Detailed information of oriT

oriT

The information of the oriT region


oriTDB ID   100405
Name   oriT_pUM146 in_silico
Organism   Escherichia coli UM146
Sequence Completeness      intact
NCBI accession of oriT (coordinates [strand])   NC_017630 (36614..37063 [+], 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_pUM146
ATATGTATACCTCTTTATTTTCTTATCGCATCAAATTTATTTCACATATAAAAGAATGACAATTCATCGATGAATCGAATCGTGACGCAAGTTACGAAAATTACGATTCATGCAGCAAATCACATCACGAATTGAATCTAGAGTCAATTCGCTTTAACTCGTTGTTTTATTATTACTGATTCATCTATGAGTTGCGTTAAATTCATTGGTGAATCATATGCGATTCACCAATGAATCCTTTTTATAATGTAAAATAAATTAAAATACATTATTTAAAACATAAGTTAATGATTCAAATAGCAAATCAGCAAAAACTTGTTTTTGCGTAGTGTGTGGTGCTTTTGGTGGTGAGAACCACCAACCTGTTGAGCCTTTTTGTGGAGTGGGTTAAATTATTTACGGATAAAGTCACCAGAGGTGGAAAAATGAAAAAATGGATGTTAGCCATCT

Visualization of oriT structure

  oriT secondary structure

Predicted by RNAfold.

Download structure file


Relaxase

ID   476 GenBank   WP_000948350
Name   TraI_pUM146 insolico UniProt ID   _
Length   1756 a.a. PDB ID   
Note   putative relaxase

  Relaxase protein sequence


Download         Length: 1756 a.a.        Molecular weight: 191823.18 Da        Isoelectric Point: 5.7422

>WP_000948350.1 conjugative transfer relaxase/helicase TraI [Escherichia coli]
MLSFSVVKSAGSAGNYYTDKDNYYVLGSMGERWAGQGAEQLGLQGSVDKDVFTRLLEGRLPDGADLSRMQ
DGSNKHRPGYDLTFSAPKSVSMMAMLGGDKRLIDAHNQAVDFAVRQVEALASTRVMTDGQSETVLTGNLV
MALFNHDTSRDQDPQLHTHVVVANVTQHNGEWKTLSSDKVGKTGFSENVLANRIAFGKIYQSELRQRVEA
LGYETEVVGKHGMWEMPGVPVEAFSSRSQAIREAVGEDASLKSRDVAALDTRKSKQHVDPEIRMAEWMQT
LKETGFDIRAYRDAADQRAEIRTQAPGPASQDGPDVQQAVTQAIAGLSERKVQFTYTDVLARTVGILPPE
NGVIERARAGIDEAISREQLIPLDREKGLFTSGIHVLDELSVRALSRDIMKQNRVTVHPEKSVPRTAGYS
DAVSVLAQDRPSLAIVSGQGGAAGQRERVAELVMMAREQGREVQIIAADRRSQMNLKQDERLSGELITGR
RQLQEGMVFTPGSTVIVDQGEKLSLKETLTLLDGAARHNVQVLITDSGQRTGTGSALMAMKDAGVNTYRW
QGGEQRPATIISEPDRNVRYDRLAGDFAASVKAGEESVAQVSGVREQAILTQAIRSELKTQGVLGHPEVT
MTALSPVWLDSRSRYLRDMYRPGMVMEQWNPETRSHDRYVIDRVTAQSHSLTLRDAQGETQVVRISSLDS
SWSLFRPEKMPVADGERLRVTGKIPGLRVSGGDRLQVASVSEDAMTVVVPGRAEPAXLPVSDSPFTALKL
ENGWVETPGHSVSDSAXVFASVTQMAMDNATLNGLARSGRDVRLYSSLDETRTAEKLARHPSFTVVSEQI
KARAGETSLETAISLQKTGLHTPAQQAIHLALPVLESKNLAFSMVDLLTEAKSFAAEGTGFTELGGEINA
QIKRGDLLYVDVAKGYGTGLLVSRASYEAEKSILRHILEGKEAVTPLMERVPGELMETLTSGQRAATRMI
LETSDRFTVVQGYAGVGKTTQFRAVMSAVNMLPASERPRVVGLGPTHRAVGEMRSAGVDAQTLASFLHDT
QLQQRSGETPDFSNTLFLLDESSMVGNTDMARAYALIAAGGGRAVASGDTDQLQAIAPGQPFRLQQTRSA
ADVXIMKEIVRQTPELREAVYXLINRDVERALSGLESVKPSQVPRXEGAWAPEHSVTEFSHSQEAKLAEA
QQKAMLKGETFPDVPMTLYEAIVRDYTGRTPEAREQTLIVTHLNEDRRVLNSMIHDAREKAGELGQEQVM
VPVLNTANIRDGELRRLSTWENNPDALALVDSVYHRIAGISKDDGLITLEDAEGNTRLISPREAVAEGVT
LYTPDKIRVGTGDRMRFTKSDRERGYVANSVWTVTAVSGDSVTLSDGQQTRVIRPGQERAEQHIDLAYAI
TAHGAQGASETFAIALEGTEGNRKLMAGFESAYVALSRMKQHVQVYTDNRQGWTDAINNAVQKGTAHDVL
EPKPDREVMNAQRLFSTARELRDVAAGRAVLRQAGLAGGDSPARFIAPGRKYPQPYVALPAFDRNGKSAG
IWLNPLTTDDGNGLRGFSGEGRVKGSGDAQFVALQGSRNGESLLADNMQDGVRIARDNPDSGVVVRIAGE
GRPWNPGAITGGRVWGDIPDNSVQPGAGNGEPVTAEVLAQRQAEEAIRRETERRADEIVRKMAENKPDLP
DGKTELAVRDIAGQERDRSAISERETALPESVLRESQREREAVREVARENLLQERLQQMERDMVRDLQKE
KTLGGD

  Protein domains


Predicted by InterproScan.

TrwC relaxase (TrwC)

(10-283)

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

(633-712)

DNA helicase TraI (TraI_C)

(1434-1557)

AAA domain (AAA_30)

(968-1156)

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: 9157..37548

Locus tag Coordinates Strand Size (bp) Protein ID Product Description
UM146_RS24750 (UM146_24066) 9157..11301 - 2145 WP_000009377 type IV conjugative transfer system coupling protein TraD virb4
UM146_RS24755 (UM146_24071) 11352..12089 - 738 WP_000199902 hypothetical protein -
UM146_RS24760 (UM146_24076) 12292..13023 - 732 WP_000782451 conjugal transfer complement resistance protein TraT -
UM146_RS24765 (UM146_24081) 13072..13557 - 486 WP_000605869 hypothetical protein -
UM146_RS24770 (UM146_24086) 13573..16395 - 2823 WP_001007080 conjugal transfer mating-pair stabilization protein TraG traG
UM146_RS24775 (UM146_24091) 16392..17765 - 1374 WP_000944329 conjugal transfer pilus assembly protein TraH traH
UM146_RS29890 17752..18135 - 384 Protein_15 F-type conjugal transfer protein TrbF -
UM146_RS29895 18133..18471 - 339 Protein_16 P-type conjugative transfer protein TrbJ -
UM146_RS24790 (UM146_24101) 18401..18946 - 546 WP_000059830 type-F conjugative transfer system pilin assembly thiol-disulfide isomerase TrbB traF
UM146_RS24795 (UM146_24106) 18933..19217 - 285 WP_000624160 type-F conjugative transfer system pilin chaperone TraQ -
UM146_RS24800 (UM146_24111) 19298..19633 + 336 WP_000736414 hypothetical protein -
UM146_RS27545 (UM146_24116) 19614..19955 - 342 WP_001298557 conjugal transfer protein TrbA -
UM146_RS24805 (UM146_24121) 19969..20712 - 744 WP_001030404 type-F conjugative transfer system pilin assembly protein TraF traF
UM146_RS24810 (UM146_24126) 20705..20962 - 258 WP_000864334 conjugal transfer protein TrbE -
UM146_RS24815 (UM146_24131) 20989..22839 - 1851 WP_000821853 type-F conjugative transfer system mating-pair stabilization protein TraN traN
UM146_RS24820 (UM146_24136) 22836..23474 - 639 WP_001080252 type-F conjugative transfer system pilin assembly protein TrbC trbC
UM146_RS24825 (UM146_24141) 23483..23788 - 306 WP_000224418 hypothetical protein -
UM146_RS24830 23818..24811 - 994 Protein_26 conjugal transfer pilus assembly protein TraU -
UM146_RS24835 (UM146_24156) 24808..25440 - 633 WP_014639537 type-F conjugative transfer system protein TraW traW
UM146_RS24840 (UM146_24161) 25437..25823 - 387 WP_000214087 type-F conjugative transfer system protein TrbI -
UM146_RS24845 (UM146_24166) 25820..28450 - 2631 WP_000069779 type IV secretion system protein TraC virb4
UM146_RS29720 28576..28791 - 216 Protein_30 hypothetical protein -
UM146_RS27555 (UM146_24176) 28819..29037 - 219 WP_000556746 hypothetical protein -
UM146_RS24850 (UM146_24181) 29117..29590 - 474 WP_000549566 hypothetical protein -
UM146_RS27560 (UM146_24186) 29583..29804 - 222 WP_001278694 conjugal transfer protein TraR -
UM146_RS24860 (UM146_24191) 29939..30454 - 516 WP_000809889 type IV conjugative transfer system lipoprotein TraV traV
UM146_RS24865 (UM146_24196) 30451..30703 - 253 Protein_35 conjugal transfer protein TrbG -
UM146_RS24870 (UM146_24201) 30696..31016 - 321 WP_001057274 conjugal transfer protein TrbD -
UM146_RS24875 (UM146_24206) 31003..31593 - 591 WP_000002787 conjugal transfer pilus-stabilizing protein TraP -
UM146_RS24880 (UM146_24211) 31583..33010 - 1428 WP_000146665 F-type conjugal transfer pilus assembly protein TraB traB
UM146_RS24885 (UM146_24216) 33010..33681 - 672 WP_001340581 type-F conjugative transfer system secretin TraK traK
UM146_RS24890 (UM146_24221) 33724..34290 - 567 WP_000399783 type IV conjugative transfer system protein TraE traE
UM146_RS24895 (UM146_24226) 34312..34623 - 312 WP_000012100 type IV conjugative transfer system protein TraL traL
UM146_RS24900 (UM146_24231) 34638..34997 - 360 WP_001098988 type IV conjugative transfer system pilin TraA -
UM146_RS24905 (UM146_24236) 35031..35258 - 228 WP_001254388 conjugal transfer relaxosome protein TraY -
UM146_RS24910 (UM146_24241) 35352..36038 - 687 WP_000332487 PAS domain-containing protein -
UM146_RS24915 (UM146_24246) 36232..36615 - 384 WP_001151562 conjugal transfer relaxosome DNA-binding protein TraM -
UM146_RS24920 (UM146_24251) 36946..37548 + 603 WP_001323326 transglycosylase SLT domain-containing protein virB1
UM146_RS24925 (UM146_24256) 37845..38666 - 822 WP_001234492 DUF932 domain-containing protein -
UM146_RS24930 38785..39072 - 288 WP_000107526 hypothetical protein -
UM146_RS29725 (UM146_24261) 39373..39670 + 298 Protein_49 hypothetical protein -
UM146_RS24950 (UM146_24266) 39988..40113 - 126 WP_096937776 type I toxin-antitoxin system Hok family toxin -
UM146_RS29730 (UM146_24271) 40055..40204 - 150 Protein_51 DUF5431 family protein -
UM146_RS24960 (UM146_24276) 40378..41141 - 764 Protein_52 plasmid SOS inhibition protein A -
UM146_RS24965 (UM146_24281) 41138..41572 - 435 WP_000845910 conjugation system SOS inhibitor PsiB -

Host bacterium

ID   866 GenBank   NC_017630
Plasmid name   pUM146 Incompatibility group   IncFIB
Plasmid size   114550 bp Coordinate of oriT [Strand]   36614..37063 [+]
Host baterium   Escherichia coli UM146

Cargo genes

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