Detailed information of oriT

oriT

The information of the oriT region


oriTDB ID   100869
Name   oriT_pMR0716_IncFII in_silico
Organism   Escherichia coli strain MRSN352231
Sequence Completeness      intact
NCBI accession of oriT (coordinates [strand])   NZ_CP018107 (24436..24905 [-], 470 nt)
oriT length   470 nt
IRs (inverted repeats)      142..151, 154..163  (ATAGTGTCGT..ACGACCCTAT)
 231..238, 241..248  (GCAAAAAC..GTTTTTGC)
Location of nic site      257..258
Conserved sequence flanking the
  nic site    		  GTAGTGTGT|GG
Note   predicted by the oriTfinder

  oriT sequence  


Download         Length: 470 nt

>oriT_pMR0716_IncFII
AAGAAGAGCACCCCTAGCAGCGCCCCTAGGGTCATACTATAAAAAAACGCACGGCGCTGCTAGGGGCGGCCCTAATATATCCAAATGTTTTTCATAAAATTTGTCAGTACTGACCCTAACAAGGGTCGCCATAGGGTCGCCATAGGGTCGTCAACGACCCTATTTAATAATGTAAAATAAATTAAAATACATTATTAAAAACATAAGCTAATGATTCAAAAAGCAAATCAGCAAAAACTTGTTTTTGCGTAGTGTGTGGTGCTTTTGGTGGTGAGAACCACCAACTAGTTGAGCCTTATAGTGGAGTAGGTTAAATTATTTCCGGATAATGTCACCAGAGGTGAAAAAATGAAAAAGTGGATGTTAGCAATCTTCCTGATGTTTATAAGTGGGATCTGTGAAGCCGCCGATTGTTTTGATCTTGCAGGCCGGGATTACAAAATAGACCCGGATTTACTGAGAGCGATATC

Visualization of oriT structure

  oriT secondary structure

Predicted by RNAfold.

Download structure file


Relaxase

ID   940 GenBank   WP_071940847
Name   TraI_pMR0716_IncFII insolico UniProt ID   _
Length   1756 a.a. PDB ID   
Note   putative relaxase

  Relaxase protein sequence


Download         Length: 1756 a.a.        Molecular weight: 191890.47 Da        Isoelectric Point: 6.0275

>WP_071940847.1 conjugative transfer relaxase/helicase TraI [Escherichia coli]
MLSFSVVKSAGSAGNYYTDKDNYYVLGSMGERWAGQGAEQLGLQGSVDKDVFTRLLEGRLPDGADLSRMQ
DGSNKHRPGYDLTFSAPKSVSMMAMLGGDKRLIDAHNQAVDFAVRQVEALASTRVMTDGQSETVLTGNLV
MALFNHDTSRDQDPQLHTHVVVANVTQHNGEWKTLSSDKVGKTGFSENVLANRIAFGKIYQSELRQRVEA
LGYETEVVGKHGMWEMPGVPVEAFSSRSQAIREAVGEDASLKSRDVAALDTRKSKQHVDPEIRMAEWMQT
LKETGFDIRAYRDAADQRAEIRTQAPGPASQDGPDVQQAVTQAIAGLSERKVQFTYTDVLARTVGILPPE
NGVIERARAGIDEAISREQLIPLDREKGLFTSGIHVLDELSVRALSRDIMKQNRVTVHPEKSVPRTAGYS
DAVSVLAQDRPSLAIVSGQGGAAGQRERVAELVMMAREQGREVQIIAADRRSQMNLKQDERLSGELITGR
RQLLEGMAFTPGSTVIVDQGEKLSLKETLTLLDGAARHNVQVLITDSGQRTGTGSALMAMKDAGVNTYRW
QGGEQRPATIISEPDRNVRYARLAGDFAASVKAGEESVAQVSGVREQAILTQAIRSELKTQGVLGHPEVT
MTALSPVWLDSRSRYLRDMYRPGMVMEQWNPETRSHDRYVIDRVTAQSHSLTLRGAQGETQVVRISSLDS
SWSLFRPEKMPVAGGERLRVTGKIPGLRVSGGDRLQVASVSEDVMTVVVPGRAEPATLPVSNSPFTALKL
ESGWVETPGHSVSDSAKVFASVTQMAMDNATLNGLARSGRDVRLYSSLDETRTAEKLARHPSFTVVSEQI
KARAGETSLETAISHQKSALHTPAQQAIHLALPVVESKNLAFSQVDLLTEAKSFAAEGTSFVDLGREINA
QIKRGDLLHVDVAKGYGTDLLVSRASYEAEKSILRHILEGKEAVTPLMERVPGELMEKLTSGQRAATRMI
LETSDRFTVVQGYAGVGKTTQFRAVMSAVNMLPESERPRVVGLGPTHRAVGEMRSAGVDAQTLASFLHDT
QLQQRSGETPDFSNTLFLLDESSMVGNTDMARAYTLIAAGGGRAVASGDTDQLQAIAPGQPFRLQQTRSA
ADVAIMKEIVRQTPELREAVYSLINRDVERALSGLESVKPSQVPRQEGAWAPEHSVTEFSHSQEAKLAEA
QQEAMQKGEAFPDVPMTLYEAIVRDYTGRTPEAREQTLIVTHLNEDRRVLNSMIHDAREKAGELGKEQVM
VPVLNTANIRDGELRRLSTWETHRDALALVDNVYHRIAGISKDDGLITLQDAEGNTRLISPREAVAEGVS
LYTPDKIRVGTGDRMRFTKSDRERGYVANSVWTVTAVSGDSVTLSDGQQTRVIRPAQEQAEQHIDLAYAI
TAHGAQGASETFAIVLEGTEGNRKLMAGFESAYVALSRMKQHVQVYTDDRQGWTDAINNAVQKGTAHDVL
EPKADREVMNAERLFSTARELRDVAAGRAVLRQAGLAGGDSPARFIAPGRKYPQPYVALPAFDRNGKSAG
IWLNPLTTDDGNGLRGFSGEGRVKGSGDAQFVALQGSRNGESLLADNMQDGVRIARDNPDSGVVVRIAGE
GRPWNPGAITGGRVWGDIPDNSVQPGAGNGEPVTAEVLAQRQAEEAIRRETERRADEIVRKMAENKPDLP
DGRTEQAVREIAGQERDRAAITEREAALPESVLRESQREREAVREVARENLLQERLQQMERDMVRDLQKE
KTLGGD

  Protein domains


Predicted by InterproScan.

AAA domain (AAA_30)

(969-1156)

DNA helicase TraI (TraI_C)

(1434-1557)

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

(633-712)

TrwC relaxase (TrwC)

(10-283)

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: 26966..51444

Locus tag Coordinates Strand Size (bp) Protein ID Product Description
BSG22_RS30565 (BSG22_25680) 22297..22503 + 207 WP_000547945 hypothetical protein -
BSG22_RS27520 (BSG22_25685) 22527..22823 + 297 WP_001272239 hypothetical protein -
BSG22_RS27525 (BSG22_25690) 22929..23750 + 822 WP_001444560 DUF932 domain-containing protein -
BSG22_RS27530 (BSG22_25695) 24048..24617 - 570 Protein_42 transglycosylase SLT domain-containing protein -
BSG22_RS27535 (BSG22_25700) 24972..25355 + 384 WP_029397922 conjugal transfer relaxosome DNA-binding protein TraM -
BSG22_RS27540 (BSG22_25705) 25546..26232 + 687 WP_029397923 PAS domain-containing protein -
BSG22_RS27545 (BSG22_25710) 26326..26553 + 228 WP_001254386 conjugal transfer relaxosome protein TraY -
BSG22_RS27550 (BSG22_25715) 26587..26952 + 366 WP_000340274 type IV conjugative transfer system pilin TraA -
BSG22_RS27555 (BSG22_25720) 26966..27277 + 312 WP_071940841 type IV conjugative transfer system protein TraL traL
BSG22_RS27560 (BSG22_25725) 27299..27865 + 567 WP_000399792 type IV conjugative transfer system protein TraE traE
BSG22_RS27565 (BSG22_25730) 27852..28580 + 729 WP_001230787 type-F conjugative transfer system secretin TraK traK
BSG22_RS27570 (BSG22_25735) 28580..30007 + 1428 WP_000146636 F-type conjugal transfer pilus assembly protein TraB traB
BSG22_RS27575 (BSG22_25740) 29997..30584 + 588 WP_071940842 conjugal transfer pilus-stabilizing protein TraP -
BSG22_RS27580 (BSG22_25745) 30571..30888 + 318 WP_024189706 conjugal transfer protein TrbD -
BSG22_RS27585 (BSG22_25750) 30888..31403 + 516 WP_071940843 type IV conjugative transfer system lipoprotein TraV traV
BSG22_RS27590 31538..31759 + 222 WP_001278689 conjugal transfer protein TraR -
BSG22_RS27595 (BSG22_25755) 31919..34546 + 2628 WP_071940844 type IV secretion system protein TraC virb4
BSG22_RS27600 (BSG22_25760) 34543..34929 + 387 WP_000214096 type-F conjugative transfer system protein TrbI -
BSG22_RS27605 (BSG22_25765) 34926..35558 + 633 WP_062873969 type-F conjugative transfer system protein TraW traW
BSG22_RS27610 (BSG22_25770) 35555..36547 + 993 WP_021559016 conjugal transfer pilus assembly protein TraU traU
BSG22_RS27615 (BSG22_25775) 36577..36882 + 306 WP_029397934 hypothetical protein -
BSG22_RS27620 (BSG22_25780) 36891..37529 + 639 WP_029397935 type-F conjugative transfer system pilin assembly protein TrbC trbC
BSG22_RS27625 (BSG22_25785) 37526..37897 + 372 WP_000056336 hypothetical protein -
BSG22_RS27630 (BSG22_25790) 37923..38345 + 423 WP_001229309 HNH endonuclease signature motif containing protein -
BSG22_RS27635 (BSG22_25795) 38342..40192 + 1851 WP_071940845 type-F conjugative transfer system mating-pair stabilization protein TraN traN
BSG22_RS27640 (BSG22_25800) 40219..40476 + 258 WP_000864325 conjugal transfer protein TrbE -
BSG22_RS27645 (BSG22_25805) 40469..41212 + 744 WP_001030371 type-F conjugative transfer system pilin assembly protein TraF traF
BSG22_RS27650 (BSG22_25810) 41373..41609 + 237 WP_000270010 type-F conjugative transfer system pilin chaperone TraQ -
BSG22_RS27655 (BSG22_25815) 41596..42141 + 546 WP_000059818 type-F conjugative transfer system pilin assembly thiol-disulfide isomerase TrbB traF
BSG22_RS27660 42131..42445 + 315 WP_001384255 P-type conjugative transfer protein TrbJ -
BSG22_RS27665 (BSG22_25820) 42399..42791 + 393 WP_053913402 F-type conjugal transfer protein TrbF -
BSG22_RS27670 (BSG22_25825) 42778..44151 + 1374 WP_021532658 conjugal transfer pilus assembly protein TraH traH
BSG22_RS27675 (BSG22_25830) 44148..46970 + 2823 WP_069040907 conjugal transfer mating-pair stabilization protein TraG traG
BSG22_RS27680 (BSG22_25835) 46986..47483 + 498 WP_000605867 hypothetical protein -
BSG22_RS27685 (BSG22_25840) 47515..48246 + 732 WP_021559024 conjugal transfer complement resistance protein TraT -
BSG22_RS27690 (BSG22_25845) 48449..49186 + 738 WP_000199911 hypothetical protein -
BSG22_RS27695 (BSG22_25850) 49237..51444 + 2208 WP_071940846 type IV conjugative transfer system coupling protein TraD virb4

Host bacterium

ID   1328 GenBank   NZ_CP018107
Plasmid name   pMR0716_IncFII Incompatibility group   IncFII(29)
Plasmid size   61085 bp Coordinate of oriT [Strand]   24436..24905 [-]
Host baterium   Escherichia coli strain MRSN352231

Cargo genes

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