Detailed information of oriT

oriT

The information of the oriT region


oriTDB ID   100794
Name   oriT_pEC743_1 in_silico
Organism   Escherichia coli strain Ecol_743
Sequence Completeness      intact
NCBI accession of oriT (coordinates [strand])   NZ_CP015070 (79787..80236 [+], 450 nt)
oriT length   450 nt
IRs (inverted repeats)      IR1: 201..215, 222..236  (ATTCATTGGTGAATC..GATTCACCAATGAAT)
 IR2: 308..315, 318..325  (GCAAAAAC..GTTTTTGC)
Location of nic site      334..335
Conserved sequence flanking the
  nic site    		  GTAGTGTGT|GG
Note   predicted by the oriTfinder

  oriT sequence  


Download         Length: 450 nt

>oriT_pEC743_1
ATATGTATACCTCTTTATTTTCTTATCGCATCAAATTTATTTCACATATAAAAAAAAGACAATTCATCGATGAATCGAATCGTGACGCAAGTTACGAAAATTACGATTCATGCAGCAAATCACATCACGAATTGAATCTAGAGTCAATTCGCTTTAACTCGTTGTTTTATTATTACTGATTCATCTATGAGTTGTGTTAAATTCATTGGTGAATCATATGCGATTCACCAATGAATCCTTTTTATAATGTAAAATAAATTAAAATACATTATTTAAAACATAAGTTAATGATTCAAGTAGCAAATCAGCAAAAACTTGTTTTTGCGTAGTGTGTGGTGCTTTTGGTGGTGAGAACCACCAACCTGTTGAGCCTTTTTGTGGAGTGGGTTAAATTATTTACGGATAAAGTCACCAGAGGTGGAAAAATGAAAAAATGGATGTTAGCCATCT

Visualization of oriT structure

  oriT secondary structure

Predicted by RNAfold.

Download structure file


Relaxase

ID   866 GenBank   WP_001617867
Name   TraI_pEC743_1 insolico UniProt ID   _
Length   1756 a.a. PDB ID   
Note   putative relaxase

  Relaxase protein sequence


Download         Length: 1756 a.a.        Molecular weight: 191679.38 Da        Isoelectric Point: 5.8498

>WP_001617867.1 MULTISPECIES: conjugative transfer relaxase/helicase TraI [Enterobacteriaceae]
MLSFSVVKSAGSAGNYYTDKDNYYVLGSMGERWAGQGAEQLGLQGSVDKDVFTRLLEGRLPDGADLSRMQ
DGSNKHRPGYDLTFSAPKSVSMMAMLGGDKRLIDAHNQAVDFAVRQVEALASTRVMTDGQSETVLTGNLV
MALFNHDTSRDQDPQLHTHVVVANVTQHNGEWKTLSSDKVGKTGFSENVLANRIAFGKIYQSELRQRVEA
LGYETEVVGKHGMWEMPGVPVEAFSGRSQAIREAVGEDASLKSRDVAALDTRKSKQHVDPEVRMAEWMQT
LKETGFDIRAYRDAADQRAEIRTQAPGPASQDGPDVQQAVTQAIAGLSERKVQFTYTDVLARTVGILPPE
NGVIERARAGIDEAISREQLIPLDREKGLFTSGIHVLDELSVRALSRDIMKQNRVTVHPEKSVPRTAGYS
DAVSVLAQDRPSLAIVSGQGGAAGQRERVAELVMMAREQGREVQIIAADRRSQMNLKQDERLSGELITGR
RQLLEGMAFPPGSTVIVDQGEKLSLKETLTLLDGAARHNVQVLITDSGQRTGTGSALMAMKDAGVNTYRW
QGGEQRPATIISEPDRNVRYARLAGDFAASVKAGEESVAQVSGVREQAILTEAIRSELKTQGVLGHPEVT
MTALSPVWLDSRSRYLRDMYRPGMVMEQWNPETRSHDRYVIDRVTAQSHSLTLRDAQGETQVVRISSLDS
SWSLFRPEKMPVADGERLRVTGKIPGLRVSGGDRLQVASVSEDAMTVVVPGRAEPATLPVADSPFTALKL
ENGWVETPGHSVSDSATVFASVTQMAMDNATLNGLARSGRDVRLYSSLDEPRTAEKLARHPSFTVVSDQI
KARAGETLLETAISLQKAGLHTPAQQAIHLALPVLESKNLAFSMVDLLTEAKSFAAEGTGFTELGGEINA
QIKRGDLLYVDVAKGYGTGLLVSRASYEAEKSILRHILEGKEAVTPLMERVPGELMETLTSGQRAATRMI
LETSDRFTVVQGYAGVGKTTQFRAVMSAVNMLPASERPRVVGLGPTHRAVGEMRSAGVDAQTLASFLHDT
QLQQRSGETPDFSNTLFLLDESSMVGNTDMARAYALIAAGGGRAVASGDTDQLQAIAPGQPFRLQQTRSA
ADVVIMKEIVRQTPELREAVYSLINRDVERALSGLESVKPSQVPRQEGAWAPEHSVTEFSHSQEAKLAEA
QQKAMLKGEAFPDIPMTLYEAIVRDYTGRTPEAREQTLIVTHLNEDRRVLNSMIHDAREKAGELGKEQVM
VPVLNTANIRDGELRRLSTWENNPDALALVDSVYHRIAGISKDDGLITLEDAEGNTRLISPREAVAEGVT
LYTPDKIRVGTGDRMRFTKSDRERGYVANSVWTVTAVSGDSVTLSDGQQTRVIRPGQERAEQHIDLAYAI
TAHGAQGTSETFAIALEGTEGNRKLMAGFESAYVALSRMKQHVQVYTDNRQGWTDAINNAVQKGTAHDVF
EPKPDREVMNAQRLFSTARELRDVAAGRAVLRQAGLAGGDSPARFIAPGRKYPQPYVALPAFDRNGRSAG
IWLNPLTTDDGNGLRGFSGEGRVKGRGDAQFVALQGSRNGESLLADNMQDGVRIARDNPDSGVVVRIAGE
GRPWNPGAITGGRVWGDIPDSSVQPGAGNGEPVTAEVLAQRQAEEAIRRETERRADEIVRKMAENKPDLP
DGKTELAVRDIAGQERDRTASSERETALPESVLRESQREREAVREVARENLLQERLQQMERDMVRDLQKE
KTLGGD

  Protein domains


Predicted by InterproScan.

TrwC relaxase (TrwC)

(10-283)

AAA domain (AAA_30)

(968-1156)

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

(633-712)

DNA helicase TraI (TraI_C)

(1434-1557)

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

(575-626)


  Protein structure



No available structure.




T4SS

T4SS were predicted by using oriTfinder2.

Region 1: 51878..80721

Locus tag Coordinates Strand Size (bp) Protein ID Product Description
A4R39_RS24135 (A4R39_24135) 51878..54094 - 2217 WP_023356304 type IV conjugative transfer system coupling protein TraD virb4
A4R39_RS24140 (A4R39_24140) 54091..54870 - 780 WP_000199914 hypothetical protein -
A4R39_RS24145 (A4R39_24145) 55073..55804 - 732 WP_000850429 conjugal transfer complement resistance protein TraT -
A4R39_RS24150 (A4R39_24150) 55836..56333 - 498 WP_000605862 entry exclusion protein -
A4R39_RS24155 (A4R39_24155) 56352..59171 - 2820 WP_001007062 conjugal transfer mating-pair stabilization protein TraG traG
A4R39_RS24160 (A4R39_24160) 59168..60541 - 1374 WP_000944328 conjugal transfer pilus assembly protein TraH traH
A4R39_RS24165 (A4R39_24165) 60528..60920 - 393 WP_000659962 F-type conjugal transfer protein TrbF -
A4R39_RS24170 (A4R39_24170) 60901..61248 - 348 WP_071571857 P-type conjugative transfer protein TrbJ -
A4R39_RS24175 (A4R39_24175) 61178..61723 - 546 WP_000059829 type-F conjugative transfer system pilin assembly thiol-disulfide isomerase TrbB traF
A4R39_RS24180 (A4R39_24180) 61710..61994 - 285 WP_001617873 type-F conjugative transfer system pilin chaperone TraQ -
A4R39_RS24185 (A4R39_24185) 62121..62441 - 321 WP_001348757 conjugal transfer protein TrbA -
A4R39_RS24195 (A4R39_24195) 63341..64321 - 981 WP_000019450 IS5-like element ISKpn26 family transposase -
A4R39_RS24200 (A4R39_24200) 64451..65194 - 744 WP_001030401 type-F conjugative transfer system pilin assembly protein TraF traF
A4R39_RS24205 (A4R39_24205) 65187..65444 - 258 WP_000864347 conjugal transfer protein TrbE -
A4R39_RS24210 (A4R39_24210) 65471..67321 - 1851 WP_000821866 type-F conjugative transfer system mating-pair stabilization protein TraN traN
A4R39_RS24215 (A4R39_24215) 67318..67956 - 639 WP_001080259 type-F conjugative transfer system pilin assembly protein TrbC trbC
A4R39_RS24220 (A4R39_24220) 67965..68270 - 306 WP_000224413 hypothetical protein -
A4R39_RS24225 (A4R39_24225) 68300..69292 - 993 WP_000830190 conjugal transfer pilus assembly protein TraU traU
A4R39_RS24230 (A4R39_24230) 69289..69921 - 633 WP_001203727 type-F conjugative transfer system protein TraW traW
A4R39_RS24235 (A4R39_24235) 69918..70304 - 387 WP_000214084 type-F conjugative transfer system protein TrbI -
A4R39_RS24240 (A4R39_24240) 70301..72928 - 2628 WP_063131966 type IV secretion system protein TraC virb4
A4R39_RS27370 73088..73309 - 222 WP_001278694 conjugal transfer protein TraR -
A4R39_RS24245 (A4R39_24245) 73444..73959 - 516 WP_000809886 type IV conjugative transfer system lipoprotein TraV traV
A4R39_RS24250 (A4R39_24250) 73959..74270 - 312 WP_001057272 conjugal transfer protein TrbD -
A4R39_RS24255 (A4R39_24255) 74257..74823 - 567 WP_001617877 conjugal transfer pilus-stabilizing protein TraP -
A4R39_RS24260 (A4R39_24260) 74813..76264 - 1452 WP_000146687 F-type conjugal transfer pilus assembly protein TraB traB
A4R39_RS24265 (A4R39_24265) 76264..76992 - 729 WP_001230808 type-F conjugative transfer system secretin TraK traK
A4R39_RS24270 (A4R39_24270) 76979..77545 - 567 WP_000399791 type IV conjugative transfer system protein TraE traE
A4R39_RS24275 (A4R39_24275) 77567..77878 - 312 WP_000012107 type IV conjugative transfer system protein TraL traL
A4R39_RS24280 (A4R39_24280) 77883..78245 - 363 WP_000338606 type IV conjugative transfer system pilin TraA -
A4R39_RS24285 (A4R39_24285) 78279..78506 - 228 WP_001254388 conjugal transfer relaxosome protein TraY -
A4R39_RS24290 (A4R39_24290) 78594..79271 - 678 WP_001348626 PAS domain-containing protein -
A4R39_RS24295 (A4R39_24295) 79405..79788 - 384 WP_001151566 conjugal transfer relaxosome DNA-binding protein TraM -
A4R39_RS24300 (A4R39_24300) 80131..80721 + 591 WP_001376243 transglycosylase SLT domain-containing protein virB1
A4R39_RS24305 (A4R39_24305) 81018..81839 - 822 WP_001234469 DUF932 domain-containing protein -
A4R39_RS24310 (A4R39_24310) 81958..82245 - 288 WP_000107535 hypothetical protein -
A4R39_RS28110 (A4R39_24315) 82270..82476 - 207 WP_000275859 hypothetical protein -
A4R39_RS29370 82546..82719 + 174 Protein_91 hypothetical protein -
A4R39_RS29375 82717..82947 - 231 WP_001426396 hypothetical protein -
A4R39_RS24320 (A4R39_24320) 83167..83292 - 126 WP_001372321 type I toxin-antitoxin system Hok family toxin -
A4R39_RS29380 83234..83383 - 150 Protein_94 plasmid maintenance protein Mok -

Host bacterium

ID   1254 GenBank   NZ_CP015070
Plasmid name   pEC743_1 Incompatibility group   IncFIB
Plasmid size   111851 bp Coordinate of oriT [Strand]   79787..80236 [+]
Host baterium   Escherichia coli strain Ecol_743

Cargo genes

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