Detailed information of oriT

oriT

The information of the oriT region


oriTDB ID   100873
Name   oriT_pMRSN346638_61.1 in_silico
Organism   Escherichia coli strain MRSN346638
Sequence Completeness      intact
NCBI accession of oriT (coordinates [strand])   NZ_CP018119 (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_pMRSN346638_61.1
AAGAAGAGCACCCCTAGCAGCGCCCCTAGGGTCATACTATAAAAAAACGCACGGCGCTGCTAGGGGCGGCCCTAATATATCCAAATGTTTTTCATAAAATTTGTCAGTACTGACCCTAACAAGGGTCGCCATAGGGTCGCCATAGGGTCGTCAACGACCCTATTTAATAATGTAAAATAAATTAAAATACATTATTAAAAACATAAGCTAATGATTCAAAAAGCAAATCAGCAAAAACTTGTTTTTGCGTAGTGTGTGGTGCTTTTGGTGGTGAGAACCACCAACTAGTTGAGCCTTATAGTGGAGTAGGTTAAATTATTTCCGGATAATGTCACCAGAGGTGAAAAAATGAAAAAGTGGATGTTAGCAATCTTCCTGATGTTTATAAGTGGGATCTGTGAAGCCGCCGATTGTTTTGATCTTGCAGGCCGGGATTACAAAATAGACCCGGATTTACTGAGAGCGATATC

Visualization of oriT structure

  oriT secondary structure

Predicted by RNAfold.

Download structure file


Relaxase

ID   944 GenBank   WP_071940847
Name   TraI_pMRSN346638_61.1 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
BSG23_RS29280 (BSG23_25215) 22297..22503 + 207 WP_000547945 hypothetical protein -
BSG23_RS26870 (BSG23_25220) 22527..22823 + 297 WP_001272239 hypothetical protein -
BSG23_RS26875 (BSG23_25225) 22929..23750 + 822 WP_001444560 DUF932 domain-containing protein -
BSG23_RS26880 (BSG23_25230) 24048..24617 - 570 Protein_42 transglycosylase SLT domain-containing protein -
BSG23_RS26885 (BSG23_25235) 24972..25355 + 384 WP_029397922 conjugal transfer relaxosome DNA-binding protein TraM -
BSG23_RS26890 (BSG23_25240) 25546..26232 + 687 WP_029397923 PAS domain-containing protein -
BSG23_RS26895 (BSG23_25245) 26326..26553 + 228 WP_001254386 conjugal transfer relaxosome protein TraY -
BSG23_RS26900 (BSG23_25250) 26587..26952 + 366 WP_000340274 type IV conjugative transfer system pilin TraA -
BSG23_RS26905 (BSG23_25255) 26966..27277 + 312 WP_071940841 type IV conjugative transfer system protein TraL traL
BSG23_RS26910 (BSG23_25260) 27299..27865 + 567 WP_000399792 type IV conjugative transfer system protein TraE traE
BSG23_RS26915 (BSG23_25265) 27852..28580 + 729 WP_001230787 type-F conjugative transfer system secretin TraK traK
BSG23_RS26920 (BSG23_25270) 28580..30007 + 1428 WP_000146636 F-type conjugal transfer pilus assembly protein TraB traB
BSG23_RS26925 (BSG23_25275) 29997..30584 + 588 WP_071940842 conjugal transfer pilus-stabilizing protein TraP -
BSG23_RS26930 (BSG23_25280) 30571..30888 + 318 WP_024189706 conjugal transfer protein TrbD -
BSG23_RS26935 (BSG23_25285) 30888..31403 + 516 WP_071940843 type IV conjugative transfer system lipoprotein TraV traV
BSG23_RS26940 31538..31759 + 222 WP_001278689 conjugal transfer protein TraR -
BSG23_RS26945 (BSG23_25290) 31919..34546 + 2628 WP_071940844 type IV secretion system protein TraC virb4
BSG23_RS26950 (BSG23_25295) 34543..34929 + 387 WP_000214096 type-F conjugative transfer system protein TrbI -
BSG23_RS26955 (BSG23_25300) 34926..35558 + 633 WP_062873969 type-F conjugative transfer system protein TraW traW
BSG23_RS26960 (BSG23_25305) 35555..36547 + 993 WP_021559016 conjugal transfer pilus assembly protein TraU traU
BSG23_RS26965 (BSG23_25310) 36577..36882 + 306 WP_029397934 hypothetical protein -
BSG23_RS26970 (BSG23_25315) 36891..37529 + 639 WP_029397935 type-F conjugative transfer system pilin assembly protein TrbC trbC
BSG23_RS26975 (BSG23_25320) 37526..37897 + 372 WP_000056336 hypothetical protein -
BSG23_RS26980 (BSG23_25325) 37923..38345 + 423 WP_001229309 HNH endonuclease signature motif containing protein -
BSG23_RS26985 (BSG23_25330) 38342..40192 + 1851 WP_071940845 type-F conjugative transfer system mating-pair stabilization protein TraN traN
BSG23_RS26990 (BSG23_25335) 40219..40476 + 258 WP_000864325 conjugal transfer protein TrbE -
BSG23_RS26995 (BSG23_25340) 40469..41212 + 744 WP_001030371 type-F conjugative transfer system pilin assembly protein TraF traF
BSG23_RS27000 (BSG23_25345) 41373..41609 + 237 WP_000270010 type-F conjugative transfer system pilin chaperone TraQ -
BSG23_RS27005 (BSG23_25350) 41596..42141 + 546 WP_000059818 type-F conjugative transfer system pilin assembly thiol-disulfide isomerase TrbB traF
BSG23_RS27010 42131..42445 + 315 WP_001384255 P-type conjugative transfer protein TrbJ -
BSG23_RS27015 (BSG23_25355) 42399..42791 + 393 WP_053913402 F-type conjugal transfer protein TrbF -
BSG23_RS27020 (BSG23_25360) 42778..44151 + 1374 WP_021532658 conjugal transfer pilus assembly protein TraH traH
BSG23_RS27025 (BSG23_25365) 44148..46970 + 2823 WP_069040907 conjugal transfer mating-pair stabilization protein TraG traG
BSG23_RS27030 (BSG23_25370) 46986..47483 + 498 WP_000605867 hypothetical protein -
BSG23_RS27035 (BSG23_25375) 47515..48246 + 732 WP_021559024 conjugal transfer complement resistance protein TraT -
BSG23_RS27040 (BSG23_25380) 48449..49186 + 738 WP_000199911 hypothetical protein -
BSG23_RS27045 (BSG23_25385) 49237..51444 + 2208 WP_071940846 type IV conjugative transfer system coupling protein TraD virb4

Host bacterium

ID   1332 GenBank   NZ_CP018119
Plasmid name   pMRSN346638_61.1 Incompatibility group   IncFII(29)
Plasmid size   61085 bp Coordinate of oriT [Strand]   24436..24905 [-]
Host baterium   Escherichia coli strain MRSN346638

Cargo genes

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