Detailed information of oriT

oriT

The information of the oriT region


oriTDB ID   100422
Name   oriT_p666 in_silico
Organism   Escherichia coli ETEC H10407
Sequence Completeness      intact
NCBI accession of oriT (coordinates [strand])   NC_017722 (28663..28953 [+], 291 nt)
oriT length   291 nt
IRs (inverted repeats)      226..233, 236..243 n  (GCAAAAAC..GTTTTTGC)
Location of nic site      252..253
Conserved sequence flanking the
  nic site    		  GTAGTGTGT|GG
Note   predicted by the oriTfinder

  oriT sequence  


Download         Length: 291 nt

>oriT_p666
CGCACCGCTAGCAGCGCCCCTAGCGGTATCCTATAAAAAAACACACCGCGCCGCTAGCAGCGCCCCTAATATAAAATGATGTTTTTTTATAAAAATAGTCAGTACCACCCCTACAAAGCGGTGTCGGCGCGTTGTTGTAGCCGCGCCGACACCGCTTTTTTGAATATCATAAAGAGAGTAAGAGAAACTAATTTTTCATAACACTATATTTATAAAGAAAAATCAGCAAAAACTTGTTTTTGCGTAGTGTGTGGTGCTTTTGGTGGTGAGAACCACCAACCTGTTGAGCCT

Visualization of oriT structure

  oriT secondary structure

Predicted by RNAfold.

Download structure file


Relaxase

ID   493 GenBank   WP_000948336
Name   TraI_p666 insolico UniProt ID   E3PP28
Length   1756 a.a. PDB ID   
Note   putative relaxase

  Relaxase protein sequence


Download         Length: 1756 a.a.        Molecular weight: 191831.31 Da        Isoelectric Point: 5.6841

>WP_000948336.1 conjugative transfer relaxase/helicase TraI [Escherichia coli]
MLSFSVVKSAGSAGNYYTDKDNYYVLGSMGERWAGQGAEQLGLQGSVDKDIFTRLLEGRLPDGADLSRMQ
DGSNKHRPGYDLTFSAPKSVSMMAMLGGDKRLIDAHNQAVDFAVRQVEALASTRVMTDGQSETVLTGNLV
MALFNHDTSRDQDPQLHTHVVVANVTQHNGEWKTLSSDKVGKTGFSENVLANRIAFGKIYQSELRQRVEA
LGYETEVVGKHGMWEMPGVPVEAFSGRSQAIREAVGEDASLKSRDVAALDTRKSKQHVDPEVRMAEWMQT
LKETGFDIRAYRDAADQRAEIRTQAPGSASQDGPDVQQAVTQAIAGLSERKVQFTYTDVLARTVGILPPE
NGVIERARAGIDEAISREQLIPLDREKGLFTSGIHVLDELSVRALSRDIMKQNRVTVHPEKSVPRTAGYS
DAVSVLAQDRPSLAIVSGQGGAAGQRERVAELVMMAREQGREVQIIAADRRSQMNLKQDERLSGELITGR
RQLQEGMIFTPGSTVIVDQGEKLSLKETLTLLDGAARHNVQVLITDSGQRTGTGSALMAMKDAGVNTYRW
QGGEQRPATIISEPDRNVRYARLAGDFAASVKAGEESVVQVSGVREQAILTQAIRSELKTQGVLGHPEVT
MTALSPVWLDSRSRYLRDMYRPGMVMEQWNPETRSHDRYVIDRVTAQSHSLTLRDAQGETQVVRISSLDS
SWSLFRPEKMPVADGERLRVTGKIPGLRVSGGDRLQVASVSEDAMTVVVPGRAEPATLPVADSPFTALKL
ENGWVETPGHSVSDSAKVFASVTQMAMDNATLNGLARSGRDVRLYSSLDETRTAEKLARHPSFTVVSEQI
KARAGETSLETAISLQKAGLHTPAQQAIHLALPVLESKNLAFSMVDLLTEAKSFAAEGTGFTELGGEINA
QIKRGDLLYVDVAKGYGTGLLVSRASYEAEKSILRHILEGKEAVTPLMERVPGELMEKLTSGQRAATRMI
LETSDRFTVVQGYAGVGKTTQFRAVMSAVNMLPESERPRVVGLGPTHRAVGEMRSAGVDAQTLASFLHDT
QLQQRSGETPDFSNTLFLLDESSMVGNTDMARAYALIAAGGGRAVASGDTDQLQAIAPGQPFRLQQTRSA
ADVVIMKEIVRQTPELREAVYSLINRDVERALSGLESVKPSQVPRLEGAWAPEHSVTEFSHSQEAKLAEA
QQKAMQNGEAFPDVPMTLYEAIVRDYTGRTPEAREQTLIVTHLNEDRRVLNSMIHDAREKAGELGKEQVM
VPVLNTANIRDGELRRLSTWENNPDALALVDNVYHRIAGISRDDGLITLQDAEGNTRLISPREAVAEGVT
LYTPDTIRVGTGDRMRFTKSDRERGYVANSVWTVTAVSGDSVTLSDGQQTRVIRPGQERAEQHIDLAYAI
TAHGAQGASETFAIALEGTEGNRKLMAGFESAYVALSRMKQHVQVYTDNRQGWTDAIHNSVQKGTAHDVF
EPKPDREVMNAEWLFSTARELRDVAAGRAVLRQAGLAGGDSPARFIAPGRKYPQPYVALPAFDRNGKSAG
IWLNPLTTDDGNGLRGFSGEGRVKGSGDAQFVALQGSRNGESLLADNMQDGVRIARDNPDSGVVVRIAGE
GRPWNPGAITGGRVWGDIPDNSVQPGAGNGEPVTAEVLAQQQAEEAIRRETERRADEIVRKMAENKPDLP
DGKTEQAVREIAGQERDRTATSERETALPESVLRESQREQEAVREVARENLLQERLQQMERDMVRDLQKE
KTLGGD

  Protein domains


Predicted by InterproScan.

DNA helicase TraI (TraI_C)

(1434-1557)

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

(575-626)

TrwC relaxase (TrwC)

(10-283)

AAA domain (AAA_30)

(969-1156)

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

(633-712)


  Protein structure



No available structure.




T4SS

T4SS were predicted by using oriTfinder2.

Region 1: 12957..26426

Locus tag Coordinates Strand Size (bp) Protein ID Product Description
ETEC_RS26165 (ETEC_p666_0160) 12957..15245 - 2289 WP_000009358 type IV conjugative transfer system coupling protein TraD prgC
ETEC_RS30280 (ETEC_p666_0170) 15296..15823 - 528 Protein_15 hypothetical protein -
ETEC_RS26175 (ETEC_p666_0180) 15855..17426 - 1572 WP_000381395 IS66-like element ISCro1 family transposase -
ETEC_RS26180 (ETEC_p666_0190) 17446..17793 - 348 WP_000624622 IS66 family insertion sequence element accessory protein TnpB -
ETEC_RS26185 (ETEC_p666_0200) 17793..18470 - 678 WP_001339397 IS66-like element accessory protein TnpA -
ETEC_RS26190 (ETEC_p666_0210) 18711..19091 + 381 WP_001171554 transposase -
ETEC_RS26195 (ETEC_p666_0220) 19088..19435 + 348 WP_000612591 IS66 family insertion sequence element accessory protein TnpB -
ETEC_RS26200 (ETEC_p666_0230) 19485..21023 + 1539 WP_000998068 IS66 family transposase -
ETEC_RS26205 (ETEC_p666_0240) 21034..21393 - 360 Protein_22 hypothetical protein -
ETEC_RS29340 (ETEC_p666_0250) 21386..21607 - 222 WP_001278695 conjugal transfer protein TraR -
ETEC_RS26215 (ETEC_p666_0260) 21742..22257 - 516 WP_000809904 type IV conjugative transfer system lipoprotein TraV traV
ETEC_RS26220 (ETEC_p666_0270) 22254..22505 - 252 WP_001038347 conjugal transfer protein TrbG -
ETEC_RS26225 (ETEC_p666_0280) 22498..22818 - 321 WP_001057295 conjugal transfer protein TrbD virb4
ETEC_RS26230 (ETEC_p666_0290) 22805..23371 - 567 WP_000896600 conjugal transfer pilus-stabilizing protein TraP -
ETEC_RS26235 (ETEC_p666_0300) 23361..24812 - 1452 WP_000146686 F-type conjugal transfer pilus assembly protein TraB traB
ETEC_RS26240 (ETEC_p666_0310) 24812..25540 - 729 WP_001230778 type-F conjugative transfer system secretin TraK traK
ETEC_RS26245 (ETEC_p666_0320) 25527..26093 - 567 WP_000399801 type IV conjugative transfer system protein TraE traE
ETEC_RS26250 (ETEC_p666_0330) 26115..26426 - 312 WP_000012116 type IV conjugative transfer system protein TraL traL
ETEC_RS26255 (ETEC_p666_0340) 26441..26806 - 366 WP_001098999 type IV conjugative transfer system pilin TraA -
ETEC_RS26260 (ETEC_p666_0350) 26838..27233 - 396 WP_001309237 conjugal transfer relaxosome DNA-bindin protein TraY -
ETEC_RS26265 (ETEC_p666_0360) 27332..28021 - 690 WP_000283391 conjugal transfer transcriptional regulator TraJ -
ETEC_RS26270 (ETEC_p666_0370) 28208..28591 - 384 WP_001151538 conjugal transfer relaxosome DNA-binding protein TraM -
ETEC_RS26275 (ETEC_p666_0380) 28913..29515 + 603 WP_000243716 transglycosylase SLT domain-containing protein -
ETEC_RS26280 (ETEC_p666_0390) 29812..30633 - 822 WP_001234441 DUF932 domain-containing protein -
ETEC_RS26285 (ETEC_p666_0400) 30744..31040 - 297 WP_001272251 hypothetical protein -

Host bacterium

ID   883 GenBank   NC_017722
Plasmid name   p666 Incompatibility group   IncFII
Plasmid size   66681 bp Coordinate of oriT [Strand]   28663..28953 [+]
Host baterium   Escherichia coli ETEC H10407

Cargo genes

Drug resistance gene   -
Virulence gene   eltB, eltA, estIa
Metal resistance gene   -
Degradation gene   -
Symbiosis gene   -
Anti-CRISPR   -