Detailed information of oriT

oriT

The information of the oriT region


oriTDB ID   100370
Name   oriT_pETN48 in_silico
Organism   Escherichia coli
Sequence Completeness      intact
NCBI accession of oriT (coordinates [strand])   NC_014615 (2136..2425 [-], 290 nt)
oriT length   290 nt
IRs (inverted repeats)      225..232, 235..242 n  (GCAAAAAC..GTTTTTGC)
Location of nic site      251..252
Conserved sequence flanking the
  nic site    		  GTGGGGTGT|GG
Note   predicted by the oriTfinder

  oriT sequence  


Download         Length: 290 nt

>oriT_pETN48
CGCACCGCTAGCAGCGCCCCTAGCGGTATCCTATAAAAAAACACACCGCGCCGCTAGCAGCACCCCTAATATAAAATAATGTTTTTTATAAAAATAGTCAGTACCACCCCTACAAAGCGGTGTCGGCGCGTTGTTGTAGCCGCGCCGACACCGCTTTTTTAAATATCATAAAGAGAGTAAGAGAAACTAATTTTTCATAACTCTCTATTTATAAAGAAAAATCAGCAAAAACTTGTTTTTGCGTGGGGTGTGGTGCTTTTGGTGGTGAGAACCACCAACCTGTTGAGCCT

Visualization of oriT structure

  oriT secondary structure

Predicted by RNAfold.

Download structure file


Relaxase

ID   441 GenBank   YP_003937647
Name   TraI_pETN48 insolico UniProt ID   E3PYK7
Length   1706 a.a. PDB ID   
Note   putative relaxase

  Relaxase protein sequence


Download         Length: 1706 a.a.        Molecular weight: 186742.95 Da        Isoelectric Point: 5.9554

>YP_003937647.1 protein TraI (DNA helicase I) (plasmid) [Escherichia coli]
MMSIAQVRSAGSAGNYYTDKDNYYVLGSMGERWAGRGAEQLGLQGSVDKDVFTRLLEGRLPDGADLSRMQ
DGSNKHRPGYDLTFSAPKSVSMMAMLGGDKRLIDAHNQAVDFAVRQVEALASTRVMTDGQSETVLTGNLV
MALFNHDTSRDQEPQLHTHAVVANVTQHNGEWKTLSSDKVGKTGFIENVYANQIAFGRLYREKLKEQVEA
LGYETEVVGKHGMWEMPGVPVEAFSGRSQTIRETVGEDASLKSRDVAALDTRKSKQHVDPEIKMTEWMQT
LKETGFDIRAYRDAAEQRAYTRTQTPGPASQDGPDVQQAVTQAIAGLSERKVQFTYTDVLARTVGILPPE
AGVIERARAGIDEAISREQLIPLDREKGMFTSGIHVLDELSVRALSRDIMKQNRVTVHPEKSVPRTAGYS
DAVSVLAQDRPSLAIVSGQGGAAGQRERVAELAMMAREQGREVQIIAADRRSQMNLKQDERLSGELITGR
RQLQEGMAFTPGSTVIVDQGEKLSLKETLTLLDGAARHNVQVLITDSGQRTGTGSALMAMKYAGVNTYRW
QGGEQRPATIISEPDRNVRYDRLAGDFAASVKAGEESVAQVSGVREQAILTQAIRSELKTQGVLGHPEVT
MTALSPVWLDSRSRYLRDMYRPGMVMEQWNPETRSHDRYVIDRVTAQSHSLTLRDAQGETQVVRISSLDS
SWSLFRPEKMPVADGERLRVTGKIPGLRVSGGDRLQVASVSEDAMTVVVPGRAEPATLPVADSPFTALKL
ENGWVETPGHSVSDSATVFASVTQMAMDNATLNGLARSGRDVRLYSSLDETRTAEKLARHPSFTVVSEQI
KARAGETSLETAISLQKTGLHTPAQQAIHLALPVLESKNLAFSMVDLLTEAKSFAAEGTGFTELGGEINA
QIKRGDLLYVDVAKGYGTGLLVSRASYEAEKSILRHILEGKEAVTPLMERVPGELMETLTSGQRAATRMI
LETSDRFTVVQGYAGVGKTTQFRAVMSAVNMLPESERPRVVGLGPTHRAVGEMRSAGVDAQTLASFLHDT
QLQQRSGETPDFSNTLFLLDESSMVGNTDMARAYALIAAGGGRAVASGDTDQLQAIAPGQPFRLQQTRSA
ADVAIMKEIVRQTPELREAVYSLINRDVEKALSGLESVKPSQVPRLEGAWAPEHSVTEFSHSQEAKLAEA
QQKAMLKGEAFPDIPMTLYEAIVRDYTGRTPEAREQTLIVTHLNEDRRVLNSMIHDAREKAGELGKEQVM
VPVLNTANIRDGELRRLSTWENNPDALALVDSVYHRIAGISKDDGLITLEDAEGNTRLISPREAVAEGVT
LYTPDKIRVGTGDRMRFTKSDRERGYVANSVWTVTAVSGDSVTLSDGQQTRVIRPGQERAEQHIDLAYAI
TAHGAQGASETFAIALEGTEGNRKLMAGFESAYVALSRMKQHVQVYTDNRQGWTDAINNAVQKGTAHDVL
EPKPDREVMNAQRLFSTARELRDVAAGRAVLRQAGLAGGDSPARFIAPGRKYPQPYVALPAFDRNGRSAG
IWLNPLTTDDGNGLRGFSGEGRPWNPGAITGGRVWGDIPDNSVQPGAGNGEPVTAEVLAQRQAEEAIRRE
TERRADEIVRKMAENKPDLPDGKTELAVRDIAGQERDRTATSERETALPESVLRESQREREAVREVAREN
LLQRLLQQMERDMVRDLQKEKTLGGD

  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)

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

(575-626)

DNA helicase TraI (TraI_C)

(1434-1557)


  Protein structure



No available structure.




T4SS

T4SS were predicted by using oriTfinder2.

Region 1: 1574..29259

Locus tag Coordinates Strand Size (bp) Protein ID Product Description
HXG46_RS00005 (ETN48_p0001) 51..338 + 288 WP_000107535 hypothetical protein -
HXG46_RS00010 (ETN48_p0002) 456..1277 + 822 WP_001234426 DUF932 domain-containing protein -
HXG46_RS00015 (ETN48_p0003) 1574..2176 - 603 WP_013362798 transglycosylase SLT domain-containing protein virB1
HXG46_RS00020 (ETN48_p0004) 2497..2880 + 384 WP_001151524 conjugal transfer relaxosome DNA-binding protein TraM -
HXG46_RS00025 (ETN48_p0005) 3067..3756 + 690 WP_000283385 conjugal transfer transcriptional regulator TraJ -
HXG46_RS00030 (ETN48_p0006) 3849..4250 + 402 WP_001369361 conjugal transfer relaxosome DNA-bindin protein TraY -
HXG46_RS00035 (ETN48_p0007) 4283..4648 + 366 WP_000994779 type IV conjugative transfer system pilin TraA -
HXG46_RS00040 (ETN48_p0008) 4663..4974 + 312 WP_000012106 type IV conjugative transfer system protein TraL traL
HXG46_RS00045 (ETN48_p0009) 4996..5562 + 567 WP_000399792 type IV conjugative transfer system protein TraE traE
HXG46_RS00050 (ETN48_p0010) 5549..6277 + 729 WP_001230787 type-F conjugative transfer system secretin TraK traK
HXG46_RS00055 (ETN48_p0011) 6277..7704 + 1428 WP_000146685 F-type conjugal transfer pilus assembly protein TraB traB
HXG46_RS00060 (ETN48_p0012) 7694..8284 + 591 WP_013362799 conjugal transfer pilus-stabilizing protein TraP -
HXG46_RS00065 (ETN48_p0013) 8271..8468 + 198 WP_001324648 conjugal transfer protein TrbD -
HXG46_RS00070 (ETN48_p0014) 8480..8731 + 252 WP_001038342 conjugal transfer protein TrbG -
HXG46_RS00075 8728..8814 + 87 Protein_15 type IV conjugative transfer system protein TraV -
HXG46_RS00080 (ETN48_p0016) 8866..10079 + 1214 WP_162886171 IS3 family transposase -
HXG46_RS00085 (ETN48_p0017) 10120..10551 + 432 Protein_17 type IV conjugative transfer system lipoprotein TraV -
HXG46_RS00090 (ETN48_p0018) 10686..10907 + 222 WP_001278689 conjugal transfer protein TraR -
HXG46_RS00095 (ETN48_p0019) 11067..13694 + 2628 WP_001064245 type IV secretion system protein TraC virb4
HXG46_RS00100 (ETN48_p0021) 13691..14077 + 387 WP_000099686 type-F conjugative transfer system protein TrbI -
HXG46_RS00105 (ETN48_p0022) 14074..14706 + 633 WP_001203720 type-F conjugative transfer system protein TraW traW
HXG46_RS00110 (ETN48_p0023) 14703..15695 + 993 WP_000830180 conjugal transfer pilus assembly protein TraU traU
HXG46_RS00115 (ETN48_p0024) 15704..16342 + 639 WP_021518374 type-F conjugative transfer system pilin assembly protein TrbC trbC
HXG46_RS00120 (ETN48_p0025) 16339..18147 + 1809 WP_000821840 type-F conjugative transfer system mating-pair stabilization protein TraN traN
HXG46_RS00125 (ETN48_p0026) 18174..18431 + 258 WP_000864312 conjugal transfer protein TrbE -
HXG46_RS00130 (ETN48_p0027) 18424..19167 + 744 WP_001030378 type-F conjugative transfer system pilin assembly protein TraF traF
HXG46_RS00135 (ETN48_p0028) 19181..19522 + 342 WP_000556794 conjugal transfer protein TrbA -
HXG46_RS00140 (ETN48_p0029) 19503..19838 - 336 WP_000415571 hypothetical protein -
HXG46_RS00145 (ETN48_p0030) 19919..20203 + 285 WP_000624105 type-F conjugative transfer system pilin chaperone TraQ -
HXG46_RS00150 (ETN48_p0031) 20190..20744 + 555 WP_001553830 type-F conjugative transfer system pilin assembly thiol-disulfide isomerase TrbB traF
HXG46_RS00155 (ETN48_p0032) 20734..21048 + 315 WP_023149603 P-type conjugative transfer protein TrbJ -
HXG46_RS00160 (ETN48_p0033) 21002..21394 + 393 WP_000164675 F-type conjugal transfer protein TrbF -
HXG46_RS00165 (ETN48_p0034) 21381..22754 + 1374 WP_021518370 conjugal transfer pilus assembly protein TraH traH
HXG46_RS00170 (ETN48_p0035) 22751..25576 + 2826 WP_013362803 conjugal transfer mating-pair stabilization protein TraG traG
HXG46_RS00175 (ETN48_p0036) 25573..26082 + 510 WP_000628100 conjugal transfer entry exclusion protein TraS -
HXG46_RS00180 (ETN48_p0037) 26096..26827 + 732 WP_000850424 conjugal transfer complement resistance protein TraT -
HXG46_RS00185 (ETN48_p0038) 27079..29259 + 2181 WP_013362804 type IV conjugative transfer system coupling protein TraD virb4

Host bacterium

ID   831 GenBank   NC_014615
Plasmid name   pETN48 Incompatibility group   IncFIC
Plasmid size   165657 bp Coordinate of oriT [Strand]   2136..2425 [-]
Host baterium   Escherichia coli

Cargo genes

Drug resistance gene   quaternary ammonium compound-resistance; ethidium bromide resistance; chloramphenicol resistance; tetracycline resistance
Virulence gene   -
Metal resistance gene   -
Degradation gene   -
Symbiosis gene   -
Anti-CRISPR   -