Detailed information of oriT

oriT

The information of the oriT region


oriTDB ID   100225
Name   oriT_pSTMU2UK-2 in_silico
Organism   Salmonella enterica subsp. enterica serovar Typhimurium isolate STMU2UK
Sequence Completeness      intact
NCBI accession of oriT (coordinates [strand])   NZ_LT855377 (60677..60935 [-], 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_pSTMU2UK-2
GCAGCGCCCCCAGGGGTGTTACTTAAAAACAGGCACAGCGACGCTAGCAGCGCCCCTGATATAATGCAATGTTTTTTATAAAAATAGTCAGTACTACCCCTGTATAGCGTCGTCATAGCGGTGCCGGCGACGTGCCTGCACCGCTATTTAATACATTAAAATAAATTAAATTACATTATTATGAACATAACTCACTGTTACTAAAAACAAATCAGAAAAATTTTAATTTTGCGTGGGGTGTGGTGCTTTTGGTGGTGAG

Visualization of oriT structure

  oriT secondary structure

Predicted by RNAfold.

Download structure file


Relaxase

ID   296 GenBank   WP_000986921
Name   TraI_pSTMU2UK-2 insolico UniProt ID   H9L4G8
Length   1752 a.a. PDB ID   
Note   putative relaxase

  Relaxase protein sequence


Download         Length: 1752 a.a.        Molecular weight: 191683.72 Da        Isoelectric Point: 5.9311

>WP_000986921.1 MULTISPECIES: conjugative transfer relaxase/helicase TraI [Salmonella]
MMSIAQVRSAGSAAGYYSDRDNYYVLGSMEERWAGKGAEQLGLQGTVDKEVFTRVLEGRLPDGADLSRQQ
DGGNKHRPGYDLTFSAPKSVSLMAMLAGDKRLTEAHNQAVDIAVRQVEALASTRVMTDGQSETVLTGNLV
MALFNHDTSRDQEPQLHTHAVVVNVTQHDGEWKTLSSDKVGKTGFIENVYANQIAFGKIYRAVLKEKVEA
LGYETEVVGKHGMWEMPGVPVEAFSSRSQAIREAVGEDASLKSRDVAALDTRKSKQHVDPEVKMAEWMQT
LKDTGFDISAYRESADRRAEIQAAQPVPSQEQPDIQQAVTQAIAGLSDRKVQFTYTDVLARTVGMLPPEA
GVIEKARAGIDEAISREQLIPLDREKGLFTSGIHVLDELSVRALSSDIMKQNRVTVHPEKSVPRTGSYSD
AVSVLAQDRPSLAIISGQGGAAGQRERVAELTMMAREQGREVQIIVADRRSQTNLKQDERLSGELITGRR
QLQEGMLFSPGSTVIVDQGEKLSLKETLTLLDGAARHNVQVLITDSGQRTGTGSALMAMKEAGVNSYRWQ
GRQQTPATVISEPDRNVRYARLAGDFVAAVKAGEESVAQVSGMREQAILAGMIRSELKTQGILGQQDTMM
TALSPVWLDSRNRYLRDMYREGMVMEQWNPEKRSHDRYVIDRVTAQSHSLTLRDAQGETQMVRISALDSS
WSLFRPEKMPVADGERLMVTGKIPGLRVSVGDRLQVSAVNDGVMTVTVPGRAEPASLPVGDSPFTALKLE
NGWVETPGHSVSDSAKVFASVTQMAMDNATLNSLARSGRDVRLYSSLDETRTAEKLSRHPSFTVVSEQIK
ARAGEVSLETAISRQKAGLHTPAQQAIHLALPVVESKNLAFSQVDLLTEAKSFAAEGTGFADLGREIDAQ
IKRGDLLYVDVAKGYGTDLLISRASYDAEKSILHHILEGKEAVTPLMERVPGELMETLTSGQRAATRMIL
ETKDRFTVVQGYAGVGKTTQFRAVMSAVNLLPESERPRVVGLGPTHRAVGEMRSAGVEAQTLASFLHDTQ
LQQRSGETPDFSNTLFLLDESSMVGNTDMARAYALIAAGGGRAVASGDTDQLQAIAPGQPFRLQQTRSAA
DVAIMKEIVRQTPELRDAVYSLINRDVNKALSGLENVKPVQVPRLKGAWAPENSVTEFSRLQERELAKAA
QEAEKKGEAFPDVPVTLYEAIVRDYTGRTPEAREQTLIVTHLNEDRRVLNSMIQDALAKPGEQQVTVPVL
TTANIRDGELRRLSTWEAHPGALALVDNVYHRIAGISKEDGLITLEDKAGNTRLISPREAAAEGVTLYNP
ETIRVGAGDRMRFTKSDRERGYVANSVWTVTAVSGDSVTLSDGKQTRVVRPGQDRAEQHIDLAYAITAHS
AQGASETFAIALEGTEGGRKQMAGFESAYVALSRMKQHVQVYTDDRQGWVKAINSAEQKGTAHDVLEPKS
EREMMNAERLFSTARELRDVAAGRAVLRNAGLAQGDSRARFIAPGRKYPQPYVALPAFDRNGKSAGIWLN
PLTTDDGAGLRGFTGEGRVKGSEEAQFVALQGSRNGESLLAGSMQDGVRIARENPDSGVVVRIVGDGRPW
NPVAITGGRVWGDIPDSNVQPGAGNGEPVTAEILAQRQAEEAVRRETERRADEIVRKMAEDKSDLPEEKT
AQAVREIAGQEQDRMTPPEREPPLPESVLREPQRERETIREVARENRGRERLQQMEQEMVRDLQKEKTPG
GD

  Protein domains


Predicted by InterproScan.

AAA domain (AAA_30)

(967-1158)

TrwC relaxase (TrwC)

(11-282)

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

(632-711)

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

(574-626)

DNA helicase TraI (TraI_C)

(1430-1553)


  Protein structure



No available structure.




T4SS

T4SS were predicted by using oriTfinder2.

Region 1: 60133..86489

Locus tag Coordinates Strand Size (bp) Protein ID Product Description
STMU2UK_RS24885 (STMU2UK_PSLT_063) 55289..57286 + 1998 WP_000117513 ParB/RepB/Spo0J family partition protein -
STMU2UK_RS24890 (STMU2UK_PSLT_064) 57326..57760 + 435 WP_010999943 conjugation system SOS inhibitor PsiB -
STMU2UK_RS24895 (STMU2UK_PSLT_065) 57757..58494 + 738 WP_000581933 plasmid SOS inhibition protein A -
STMU2UK_RS25605 58529..58657 + 129 WP_000372429 hypothetical protein -
STMU2UK_RS25345 58743..58901 + 159 WP_001704449 hypothetical protein -
STMU2UK_RS25350 59004..59822 + 819 Protein_79 DUF932 domain-containing protein -
STMU2UK_RS24915 (STMU2UK_PSLT_066) 60133..60603 - 471 WP_001526856 transglycosylase SLT domain-containing protein virB1
STMU2UK_RS24925 (STMU2UK_PSLT_067) 61018..61398 + 381 WP_001151546 conjugal transfer relaxosome DNA-binding protein TraM -
STMU2UK_RS24930 (STMU2UK_PSLT_068) 61591..62277 + 687 WP_000336297 PAS domain-containing protein -
STMU2UK_RS24935 (STMU2UK_PSLT_069) 62371..62598 + 228 WP_001676655 conjugal transfer relaxosome protein TraY -
STMU2UK_RS24940 (STMU2UK_PSLT_070) 62640..63002 + 363 WP_001274201 type IV conjugative transfer system pilin TraA -
STMU2UK_RS24945 (STMU2UK_PSLT_071) 63017..63328 + 312 WP_012825259 type IV conjugative transfer system protein TraL traL
STMU2UK_RS24950 (STMU2UK_PSLT_072) 63350..63916 + 567 WP_000399768 type IV conjugative transfer system protein TraE traE
STMU2UK_RS24955 (STMU2UK_PSLT_073) 63903..64643 + 741 WP_001230719 type-F conjugative transfer system secretin TraK traK
STMU2UK_RS24960 (STMU2UK_PSLT_074) 64643..66064 + 1422 WP_000146700 F-type conjugal transfer pilus assembly protein TraB traB
STMU2UK_RS24965 (STMU2UK_PSLT_075) 66054..66650 + 597 WP_000527896 conjugal transfer pilus-stabilizing protein TraP -
STMU2UK_RS24970 (STMU2UK_PSLT_076) 66628..66873 + 246 WP_010999944 DUF2689 domain-containing protein virb4
STMU2UK_RS24975 (STMU2UK_PSLT_077) 66870..67385 + 516 WP_001079995 type IV conjugative transfer system lipoprotein TraV traV
STMU2UK_RS24980 (STMU2UK_PSLT_078) 67520..67741 + 222 WP_001278699 conjugal transfer protein TraR -
STMU2UK_RS24985 (STMU2UK_PSLT_079) 67734..68201 + 468 WP_000549562 hypothetical protein -
STMU2UK_RS24990 68318..68581 + 264 WP_001239255 hypothetical protein -
STMU2UK_RS24995 (STMU2UK_PSLT_080) 68597..71245 + 2649 WP_012825260 type IV secretion system protein TraC virb4
STMU2UK_RS25000 (STMU2UK_PSLT_081) 71220..71606 + 387 WP_000105164 type-F conjugative transfer system protein TrbI -
STMU2UK_RS25005 (STMU2UK_PSLT_082) 71603..72235 + 633 WP_000871995 type-F conjugative transfer system protein TraW traW
STMU2UK_RS25010 (STMU2UK_PSLT_083) 72232..73224 + 993 WP_000833320 conjugal transfer pilus assembly protein TraU traU
STMU2UK_RS25015 (STMU2UK_PSLT_084) 73243..73551 + 309 WP_010999945 hypothetical protein -
STMU2UK_RS25020 (STMU2UK_PSLT_085) 73536..74174 + 639 WP_000554823 type-F conjugative transfer system pilin assembly protein TrbC trbC
STMU2UK_RS25025 74211..74630 + 420 WP_001229397 HNH endonuclease signature motif containing protein -
STMU2UK_RS25030 (STMU2UK_PSLT_086) 74627..76453 + 1827 WP_000827528 type-F conjugative transfer system mating-pair stabilization protein TraN traN
STMU2UK_RS25035 (STMU2UK_PSLT_087) 76464..76679 + 216 WP_000700023 conjugal transfer protein TrbE -
STMU2UK_RS25040 (STMU2UK_PSLT_088) 76691..77440 + 750 WP_001226854 type-F conjugative transfer system pilin assembly protein TraF traF
STMU2UK_RS25045 (STMU2UK_PSLT_089) 77654..77947 + 294 WP_001233881 type-F conjugative transfer system pilin chaperone TraQ -
STMU2UK_RS25050 (STMU2UK_PSLT_090) 77934..78482 + 549 WP_087476764 type-F conjugative transfer system pilin assembly thiol-disulfide isomerase TrbB traF
STMU2UK_RS25055 (STMU2UK_PSLT_091) 78472..79854 + 1383 WP_001161719 conjugal transfer pilus assembly protein TraH traH
STMU2UK_RS25060 (STMU2UK_PSLT_092) 79851..82673 + 2823 WP_001007086 conjugal transfer mating-pair stabilization protein TraG traG
STMU2UK_RS25065 (STMU2UK_PSLT_093) 82689..83183 + 495 WP_010999946 entry exclusion protein -
STMU2UK_RS25070 (STMU2UK_PSLT_094) 83219..83950 + 732 WP_000782438 conjugal transfer complement resistance protein TraT -
STMU2UK_RS25075 (STMU2UK_PSLT_095) 84327..86489 + 2163 WP_000009318 type IV conjugative transfer system coupling protein TraD virb4
STMU2UK_RS25080 (STMU2UK_PSLT_096) 86498..86896 - 399 WP_000911322 type II toxin-antitoxin system VapC family toxin -
STMU2UK_RS25085 (STMU2UK_PSLT_097) 86896..87123 - 228 WP_000450265 toxin-antitoxin system antitoxin VapB -

Host bacterium

ID   687 GenBank   NZ_LT855377
Plasmid name   pSTMU2UK -2 Incompatibility group   IncFII
Plasmid size   93862 bp Coordinate of oriT [Strand]   60677..60935 [-]
Host baterium   Salmonella enterica subsp. enterica serovar Typhimurium isolate STMU2UK

Cargo genes

Drug resistance gene   -
Virulence gene   rck, pefD, pefC, pefA, pefB, fdeC, spvC, spvB
Metal resistance gene   -
Degradation gene   -
Symbiosis gene   -
Anti-CRISPR   -