Da        Isoelectric Point: 5.7952

>WP_062878297.1 conjugative transfer relaxase/helicase TraI [Escherichia coli]
MLSFSVVKSAGSAGNYYTDKDNYYVLGSMGERWAGKGAEQLGLQGSVDKDVFTRLLEGKLPDGADLSRMQ
DGSNKHRPGYDLTFSAPKSVSMMAMLGGDKRLIDAHNQAVDFAVRQVEALASTRVMTDGQSETVLTGNLV
MALFNHDTSRDQDPQLHTHAVVANVTQHNGEWKTLSSDKVGKTGFSENVLANRIAFGKIYQSELRQRVEA
LGYETEVVGKHGMWEMPGVPVEAFSGRSQAIRAAVGEDASLKSRDVAALDTRKSKQHVDPEVRMAEWMQT
LKETGFDIRAYRDAADQRAETRTQTPGPASQDGPDVQQAVTQAIAGLSERKVQFTYTDVLARTVGILPPE
AGVIERARAGIDEAISREQLIPLDREKGLFTSGIHVLDELSVRALSRDIMKQNRVTVHPEKSVPRTAGYS
DAVSVLAQDRPSLAIVSGQGGAAGQRERVAELVMMAREQGREVQIIAADRRSQMNLKQDERLSGELITGR
RQLLEGMAFTPGSTVIVDQGEKLSLKETLTLLDGAARHNVQVLITDSGQRTGTGSALMAMKDAGVNTYRW
QGGEQRPATIISEPDRNVRYARLAGDFAVSVKAGEESVAQVSGVREQAILTQAIRSELKTQDVLGHQEVT
MTALSPVWLDSRSRYLRDMYRPGMVMEQWNPETRSHDRYVIDRVTAQSHSLTLRDAQGETQVVRISSLDS
SWSLFRPEKMPVADGERLRVTGKIPGLRVSGGDRLQVASVSEDAMTVVVPGRAEPATLPVADSPFTALKL
ENGWVETPGHSVSDSAKVFASVTQMAMDNATLNGLARSGRDVRLYSSLDETRTAEKLARHPSFTVVSEQI
KARAGEASLESAISHQKSALHTPAQQAIHLALPVLESKNLAFSMVDLLTEAKSFAAEGTDFTELGGEINA
QIKRGDLLYVDVAKGYGTGLLVSRASYEAEKSILRHILEGKEAVTPLMERVPGELMETLTSGQRAATRMI
LETSDRFTVVQGYAGVGKTTQFRAVMSAVNMLPESERPRVVGLGPTHRAVGEMRSAGVDAQTLASFLHDT
QLQQRSGETPDFSNTLFLLDESSMVGNTDMARAYALIAAGGGRAVASGDTDQLQAIAPGQPFRLQQTRSA
ADVAIMKEIVRQTPELREAVYSLINRDVERALSGLESVKPSQVPRQEGAWAPEHSVTEFSLSQEAKLAEA
QQKAMLKGEAFPDVPMTLYEAIVRDYTGRTPEAREQTLIVTHLNEDRRVLNSMIHDAREKAGELGKEQVM
VPVLNTANIRDGELRRLSTWENNPDALALVDSVYHRIAGISRDDGLITLEDAEGNTRLISPREAVAEGVT
LYTPDTIRVGTGDRMRFTKSDRERGYVANSVWTVTAVSGDSVTLSDGQQTRVIRPAQERAEQHIDLAYAI
TAHGAQGASETFAIALEGTEGNRKQMAGFESAYVALSRMKQHVQVYTDNRQGWTDAISKAVQKGTAHDVL
EPKPDREVMNAERLFSTARELRDVAAGRAVLRQAGLAGGDSPARFIAPGRKYPQPYVALPAFDRNGKSAG
IWLNPLTTDDGNGLRGFSGEGRVKGSGDAQFVALQGSRNGESLLADNMQDGVRIARDNPDSGVVVRIAGE
GRPWNPGAITGGRVWGDIPDNSVQPGAGNGEPVTAEVLAQRQAEEAIRRETERRADEIVRKMAQEKPDQP
DGKTEQAVRAIAGQEQDRASSSERETALPESVLRESQRVQDAVREVARENLLQERLQQMERDMVRDLQKE
KTLGGD

  Protein domains


Predicted by InterproScan.

DNA helicase TraI (TraI_C)

(1434-1557)

AAA domain (AAA_30)

(968-1156)

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

(575-627)

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

(633-712)

TrwC relaxase (TrwC)

(10-283)


  Protein structure



No available structure.




Auxiliary protein

ID   651 GenBank   WP_001585112
Name   WP_001585112_FWSEC0429|unnamed1 insolico UniProt ID   A0A8H0NT10
Length   127 a.a. PDB ID   _
Note   Predicted by oriTfinder 2.0

  Auxiliary protein sequence


Download         Length: 127 a.a.        Molecular weight: 14531.50 Da        Isoelectric Point: 5.0592

>WP_001585112.1 conjugal transfer relaxosome DNA-binding protein TraM [Escherichia coli]
MAKVNLYISNDAYEKINAIIEKRRQEGAREKDVSFSATASMLLELGLRVHEAQMERKESAFNQTEFNKLL
LECVVKTQSSVAKILGIESLSPHVSGNPKFEYANMVEDIREKVSSEMERFFPKNDEE

  Protein domains


Predicted by InterproScan.

TraM protein, DNA-binding (Tra_M)

(1-126)


  Protein structure



No available structure.




T4CP

ID   1261 GenBank   WP_024213658
Name   traC_C9204_RS24770_FWSEC0429|unnamed1 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: 99587.28 Da        Isoelectric Point: 5.8486

>WP_024213658.1 type IV secretion system protein TraC [Escherichia coli]
MSNNPLEAVTQAVNSLVTALKLPDESAKANEVLGEMSFPQFSRLLPYRDYNQESGLFMNDTTMGFMLEAI
PINGANESIVEALDHMLRTKLPRGIPLCIHLMSSQLVGERIEYGLREFSWSGEQAERFNAITRAYYMKAA
ETLFPLPEGLNLPLTLRHYRVFISYCSPSKKKSRADILEMENLVKIIRASLQGAYITTQTVDAQAFIDIV
GEMINHNPDSLYPKRRQLDPYSDLNYQCVEDSFDLKVRADYLTLGLRENGRNSTARILNFHLARNPEIAF
LWNMADNYSNLLNPELSISCPFILTLTLVVEDQVKTHSEANLKYMDLEKKSKTSYAKWFPSVEKEAKEWG
ELRQRLGSGQSSVVSYFLNITAFCKDNNETALEVEQDILNSFRKNGFELISPRFNHMRNFLTCLPFMAGK
GLFRQLKEAGVVQRAESFNVANLMPLVADNPLTPAGLLAPTYRNQLAFIDIFFRGMNNTNYNMAVCGTSG
AGKTGLIQPLIRSVLDSGGFAVVFDMGDGYKSLCENMGGVYLDGETLRFNPFANITDIDQSAERIRDQLS
VMASPNGNLDEVHEGLLLQAVRASWLTRQNRARIDDVVDFLKNARDNDQYAESPTIRSRLDEMIVLLDQY
TANGTYGQYFNSDEPSLRDDARMVVLELGGLEDRPSLLVAVMFSLIIYIENRMYRTPRNLKKLNVIDEGW
RLLDFKNHKVGEFIEKGYRTARRHTGAYITITQNIVDFDSDKASSAARAAWGNSSYKIILKQSAKEFAKY
NQLFPDQFLPLQRDMIGKFGAAKDQWFSSFLLQVENHSSWHRLFVDPLSRAMYSSDGPDFEFVQQKRQEG
LSIHEAVWQLAWKKSGPEMASLEAWLEEHEKYRSVA

  Protein domains


Predicted by InterproScan.

Family of unknown function (DUF5934) (DUF5934)

(290-447)

TraG P-loop domain (P-loop_TraG)

(469-771)

TraC protein (TraC_F_IV)

(39-277)

  Protein structure



No available structure.



ID   1262 GenBank   WP_136754226
Name   traD_C9204_RS24875_FWSEC0429|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: 83758.52 Da        Isoelectric Point: 5.1071

>WP_136754226.1 type IV conjugative transfer system coupling protein TraD [Escherichia coli]
MSFNAKDMTQGGQIASMRIRMFSQIANIMLYCLFIFFWILVGLVLWVKISWQTFVNGCIYWWCTTLEGMR
DLIRSQPVYEIQYYGKTFRMNAAQVLHDKYMIWCGEQLWSAFVLASVVALVICLITFFVVSWILGRQGKQ
QSENEVTGGRQLTDNPKDVARMLKKDGKDSDIRIGDLPIIRDSEIQNFCLHGTVGAGKSEVIRRLANYAR
QRGDMVVIYDRSGEFVKSYYDPSIDKILNPLDARCAAWDLWKECLTQPDFDNTANTLIPMGTKEDPFWQG
SGRTIFAEAAYLMRNDPNRSYSKLVDTLLSIKIEKLRTFLRNSPAANLVEEKIEKTAISIRAVLTNYVKA
IRYLQGIEHNGEPFTIRDWMRGVREDQKNGWLFISSNADTHASLKPVISMWLSIAIRGLLAMGENRNRRV
WFFCDELPTLHKLPDLVEILPEARKFGGCYVFGIQSYAQLEDIYGEKAAATLFDVMNTRAFFRSPSHKIA
EFAAGEIGEKEHLKASEQYSYGADPVRDGVSTGKDMERQTLVSYSDIQSLPDLTCYVTLPGPYPAVKLSL
KYQARPKVAPEFIPRDINPEMENRLSAVLAAREAEGRQMASLFEPEVASGEDVTQAEQPQQPQQPQQPQQ
PQQPQQPQQPQQPVFPVINDKKSDTGVNVPAGGIEQELKMKPEEEMEQQLPPGISESGEVMDMAVYEAWQ
REQNPDVQQQMQRREEVNINVHRERGEDVEPGDDF

  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: 57643..87709

Locus tag Coordinates Strand Size (bp) Protein ID Product Description
C9204_RS24625 (C9204_24660) 52931..53365 + 435 WP_024213646 conjugation system SOS inhibitor PsiB -
C9204_RS24630 (C9204_24665) 53362..54081 + 720 WP_001276237 plasmid SOS inhibition protein A -
C9204_RS24635 (C9204_24670) 54078..54392 + 315 Protein_62 theronine dehydrogenase -
C9204_RS25665 54542..54694 + 153 Protein_63 DUF5431 family protein -
C9204_RS24640 (C9204_24675) 54639..54761 + 123 WP_223200913 Hok/Gef family protein -
C9204_RS25280 (C9204_24680) 55062..55359 - 298 Protein_65 hypothetical protein -
C9204_RS24660 (C9204_24695) 55662..55964 + 303 WP_024213649 hypothetical protein -
C9204_RS24670 (C9204_24705) 56120..56407 + 288 WP_000107542 hypothetical protein -
C9204_RS24675 (C9204_24710) 56526..57347 + 822 WP_024213651 DUF932 domain-containing protein -
C9204_RS24680 (C9204_24715) 57643..58233 - 591 WP_279600944 transglycosylase SLT domain-containing protein virB1
C9204_RS24685 (C9204_24720) 58566..58949 + 384 WP_001585112 conjugal transfer relaxosome DNA-binding protein TraM -
C9204_RS24690 (C9204_24725) 59143..59790 + 648 WP_052892413 transcriptional regulator TraJ family protein -
C9204_RS24695 (C9204_24730) 59909..60136 + 228 WP_000589554 conjugal transfer relaxosome protein TraY -
C9204_RS24700 (C9204_24735) 60171..60524 + 354 WP_001098216 type IV conjugative transfer system pilin TraA -
C9204_RS24705 (C9204_24740) 60539..60850 + 312 WP_000012108 type IV conjugative transfer system protein TraL traL
C9204_RS24710 (C9204_24745) 60872..61438 + 567 WP_000399759 type IV conjugative transfer system protein TraE traE
C9204_RS24715 (C9204_24750) 61425..62153 + 729 WP_001365587 type-F conjugative transfer system secretin TraK traK
C9204_RS24720 (C9204_24755) 62153..63583 + 1431 WP_062875415 F-type conjugal transfer pilus assembly protein TraB traB
C9204_RS24725 (C9204_24760) 63573..64160 + 588 WP_000002895 conjugal transfer pilus-stabilizing protein TraP -
C9204_RS24730 (C9204_24765) 64147..64467 + 321 WP_024214338 conjugal transfer protein TrbD virb4
C9204_RS24735 (C9204_24770) 64460..64711 + 252 WP_001038336 conjugal transfer protein TrbG -
C9204_RS24740 (C9204_24775) 64708..65223 + 516 WP_024213657 type IV conjugative transfer system lipoprotein TraV traV
C9204_RS24745 (C9204_24780) 65358..65579 + 222 WP_001278977 conjugal transfer protein TraR -
C9204_RS24750 (C9204_24785) 65572..65967 + 396 WP_000549593 hypothetical protein -
C9204_RS24755 (C9204_24790) 66032..66451 + 420 WP_202831963 hypothetical protein -
C9204_RS25670 (C9204_24795) 66531..66749 + 219 WP_062855972 hypothetical protein -
C9204_RS24765 (C9204_24800) 66777..67124 + 348 WP_000836684 hypothetical protein -
C9204_RS24770 (C9204_24805) 67249..69879 + 2631 WP_024213658 type IV secretion system protein TraC virb4
C9204_RS24775 (C9204_24810) 69876..70262 + 387 WP_000214090 type-F conjugative transfer system protein TrbI -
C9204_RS24780 (C9204_24815) 70259..70891 + 633 WP_062875417 type-F conjugative transfer system protein TraW traW
C9204_RS24785 (C9204_24820) 70888..71880 + 993 WP_000817328 conjugal transfer pilus assembly protein TraU traU
C9204_RS24790 (C9204_24825) 71907..72185 + 279 WP_021573907 hypothetical protein -
C9204_RS24795 (C9204_24830) 72469..73107 + 639 WP_024213660 type-F conjugative transfer system pilin assembly protein TrbC trbC
C9204_RS24800 (C9204_24835) 73104..73484 + 381 WP_024213661 hypothetical protein -
C9204_RS24805 (C9204_24840) 73719..75623 + 1905 WP_024213662 type-F conjugative transfer system mating-pair stabilization protein TraN traN
C9204_RS24810 (C9204_24845) 75637..75894 + 258 WP_024213663 conjugal transfer protein TrbE -
C9204_RS24815 (C9204_24850) 75887..76630 + 744 WP_024213664 type-F conjugative transfer system pilin assembly protein TraF traF
C9204_RS24820 (C9204_24855) 76644..77009 + 366 WP_024213665 hypothetical protein -
C9204_RS24825 (C9204_24860) 77140..77541 + 402 WP_024213666 hypothetical protein -
C9204_RS24830 (C9204_24865) 77607..77894 + 288 WP_000335419 type-F conjugative transfer system pilin chaperone TraQ -
C9204_RS24835 (C9204_24870) 77881..78426 + 546 WP_001477377 type-F conjugative transfer system pilin assembly thiol-disulfide isomerase TrbB traF
C9204_RS24840 (C9204_24875) 78356..78703 + 348 WP_071531747 P-type conjugative transfer protein TrbJ -
C9204_RS24845 (C9204_24880) 78684..79076 + 393 WP_024213667 F-type conjugal transfer protein TrbF -
C9204_RS24850 (C9204_24885) 79063..80436 + 1374 WP_024213668 conjugal transfer pilus assembly protein TraH traH
C9204_RS24855 (C9204_24890) 80433..83255 + 2823 WP_024213669 conjugal transfer mating-pair stabilization protein TraG traG
C9204_RS24860 (C9204_24895) 83271..83774 + 504 WP_077637628 surface exclusion protein -
C9204_RS24865 (C9204_24900) 83806..84537 + 732 WP_136754229 conjugal transfer complement resistance protein TraT -
C9204_RS24870 (C9204_24905) 84741..85220 + 480 WP_001473214 hypothetical protein -
C9204_RS24875 (C9204_24910) 85502..87709 + 2208 WP_136754226 type IV conjugative transfer system coupling protein TraD virb4

Host bacterium

ID   2445 GenBank   NZ_RROY01000063
Plasmid name   FWSEC0429|unnamed1 Incompatibility group   IncFIB
Plasmid size   124032 bp Coordinate of oriT [Strand]   58214..58565 [+]
Host baterium   Escherichia coli strain FWSEC0429

Cargo genes

Drug resistance gene   -
Virulence gene   espP, hlyC, hlyA, hlyB, hlyD
Metal resistance gene   -
Degradation gene   -
Symbiosis gene   -
Anti-CRISPR   -