Detailed information of oriT

oriT

The information of the oriT region


oriTDB ID   100814
Name   oriT_pC06114_1 in_silico
Organism   Escherichia coli isolate Co6114
Sequence Completeness      intact
NCBI accession of oriT (coordinates [strand])   NZ_CP016035 (37447..37896 [+], 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_pC06114_1
ATATGTATACCTCTTTATTTTCTTATCGCATCAAATTTATTTCACATATAAAAAAAAGACAATTCATCGATGAATCGAATCGTGACGCAAGTTACGAAAATTACGATTCATGCAGCAAATCACATCACGAATTGAATCTAGAGTCAATTCGCTTTAACTCGTTGTTTTATTATTACTGATTCATCTATGAGTTGTGTTAAATTCATTGGTGAATCATATGCGATTCACCAATGAATCCTTTTTATAATGTAAAATAAATTAAAATACATTATTTAAAACATAAGTTAATGATTCAAGTAGCAAATCAGCAAAAACTTGTTTTTGCGTAGTGTGTGGTGCTTTTGGTGGTGAGAACCACCAACCTGTTGAGCCTTTTTGTGGAGTGGGTTAAATTATTTACGGATAAAGTCACCAGAGGTGGAAAAATGAAAAAATGGATGTTAGCCATCT

Visualization of oriT structure

  oriT secondary structure

Predicted by RNAfold.

Download structure file


Relaxase

ID   886 GenBank   WP_048237267
Name   TraI_pC06114_1 insolico UniProt ID   _
Length   1756 a.a. PDB ID   
Note   putative relaxase

  Relaxase protein sequence


Download         Length: 1756 a.a.        Molecular weight: 191621.35 Da        Isoelectric Point: 5.9040

>WP_048237267.1 conjugative transfer relaxase/helicase TraI [Escherichia coli]
MLSFSVVKSAGSAGNYYTDKDNYYVLGSMGERWAGQGAEQLGLQGSVDKDVFTRLLEGRLPDGADLSRMQ
DGSNKHRPGYDLTFSAPKSVSMMAMLGGDKRLIDAHNQAVDFAVRQVEALASTRVMTDGQSETVLTGNLV
MALFNHDTSRDQDPQLHTHVVVANVTQHNGEWKTLSSDKVGKTGFSENVLANRIAFGKIYQSELRQRVEA
LGYETEVVGKHGMWEMPGVPVEAFSGRSQAIREAVGEDASLKSRDVAALDTRKSKQHVDPEVRMAEWMQT
LKETGFDIRAYRDAADQRAEIRTQAPGPASQDGPDVQQAVTQAIAGLSERKVQFTYTDVLARTVGILPPE
NGVIERARAGIDEAISREQLIPLDREKGLFTSGIHVLDELSVRALSRDIMKQNRVTVHPEKSVPRTAGYS
DAVSVLAQDRPSLAIVSGQGGAAGQRERVAELVMMAREQGREVQIIAADRRSQMNLKQDERLSGELITGR
RQLLEGMAFPPGSTVIVDQGEKLSLKETLTLLDGAARHNVQVLITDSGQRTGTGSALMAMKDAGVNTYRW
QGGEQRPATIISEPDRNVRYARLAGDFAASVKAGEESVAQVSGVREQAILTEAIRSELKTQGVLGHPEVT
MTALSPVWLDSRSRYLRDMYRPGMVMEQWNPETRSHDRYVIDRVTAQSHSLTLRDAQGETQVVRISSLDS
SWSLFRPEKMPVADGERLRVTGKIPGLRVSGGDRLQVASVSEDAMTVVVPGRAEPATLPVADSPFTALKL
ENGWVETPGHSVSDSATVFASVTQMAMDNATLNGLARSGRDVRLYSSLDEPRTAEKLARHPSFTVVSDQI
KARAGETLLETAISLQKAGLHTPAQQAIHLALPVLESKNLAFSMVDLLTEAKSFAAEGTGFTELGGEINA
QIKRGDLLYVDVAKGYGTGLLVSRASYEAEKSILRHILEGKEAVTPLMERVPGELMETLTSGQRAATRMI
LETSDRFTVVQGYAGVGKTTQFRAVMSAVNMLPASERPRVVGLGPTHRAVGEMRSAGVDAQTLASFLHDT
QLQQRSGETPDFSNTLFLLDESSMVGNTDMARAYALIAAGGGRAVASGDTDQLQAIAPGQPFRLQQTRSA
ADVVIMKEIVRQTPELREAVYSLINRDVERALSGLESVKPSQVPRQEGAWAPEHSVTEFSHSQEAKLAEA
QQKAMLKGEAFPDIPMTLYEAIVRDYTGRTPEAREQTLIVTHLNEDRRVLNSMIHDAREKAGELGKEQVM
VPVLNTANIRDGELRRLSTWENNPDALALVDSVYHRIAGISKDDGLITLEDAEGNTRLISPREAVAEGVT
LYTPDKIRVGTGDRMRFTKSDRERGYVANSVWTVTAVSGDSVTLSDGQQTRVIRPGQERAEQHIDLAYAI
TAHGAQGTSETFAIALEGTEGNRKLMAGFESAYVALSRMKQHVQVYTGNRQGWTDAINNAVQKGTAHDVF
EPKPDREVMNAQRLFSTARELRDVAAGRAVLRQAGLAGGDSPARFIAPGRKYPQPYVALPAFDRNGRSAG
IWLNPLTTDDGNGLRGFSGEGRVKGRGDAQFVALQGSRNGESLLADNMQDGVRIARDNPDSGVVVRIAGE
GRPWNPGAITGGRVWGDIPDSSVQPGAGNGEPVTAEVLAQRQAEEAIRRETERRADEIVRKMAENKPDLP
DGKTELAVRDIAGQERDRTASSERETALPESVLRESQREREAVREVARENLLQERLQQMERDMVRDLQKE
KTLGGD

  Protein domains


Predicted by InterproScan.

TrwC relaxase (TrwC)

(10-283)

AAA domain (AAA_30)

(968-1156)

DNA helicase TraI (TraI_C)

(1434-1557)

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

(575-626)

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: 22111..38381

Locus tag Coordinates Strand Size (bp) Protein ID Product Description
A8V37_RS24155 (A8V37_24155) 17856..18553 - 698 Protein_20 IS1 family transposase -
A8V37_RS24160 (A8V37_24160) 18610..19311 - 702 Protein_21 IS5-like element ISKpn26 family transposase -
A8V37_RS24165 (A8V37_24165) 19394..19798 + 405 WP_000839179 transposase -
A8V37_RS24170 (A8V37_24170) 19795..20142 + 348 WP_000612626 IS66 family insertion sequence element accessory protein TnpB -
A8V37_RS24175 (A8V37_24175) 20191..21726 + 1536 WP_001333339 IS66-like element ISEc22 family transposase -
A8V37_RS29055 21769..21981 - 213 Protein_25 transposase -
A8V37_RS24180 (A8V37_24180) 22111..22854 - 744 WP_001030401 type-F conjugative transfer system pilin assembly protein TraF traF
A8V37_RS24185 (A8V37_24185) 22847..23104 - 258 WP_000864347 conjugal transfer protein TrbE -
A8V37_RS24190 (A8V37_24190) 23131..24981 - 1851 WP_000821866 type-F conjugative transfer system mating-pair stabilization protein TraN traN
A8V37_RS24195 (A8V37_24195) 24978..25616 - 639 WP_001080259 type-F conjugative transfer system pilin assembly protein TrbC trbC
A8V37_RS24200 (A8V37_24200) 25625..25930 - 306 WP_000224413 hypothetical protein -
A8V37_RS24205 (A8V37_24205) 25960..26952 - 993 Protein_31 conjugal transfer pilus assembly protein TraU -
A8V37_RS24215 (A8V37_24215) 26949..27581 - 633 WP_001203727 type-F conjugative transfer system protein TraW traW
A8V37_RS24220 (A8V37_24220) 27578..27964 - 387 WP_000214084 type-F conjugative transfer system protein TrbI -
A8V37_RS24225 (A8V37_24225) 27961..30588 - 2628 WP_001064258 type IV secretion system protein TraC virb4
A8V37_RS27480 30748..30969 - 222 WP_001278694 conjugal transfer protein TraR -
A8V37_RS24230 (A8V37_24230) 31104..31619 - 516 WP_000809886 type IV conjugative transfer system lipoprotein TraV traV
A8V37_RS24235 (A8V37_24235) 31619..31978 - 360 WP_001617876 conjugal transfer protein TrbD -
A8V37_RS24240 (A8V37_24240) 31917..32504 - 588 WP_071587349 conjugal transfer pilus-stabilizing protein TraP -
A8V37_RS24245 (A8V37_24245) 32473..33924 - 1452 WP_000146687 F-type conjugal transfer pilus assembly protein TraB traB
A8V37_RS24250 (A8V37_24250) 33924..34628 - 705 WP_148725207 type-F conjugative transfer system secretin TraK traK
A8V37_RS24255 (A8V37_24255) 34639..35205 - 567 WP_000399791 type IV conjugative transfer system protein TraE traE
A8V37_RS24260 (A8V37_24260) 35227..35538 - 312 WP_000012107 type IV conjugative transfer system protein TraL traL
A8V37_RS24265 (A8V37_24265) 35543..35905 - 363 WP_000338606 type IV conjugative transfer system pilin TraA -
A8V37_RS24270 (A8V37_24270) 35939..36166 - 228 WP_001254388 conjugal transfer relaxosome protein TraY -
A8V37_RS24275 (A8V37_24275) 36254..36931 - 678 WP_001348626 PAS domain-containing protein -
A8V37_RS24280 (A8V37_24280) 37065..37448 - 384 WP_001151566 conjugal transfer relaxosome DNA-binding protein TraM -
A8V37_RS24285 (A8V37_24285) 37779..38381 + 603 WP_000243712 transglycosylase SLT domain-containing protein virB1
A8V37_RS24290 (A8V37_24290) 38678..39499 - 822 WP_001234469 DUF932 domain-containing protein -
A8V37_RS24295 (A8V37_24295) 39618..39905 - 288 WP_000107535 hypothetical protein -
A8V37_RS28345 (A8V37_24300) 39930..40136 - 207 WP_000275859 hypothetical protein -
A8V37_RS28350 (A8V37_24305) 40138..40326 - 189 WP_032143370 hypothetical protein -
A8V37_RS27495 40377..40607 - 231 WP_001426396 hypothetical protein -
A8V37_RS24310 (A8V37_24310) 40827..40985 - 159 WP_001312861 type I toxin-antitoxin system Hok family toxin -
A8V37_RS24325 (A8V37_24325) 42621..43340 - 720 WP_001276232 plasmid SOS inhibition protein A -

Host bacterium

ID   1274 GenBank   NZ_CP016035
Plasmid name   pC06114_1 Incompatibility group   IncFII
Plasmid size   129085 bp Coordinate of oriT [Strand]   37447..37896 [+]
Host baterium   Escherichia coli isolate Co6114

Cargo genes

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