Detailed information of oriT

oriT

The information of the oriT region


oriTDB ID   100854
Name   oriT_p22495-1 in_silico
Organism   Salmonella enterica subsp. enterica serovar Typhimurium strain 22495
Sequence Completeness      intact
NCBI accession of oriT (coordinates [strand])   NZ_CP017618 (59333..59591 [-], 259 nt)
oriT length   259 nt
IRs (inverted repeats)      115..128, 134..147  (ATAGCGGTGCCGGC..GCCTGCACCGCTAT)
Location of nic site      241..242
Conserved sequence flanking the
  nic site    		  GTGGGGTGT|GG
Note   predicted by the oriTfinder

  oriT sequence  


Download         Length: 259 nt

>oriT_p22495-1
GCAGCGCCCCCAGGGGTGTTACTTAAAAACAGGCACAGCGACGCTAGCAGCGCCCCTGATATAATGCAATGTTTTTTATAAAAATAGTCAGTACTACCCCTGTATAGCGTCGTCATAGCGGTGCCGGCGACGTGCCTGCACCGCTATTTAATACATTAAAATAAATTAAATTACATTATTATGAACATAACTCACTGTTACTAAAAACAAATCAGAAAAATTTTAATTTTGCGTGGGGTGTGGTGCTTTTGGTGGTGAG

Visualization of oriT structure

  oriT secondary structure

Predicted by RNAfold.

Download structure file


Relaxase

ID   926 GenBank   WP_078164433
Name   TraI_p22495-1 insolico UniProt ID   _
Length   1685 a.a. PDB ID   
Note   putative relaxase

  Relaxase protein sequence


Download         Length: 1685 a.a.        Molecular weight: 183669.82 Da        Isoelectric Point: 5.8498

>WP_078164433.1 conjugative transfer relaxase/helicase TraI [Salmonella enterica]
MMSIAQVRSAGSAAGYYSDRDNYYVLGSMEERWAGKGAEQLGLQGTVDKEVFTRVLEGRLPDGADLSRQQ
DGGNKHRPGYDLTFSAPKSVSLMAMLAGDKRLTEAHNQAVDIAVRQVEALASTRVMTDGQSETVLTGNLV
MALFNHDTSRDQEPQLHTHAVVVNVTQHDGEWKTLSSDKVGKTGFIENVYANQIAFGKIYRAVLKEKVEA
LGYETEVVGKHGMWEMPGVPVEAFSSRSQAIREAVGEDASLKSRDVAALDTRKSKQHVDPEVKMAEWMQT
LKDTGFDISAYRESADRRAEIQAAQPVPSQEQPDIQQAVTQAIAGLSDRKVQFTYTDVLARTVGMLPPEA
GVIEKARAGIDEAISREQLIPLDREKGLFTSGIHVLDELSVRALSSDIMKQNRVTVHPEKSVPRTGSYSD
AVSVLAQDRPSLAIISGQGGAAGQRERVAELTMMAREQGREVQIIVADRRSQTNLKQDERLSGELITGRR
QLQEGMLFSPGSTVIVDQGEKLSLKETLTLLDGAARHNVQVLITDSGQRTGTGSALMAMKEAGVNSYRWQ
GRQQTPATVISEPDRNVRYARLAGDFVAAVKAGEESVAQVSGMREQAILAGMIRSELKTQGILGQQDTMM
TALSPVWLDSRNRLTLRDAQGETQMVRISALDSSWSLFRPEKMPVADGERLMVTGKIPGLRVSVGDRLQV
SAVNDGVMTVTVPGRAEPASLPVGDSPFTALKLENGWVETPGHSVSDSAKVFASVTQMAMDNATLNSLAR
SGRDVRLYSSLDGTRTAEKLSRHPSFTVVSEQIKARAGEVSLETAISRQKAGLHTPAQQAIHLALPVVES
KNLAFSQVDLLTEAKSFAAEGTGFADLGREIDAQIKRGDLLYVDVAKGYGTDLLISRASYDAEKSILHHI
LEGKEAVTPLMERVPGELMETLTSGQRAATRMILETKDRFTVVQGYAGVGKTTQFRAVMSAVNLLPESER
PRVVGLGPTHRAVGEMRSAGVEAQTLASFLHDTQLQQRSGETPDFSNTLFLLDESSMVGNTDMARAYALI
AAGGGRAVASGDTDQLQAIAPGQPFRLQQTRSAADVAIMKEIVRQTPELRDAVYSLINRDVNKALSGLEN
VKPVQVPRLKGAWAPENSVTEFSRLQERELAKAAQEAEKKGEAFPDVPVTLYEAIVRDYTGRTPEAREQT
LIVTHLNEDRRVLNSMIQDALAKPGEQQVTVPVLTTANIRDGELRRLSTWEAHPGALALVDNVYHRIAGI
SKEDGLITLEDKAGNTRLISPREAAAEGVTLYNPETIRVGAGDRMRFTKSDRERGYVANSVWTVTAVSGD
SVTLSDGKQTRVVRPGQDRAEQHIDLAYAITAHSAQGASETFAIALEGTEGGRKQMAGFESAYVALSRMK
QQSEREMMNAERLFSTARELRDVAAGRAVLRNAGLAQGDSRARFIAPGRKYPQPYVALPAFDRNGKSAGI
WLNPLTTDDGAGLRGFTGEGRVKGSEEAQFVALQGSRNGESLLAGSMQDGVRIARENPDSGVVVRIVGDG
RPWNPVAITGGRVWGDIPDSNVQPGAGNGEPVTAEILAQRQAEEAVRRETERRADEIVRKMAEDKSDLPE
EKTAQAVREIAGQEQDRMTPPEREPPLPESVLREPQRERETIREVARENRGRERLQQMEQEMVRDLQKEK
TPGGD

  Protein domains


Predicted by InterproScan.

AAA domain (AAA_30)

(931-1122)

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

(641-675)

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

(574-626)

DNA helicase TraI (TraI_C)

(1397-1486)

TrwC relaxase (TrwC)

(11-282)


  Protein structure



No available structure.




T4SS

T4SS were predicted by using oriTfinder2.

Region 1: 61673..84983

Locus tag Coordinates Strand Size (bp) Protein ID Product Description
BKC11_RS25815 57400..57558 + 159 WP_001704449 hypothetical protein -
BKC11_RS25710 57661..58479 + 819 Protein_72 DUF945 domain-containing protein -
BKC11_RS25125 (BKC11_23820) 58790..59259 - 470 Protein_73 transglycosylase SLT domain-containing protein -
BKC11_RS25135 (BKC11_23825) 59674..60054 + 381 WP_001151546 conjugal transfer relaxosome DNA-binding protein TraM -
BKC11_RS25140 (BKC11_23830) 60247..60932 + 686 Protein_75 PAS domain-containing protein -
BKC11_RS25145 61027..61254 + 228 WP_001676655 conjugal transfer relaxosome protein TraY -
BKC11_RS25150 (BKC11_23835) 61296..61658 + 363 WP_001274201 type IV conjugative transfer system pilin TraA -
BKC11_RS25155 (BKC11_23840) 61673..61984 + 312 WP_000012129 type IV conjugative transfer system protein TraL traL
BKC11_RS25160 (BKC11_23845) 62006..62572 + 567 WP_000399768 type IV conjugative transfer system protein TraE traE
BKC11_RS25165 (BKC11_23850) 62559..63299 + 741 WP_001230719 type-F conjugative transfer system secretin TraK traK
BKC11_RS25170 (BKC11_23855) 63299..64720 + 1422 WP_000146700 F-type conjugal transfer pilus assembly protein TraB traB
BKC11_RS25175 (BKC11_23860) 64710..65306 + 597 WP_000527896 conjugal transfer pilus-stabilizing protein TraP -
BKC11_RS25180 (BKC11_23865) 65284..65529 + 246 WP_010999944 DUF2689 domain-containing protein virb4
BKC11_RS25185 (BKC11_23870) 65526..66041 + 516 WP_001079995 type IV conjugative transfer system lipoprotein TraV traV
BKC11_RS25190 (BKC11_23875) 66176..66397 + 222 WP_001278699 conjugal transfer protein TraR -
BKC11_RS25195 (BKC11_23880) 66390..66857 + 468 WP_000549562 hypothetical protein -
BKC11_RS25200 (BKC11_23885) 66974..67237 + 264 WP_001239255 hypothetical protein -
BKC11_RS25205 (BKC11_23890) 67253..69901 + 2649 WP_000793310 type IV secretion system protein TraC virb4
BKC11_RS25210 (BKC11_23895) 69876..70262 + 387 WP_000105164 type-F conjugative transfer system protein TrbI -
BKC11_RS25215 (BKC11_23900) 70259..70790 + 532 Protein_90 type-F conjugative transfer system protein TraW -
BKC11_RS25220 (BKC11_23905) 70787..71779 + 993 WP_078164431 conjugal transfer pilus assembly protein TraU traU
BKC11_RS25225 (BKC11_23910) 71798..72106 + 309 WP_010999945 hypothetical protein -
BKC11_RS25230 (BKC11_23915) 72091..72729 + 639 WP_000554823 type-F conjugative transfer system pilin assembly protein TrbC trbC
BKC11_RS25235 (BKC11_23920) 72766..73185 + 420 WP_001229397 HNH endonuclease signature motif containing protein -
BKC11_RS25240 (BKC11_23925) 73182..75008 + 1827 WP_000827529 type-F conjugative transfer system mating-pair stabilization protein TraN traN
BKC11_RS25245 (BKC11_23930) 75019..75234 + 216 WP_000700023 conjugal transfer protein TrbE -
BKC11_RS25250 (BKC11_23935) 75246..75995 + 750 WP_001226854 type-F conjugative transfer system pilin assembly protein TraF traF
BKC11_RS25255 (BKC11_23940) 76209..76502 + 294 WP_001233881 type-F conjugative transfer system pilin chaperone TraQ -
BKC11_RS25260 (BKC11_23945) 76489..77037 + 549 WP_078164432 type-F conjugative transfer system pilin assembly thiol-disulfide isomerase TrbB traF
BKC11_RS25265 (BKC11_23950) 77027..78409 + 1383 WP_001161719 conjugal transfer pilus assembly protein TraH traH
BKC11_RS25270 (BKC11_23955) 78406..81169 + 2764 Protein_101 conjugal transfer mating pair stabilization protein TraG -
BKC11_RS25275 (BKC11_23960) 81185..81678 + 494 Protein_102 entry exclusion protein -
BKC11_RS25280 (BKC11_23965) 81714..82445 + 732 WP_000782438 conjugal transfer complement resistance protein TraT -
BKC11_RS25285 (BKC11_23970) 82821..84983 + 2163 WP_000009318 type IV conjugative transfer system coupling protein TraD virb4
BKC11_RS25290 (BKC11_23975) 84992..85390 - 399 WP_000911322 type II toxin-antitoxin system VapC family toxin -
BKC11_RS25295 (BKC11_23980) 85390..85617 - 228 WP_000450265 toxin-antitoxin system antitoxin VapB -

Host bacterium

ID   1314 GenBank   NZ_CP017618
Plasmid name   p22495-1 Incompatibility group   IncFII
Plasmid size   93055 bp Coordinate of oriT [Strand]   59333..59591 [-]
Host baterium   Salmonella enterica subsp. enterica serovar Typhimurium strain 22495

Cargo genes

Drug resistance gene   -
Virulence gene   Salmonella plasmid virulence
Metal resistance gene   -
Degradation gene   -
Symbiosis gene   -
Anti-CRISPR   -