Detailed information of oriT

oriT

The information of the oriT region


oriTDB ID   100354
Name   oriT_pECSF1 in_silico
Organism   Escherichia coli SE15
Sequence Completeness      intact
NCBI accession of oriT (coordinates [strand])   NC_013655 (6522..6971 [-], 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_pECSF1
ATATGTATACCTCTTTATTTTCTTATCGCATCAAATTTATTTCACATATAAAAGAATGACAATTCATCGATGAATCGAATCGTGACGCAAGTTACGAAAATTACGATTCATGCAGCAAATCACATCACGAATTGAATCTAGAGTCAATTCGCTTTAACTCGTTGTTTTATTATTACTGATTCATCTATGAGTTGCGTTAAATTCATTGGTGAATCATATGCGATTCACCAATGAATCCTTTTTATAATGTAAAATAAATTAAAATACATTATTTAAAACATAAGTTAATGATTCAAATAGCAAATCAGCAAAAACTTGTTTTTGCGTAGTGTGTGGTGCTTTTGGTGGTGAGAACCACCAACCTGTTGAGCCTTTTTGTGGAGTGGGTTAAATTATTTACGGATAAAGTCACCAGAGGTGGAAAAATGAAAAAATGGATGTTAGCCATCT

Visualization of oriT structure

  oriT secondary structure

Predicted by RNAfold.

Download structure file


Relaxase

ID   425 GenBank   WP_000948349
Name   TraI_pECSF1 insolico UniProt ID   _
Length   1756 a.a. PDB ID   
Note   putative relaxase

  Relaxase protein sequence


Download         Length: 1756 a.a.        Molecular weight: 191729.35 Da        Isoelectric Point: 5.7956

>WP_000948349.1 MULTISPECIES: conjugative transfer relaxase/helicase TraI [Enterobacteriaceae]
MLSFSVVKSAGSAGNYYTDKDNYYVLGSMGERWAGQGAEQLGLQGSVDKDVFTRLLEGRLPDGADLSRMQ
DGSNKHRPGYDLTFSAPKSVSMMAMLGGDKRLIDAHNQAVDFAVRQVEALASTRVMTDGQSETVLTGNLV
MALFNHDTSRDQDPQLHTHVVVANVTQHNGEWKTLSSDKVGKTGFSENVLANRIAFGKIYQSELRQRVEA
LGYETEVVGKHGMWEMPGVPVEAFSSRSQAIREAVGEDASLKSRDVAALDTRKSKQHVDPEIRMAEWMQT
LKETGFDIRAYRDAADQRAEIRTQAPGPASQDGPDVQQAVTQAIAGLSERKVQFTYTDVLARTVGILPPE
NGVIERARAGIDEAISREQLIPLDREKGLFTSGIHVLDELSVRALSRDIMKQNRVTVHPEKSVPRTAGYS
DAVSVLAQDRPSLAIVSGQGGAAGQRERVAELVMMAREQGREVQIIAADRRSQMNLKQDERLSGELITGR
RQLQEGMVFTPGSTVIVDQGEKLSLKETLTLLDGAARHNVQVLITDSGQRTGTGSALMAMKDAGVNTYRW
QGGEQRPATIISEPDRNVRYDRLAGDFAASVKAGEESVAQVSGVREQAILTQAIRSELKTQGVLGHPEVT
MTALSPVWLDSRSRYLRDMYRPGMVMEQWNPETRSHDRYVIDRVTAQSHSLTLRDAQGETQVVRISSLDS
SWSLFRPEKMPVADGERLRVTGKIPGLRVSGGDRLQVASVSEDAMTVVVPGRAEPATLPVADSPFTALKL
ENGWVETPGHSVSDSATVFASVTQMAMDNATLNGLARSGRDVRLYSSLDETRTAEKLARHPSFTVVSEQI
KARAGETSLETAISLQKTGLHTPAQQAIHLALPVLESKNLAFSMVDLLTEAKSFAAEGTGFTELGGEINA
QIKRGDLLYVDVAKGYGTGLLVSRASYEAEKSILRHILEGKEAVTPLMERVPGELMETLTSGQRAATRMI
LETSDRFTVVQGYAGVGKTTQFRAVMSAVNMLPASERPRVVGLGPTHRAVGEMRSAGVDAQTLASFLHDT
QLQQRSGETPDFSNTLFLLDESSMVGNTDMARAYALIAAGGGRAVASGDTDQLQAIAPGQPFRLQQTRSA
ADVVIMKEIVRQTPELREAVYSLINRDVERALSGLESVKPSQVPRQEGAWAPEHSVTEFSHSQEAKLAEA
QQKAMLKGETFPDVPMTLYEAIVRDYTGRTPEAREQTLIVTHLNEDRRVLNSMIHDAREKAGELGKEQVM
VPVLNTANIRDGELRRLSTWENNPDALALVDSVYHRIAGISKDDGLITLEDAEGNTRLISPREAVAEGVT
LYTPDKIRVGTGDRMRFTKSDRERGYVANSVWTVTAVSGDSVTLSDGQQTRVIRPGQERAEQHIDLAYAI
TAHGAQGASETFAIALEGTEGNRKLMAGFESAYVALSRMKQHVQVYTDNRQGWTDAINNAVQKGTAHDVL
EPKPDREVMNAQRLFSTARELRDVAAGRAVLRQAGLAGGDSPARFIAPGRKYPQPYVALPAFDRNGKSAG
IWLNPLTTDDGNGLRGFSGEGRVKGSGDAQFVALQGSRNGESLLADNMQDGVRIARDNPDSGVVVRIAGE
GRPWNPGAITGGRVWGDIPDNSVQPGAGNGEPVTAEVLAQRQAEEAIRRETERRADEIVRKMAENKPDLP
DGKTELAVRDIAGQERDRSAISERETALPESVLRESQREREAVREVARENLLQERLQQMERDMVRDLQKE
KTLGGD

  Protein domains


Predicted by InterproScan.

DNA helicase TraI (TraI_C)

(1434-1557)

TrwC relaxase (TrwC)

(10-283)

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

(633-712)

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

(575-626)

AAA domain (AAA_30)

(968-1156)


  Protein structure



No available structure.




T4SS

T4SS were predicted by using oriTfinder2.

Region 1: 6037..30011

Locus tag Coordinates Strand Size (bp) Protein ID Product Description
ECSF_RS23180 (ECSF_P1-0002) 2014..2448 + 435 WP_000845910 conjugation system SOS inhibitor PsiB -
ECSF_RS23185 (ECSF_P1-0003) 2445..3208 + 764 Protein_2 plasmid SOS inhibition protein A -
ECSF_RS26695 (ECSF_P1-0004) 3382..3531 + 150 Protein_3 DUF5431 family protein -
ECSF_RS23195 (ECSF_P1-0004) 3473..3598 + 126 WP_096937776 type I toxin-antitoxin system Hok family toxin -
ECSF_RS26700 (ECSF_P1-0005) 3916..4213 - 298 Protein_5 hypothetical protein -
ECSF_RS23215 (ECSF_P1-0007) 4514..4801 + 288 WP_000107526 hypothetical protein -
ECSF_RS23220 (ECSF_P1-0008) 4920..5741 + 822 WP_001234489 DUF932 domain-containing protein -
ECSF_RS23225 (ECSF_P1-0009) 6037..6639 - 603 WP_001323326 transglycosylase SLT domain-containing protein virB1
ECSF_RS23230 (ECSF_P1-0010) 6970..7353 + 384 WP_001151562 conjugal transfer relaxosome DNA-binding protein TraM -
ECSF_RS23235 (ECSF_P1-0011) 7547..8233 + 687 WP_000332487 PAS domain-containing protein -
ECSF_RS23240 (ECSF_P1-0012) 8327..8554 + 228 WP_001254388 conjugal transfer relaxosome protein TraY -
ECSF_RS23245 (ECSF_P1-0013) 8588..8947 + 360 WP_001098988 type IV conjugative transfer system pilin TraA -
ECSF_RS23250 (ECSF_P1-0014) 8962..9273 + 312 WP_000012100 type IV conjugative transfer system protein TraL traL
ECSF_RS23255 (ECSF_P1-0015) 9295..9861 + 567 WP_000399776 type IV conjugative transfer system protein TraE traE
ECSF_RS23260 (ECSF_P1-0016) 9848..10576 + 729 WP_001230787 type-F conjugative transfer system secretin TraK traK
ECSF_RS23265 (ECSF_P1-0017) 10576..12003 + 1428 WP_000146665 F-type conjugal transfer pilus assembly protein TraB traB
ECSF_RS23270 (ECSF_P1-0018) 11993..12583 + 591 WP_000002787 conjugal transfer pilus-stabilizing protein TraP -
ECSF_RS23275 (ECSF_P1-0019) 12570..12890 + 321 WP_001057274 conjugal transfer protein TrbD -
ECSF_RS23280 (ECSF_P1-0020) 12883..13135 + 253 Protein_19 conjugal transfer protein TrbG -
ECSF_RS23285 (ECSF_P1-0021) 13132..13647 + 516 WP_000809889 type IV conjugative transfer system lipoprotein TraV traV
ECSF_RS25540 (ECSF_P1-0022) 13782..14003 + 222 WP_001278694 conjugal transfer protein TraR -
ECSF_RS23295 (ECSF_P1-0023) 13996..14469 + 474 WP_000549566 hypothetical protein -
ECSF_RS26705 (ECSF_P1-0024) 14549..14767 + 219 WP_000556746 hypothetical protein -
ECSF_RS26830 (ECSF_P1-0025) 14795..15008 + 214 Protein_24 hypothetical protein -
ECSF_RS23300 (ECSF_P1-0026) 15134..17764 + 2631 WP_000069778 type IV secretion system protein TraC virb4
ECSF_RS23305 (ECSF_P1-0027) 17761..18147 + 387 WP_000214082 type-F conjugative transfer system protein TrbI -
ECSF_RS23310 (ECSF_P1-0028) 18144..18776 + 633 WP_001203736 type-F conjugative transfer system protein TraW traW
ECSF_RS23315 (ECSF_P1-0029) 18773..19765 + 993 WP_000830838 conjugal transfer pilus assembly protein TraU traU
ECSF_RS23320 (ECSF_P1-0030) 19795..20100 + 306 WP_000224418 hypothetical protein -
ECSF_RS23325 (ECSF_P1-0031) 20109..20747 + 639 WP_001080251 type-F conjugative transfer system pilin assembly protein TrbC trbC
ECSF_RS23330 (ECSF_P1-0032) 20744..22594 + 1851 WP_000821859 type-F conjugative transfer system mating-pair stabilization protein TraN traN
ECSF_RS23335 (ECSF_P1-0033) 22621..22878 + 258 WP_000864314 conjugal transfer protein TrbE -
ECSF_RS23340 (ECSF_P1-0034) 22871..23614 + 744 WP_001030385 type-F conjugative transfer system pilin assembly protein TraF traF
ECSF_RS23345 (ECSF_P1-0035) 23628..23969 + 342 WP_001298557 conjugal transfer protein TrbA -
ECSF_RS23350 (ECSF_P1-0036) 23950..24285 - 336 WP_000736414 hypothetical protein -
ECSF_RS23355 (ECSF_P1-0037) 24366..24650 + 285 WP_000624107 type-F conjugative transfer system pilin chaperone TraQ -
ECSF_RS23360 (ECSF_P1-0038) 24637..25182 + 546 WP_000059830 type-F conjugative transfer system pilin assembly thiol-disulfide isomerase TrbB traF
ECSF_RS23365 (ECSF_P1-0039) 25112..25459 + 348 WP_001309242 P-type conjugative transfer protein TrbJ -
ECSF_RS23370 (ECSF_P1-0040) 25440..25832 + 393 WP_000660700 F-type conjugal transfer protein TrbF -
ECSF_RS23375 (ECSF_P1-0041) 25819..27192 + 1374 WP_000944331 conjugal transfer pilus assembly protein TraH traH
ECSF_RS23380 (ECSF_P1-0042) 27189..30011 + 2823 WP_001007080 conjugal transfer mating-pair stabilization protein TraG traG
ECSF_RS23385 (ECSF_P1-0043) 30027..30512 + 486 WP_000605869 hypothetical protein -
ECSF_RS23390 (ECSF_P1-0044) 30561..31292 + 732 WP_000782451 conjugal transfer complement resistance protein TraT -
ECSF_RS23395 (ECSF_P1-0045) 31495..32232 + 738 WP_000199901 hypothetical protein -
ECSF_RS23400 (ECSF_P1-0046) 32283..32480 + 198 WP_000009376 hypothetical protein -
ECSF_RS23405 (ECSF_P1-0047) 32495..32920 + 426 WP_000422741 transposase -
ECSF_RS23410 (ECSF_P1-0048) 32917..33267 + 351 WP_000624722 IS66 family insertion sequence element accessory protein TnpB -
ECSF_RS23415 (ECSF_P1-0049) 33298..34911 + 1614 WP_000080195 IS66-like element ISEc23 family transposase -

Host bacterium

ID   815 GenBank   NC_013655
Plasmid name   pECSF1 Incompatibility group   IncFII
Plasmid size   122345 bp Coordinate of oriT [Strand]   6522..6971 [-]
Host baterium   Escherichia coli SE15

Cargo genes

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