Detailed information of oriT

oriT

The information of the oriT region


oriTDB ID   100623
Name   oriT_pO145-13516 in_silico
Organism   Escherichia coli O145:H28 str. RM13516
Sequence Completeness      intact
NCBI accession of oriT (coordinates [strand])   NZ_CP006263 (58312..58761 [+], 450 nt)
oriT length   450 nt
IRs (inverted repeats)      130..139, 142..151  (ATAGGGTCGT..ACGCCCCTAT)
 219..226, 229..236  (GCAAAAAC..GTTTTTGC)
Location of nic site      245..246
Conserved sequence flanking the
  nic site    		  GTGGGGTGT|GG
Note   predicted by the oriTfinder

  oriT sequence  


Download         Length: 450 nt

>oriT_pO145-13516
CCTAGCAGCGCCCCTAGGGTCATACTATAAAAAAACGCACGGCGCTGCCAGGGGCGGCCCTAACATATCCAAATGTTTTTCATGAAAATTGTCAGTACTGACCCTAACAAGGGTCGTCATAGGGTCGCCATAGGGTCGTCAACGACCCTATTTAATAATGTAAAATAAATTAAAATACATTATTCATAACATAAGCTAATGATTCAAAAAACAAATCAGCAAAAACTTGTTTTTGCGTGGGGTGTGGTGCTTTTGGTGGTGAGAACCACCAACCTGTTGAGCCTTTTTGTGGAGTGGGTTAAATTATTTACGGATAAAGTCACCAGAGGTGGAAAAATGAAAAAATGGATGTTAGCCATCTGCCTGATGTTTATAAATGAGATCTGCCAGGCCACTGATTGCTTTGATCTTGCAGGCCGGGATTACAAAATAGATCCTGATTTACTGAGA

Visualization of oriT structure

  oriT secondary structure

Predicted by RNAfold.

Download structure file


Relaxase

ID   695 GenBank   WP_025380714
Name   TraI_pO145-13516 insolico UniProt ID   _
Length   1756 a.a. PDB ID   
Note   putative relaxase

  Relaxase protein sequence


Download         Length: 1756 a.a.        Molecular weight: 192053.57 Da        Isoelectric Point: 5.9267

>WP_025380714.1 conjugative transfer relaxase/helicase TraI [Escherichia coli]
MMSIAQVRSAGSAGNYYTDKDNYYVLGSMGERWAGRGAEQLGLQGSVDKDVFTRLLEGRLPDGADLSRMQ
DGSNKHRPGYDLTFSAPKSVSMMAMLGGDKRLIEAHNQAVDFAVRQVEALASTRVMTDGQSETVLTGNLV
MALFNHDTSRDQEPQLHTHAVVANVTQHNGEWKTLSSDKVGKTGFIENVYANQIAFGRLYREKLKEQVEA
LGYETEVVGKHGMWEMPGVPVEAFSGRSQTIREAVGEDASLKSRDVAALDTRKSKQHVDPEVRMAEWMQT
LKETGFDIRAYRDAADQRAETRTQAPGAVSQEGPDVQQAVTQAIAGLSERKVQFTYTDVLARTVGILPPE
NGVIERARAGIDEAISREQLIPLDREKGLFTSGIHVLDELSVRALSRDIMKQNRVTVHPEKSVPRTAGYS
DAVSVLAQDRPSLAIVSGQGGAAGQRERVAELVMMAREQGREVQIIAADRRSQMNLKQDERLSGELITGR
RQLLEGMAFTPGSTVIVDQGEKLSLKETLTLLDGAARHNVQVLITDSGQRTGTGSALMAMKDAGVNTYRW
QGGEQRPASIISEPDRNVRYTRLAGDFAASVKAGEESVAQVSGVREQAILTQAIRSELKTQGVLGHQEVT
MTALSPVWLDSRSRYLRDMYRPGMVMEQWNPETRSHDRYVIDRVTAQSHSLTLRDAQGETQVVRISSLDS
SWSLFRPEKMPVADGERLRVTGKIPGLRVSGGDRLQVASVSEDAMTVVVPGRAEPATLPVADSPFTALKL
ENGWVETPGHSVSDSAKVFASVTQMAMDNATLNGLARSGRDVRLYSSLDETRTAEKLARHPSFTVVSEQI
KARAGETSLETAISHQKSALHTPAQQAIHLALPVVESKNLAFSHVDLLTEAKSFAAEGTSFTELGREIDA
QIKRGDLLHVDVAKGYGTDLLVSRASYEAEKSILRHILEGKEAVTPLMERVPGELMETLTSGQRAATRMI
LETSDRFTVVQGYAGVGKTTQFRAVMSAVNMLSASERPRVVGLGPTHRAVGEMRSAGVDAQTLASFLHDT
QLQQRSGETPDFSNTLFLLDESSMVGNTDMARAYALIAAGGGRAVASGDTDQLQAIAPGQPFRLQQTRSA
ADVAIMKEIVRQTPELREAVYSLINRDVERALSGLESVKPSQVPRLEGAWAPEHSVTEFSHSQEAKLAEA
QQKAMLKGEAFPDVPMTLYEAIVRDYTGRTPEAREQTLIVTHLNEDRRVLNSMIHDAREKAGELGKEQVM
VPVLNTANIRDGELRRLSTWENNPDALALVDNVYHRIVGISKDDGLIILQDAEGNTRLISPREAVAEGVT
LYTPDTIRVGTGDRMRFTKSDRERGYVANSVWTVTAVSGDSVTLSDGQQTRVIRPGQEQAEQHIDLAYAI
TAHGAQGASETFAIALEGTEGNRKQMAGFESAYVALSRMKQHVQVYTDNRQGWTDAINNAVQKGTAHDVL
EPKPDREVMNAQRLFSTARELRDVAAGRAVLRQAGLAGGDSPARFIAPGRKYPQPYVALPAFDRNGRSAG
IWLNPLTTDDGNGLRGFSGEGRVKGSGDAQFVSLQGSRNGESLLADNMQEGVRIARDNPDSGVVVRIAGE
GRPWNPGAITGGRVWGDIPDNSVQPGAGNGEPVTAEVLAQRQAEEAIRRETERRADEIVRKMAENKPDLP
DGRTEQAVREIAGQERDRAAITEREAALPESVLRESQREREAVREVARENLLQERLQQMERDMVRDLQKE
KTLGGD

  Protein domains


Predicted by InterproScan.

TrwC relaxase (TrwC)

(10-283)

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

(575-627)

DNA helicase TraI (TraI_C)

(1434-1557)

AAA domain (AAA_30)

(968-1156)

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: 43387..59157

Locus tag Coordinates Strand Size (bp) Protein ID Product Description
ECRM13516_RS27690 (ECRM13516_5486) 43387..45540 - 2154 WP_001369365 type IV conjugative transfer system coupling protein TraD virb4
ECRM13516_RS27695 (ECRM13516_5487) 45792..46523 - 732 WP_000782454 conjugal transfer complement resistance protein TraT -
ECRM13516_RS27700 46572..47057 - 486 WP_000605868 hypothetical protein -
ECRM13516_RS27705 (ECRM13516_5489) 47073..49634 - 2562 Protein_50 conjugal transfer mating-pair stabilization protein TraG -
ECRM13516_RS27715 (ECRM13516_5491) 49684..50897 + 1214 WP_136952279 IS3 family transposase -
ECRM13516_RS33040 50944..51213 - 270 Protein_52 hypothetical protein -
ECRM13516_RS30905 (ECRM13516_5492) 51206..51427 - 222 WP_001278689 conjugal transfer protein TraR -
ECRM13516_RS27725 (ECRM13516_5493) 51562..52077 - 516 WP_021532964 type IV conjugative transfer system lipoprotein TraV traV
ECRM13516_RS27730 (ECRM13516_5494) 52074..52325 - 252 WP_001038348 conjugal transfer protein TrbG -
ECRM13516_RS27735 (ECRM13516_5495) 52318..52638 - 321 WP_025380715 conjugal transfer protein TrbD virb4
ECRM13516_RS27740 (ECRM13516_5496) 52625..53212 - 588 WP_025380716 conjugal transfer pilus-stabilizing protein TraP -
ECRM13516_RS27745 (ECRM13516_5497) 53202..54629 - 1428 WP_025380717 F-type conjugal transfer pilus assembly protein TraB traB
ECRM13516_RS27750 (ECRM13516_5498) 54629..55357 - 729 WP_001230787 type-F conjugative transfer system secretin TraK traK
ECRM13516_RS27755 (ECRM13516_5499) 55344..55910 - 567 WP_000399792 type IV conjugative transfer system protein TraE traE
ECRM13516_RS27760 (ECRM13516_5500) 55932..56243 - 312 WP_000012106 type IV conjugative transfer system protein TraL traL
ECRM13516_RS27765 (ECRM13516_5501) 56258..56617 - 360 WP_000340272 type IV conjugative transfer system pilin TraA -
ECRM13516_RS27770 (ECRM13516_5502) 56651..56878 - 228 WP_001254386 conjugal transfer relaxosome protein TraY -
ECRM13516_RS27775 (ECRM13516_5503) 56973..57659 - 687 WP_025380718 PAS domain-containing protein -
ECRM13516_RS27780 (ECRM13516_5504) 57850..58233 - 384 WP_000124981 conjugal transfer relaxosome DNA-binding protein TraM -
ECRM13516_RS27785 (ECRM13516_5505) 58510..59157 + 648 WP_122994606 transglycosylase SLT domain-containing protein virB1
ECRM13516_RS27790 (ECRM13516_5507) 59454..60275 - 822 WP_001234426 DUF932 domain-containing protein -
ECRM13516_RS27795 (ECRM13516_5508) 60393..60680 - 288 WP_000107535 hypothetical protein -
ECRM13516_RS33550 60705..60911 - 207 WP_000547968 hypothetical protein -
ECRM13516_RS33555 60981..61154 + 174 Protein_70 hypothetical protein -
ECRM13516_RS33560 (ECRM13516_5509) 61152..61382 - 231 WP_001426396 hypothetical protein -
ECRM13516_RS27810 61602..61727 - 126 WP_001372321 type I toxin-antitoxin system Hok family toxin -
ECRM13516_RS33565 61669..61818 - 150 Protein_73 plasmid maintenance protein Mok -
ECRM13516_RS32825 (ECRM13516_5510) 61840..62028 + 189 WP_001299721 hypothetical protein -
ECRM13516_RS27820 (ECRM13516_5511) 61997..62759 - 763 Protein_75 plasmid SOS inhibition protein A -
ECRM13516_RS27825 (ECRM13516_5512) 62756..63190 - 435 WP_025380720 conjugation system SOS inhibitor PsiB -
ECRM13516_RS30915 (ECRM13516_5513) 63245..63442 - 198 Protein_77 hypothetical protein -
ECRM13516_RS27830 (ECRM13516_5514) 63470..63703 - 234 WP_025380721 DUF905 family protein -

Host bacterium

ID   1083 GenBank   NZ_CP006263
Plasmid name   pO145-13516 Incompatibility group   IncFIB
Plasmid size   98066 bp Coordinate of oriT [Strand]   58312..58761 [+]
Host baterium   Escherichia coli O145:H28 str. RM13516

Cargo genes

Drug resistance gene   -
Virulence gene   stcE, exeE, exeG, hlyC, hlyA, hlyB, hlyD
Metal resistance gene   -
Degradation gene   -
Symbiosis gene   -
Anti-CRISPR   -