Detailed information of oriT

oriT

The information of the oriT region


oriTDB ID   100820
Name   oriT_pSLT931 in_silico
Organism   Salmonella enterica subsp. enterica serovar Typhimurium strain ST931R
Sequence Completeness      intact
NCBI accession of oriT (coordinates [strand])   NZ_CP016390 (60670..60928 [-], 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_pSLT931
GCAGCGCCCCCAGGGGTGTTACTTAAAAACAGGCACAGCGACGCTAGCAGCGCCCCTGATATAATGCAATGTTTTTTATAAAAATAGTCAGTACTACCCCTGTATAGCGTCGTCATAGCGGTGCCGGCGACGTGCCTGCACCGCTATTTAATACATTAAAATAAATTAAATTACATTATTATGAACATAACTCACTGTTACTAAAAACAAATCAGAAAAATTTTAATTTTGCGTGGGGTGTGGTGCTTTTGGTGGTGAG

Visualization of oriT structure

  oriT secondary structure

Predicted by RNAfold.

Download structure file


Relaxase

ID   892 GenBank   WP_000986921
Name   TraI_pSLT931 insolico UniProt ID   _
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: 63010..86482

Locus tag Coordinates Strand Size (bp) Protein ID Product Description
BBC45_RS28465 58523..58651 + 129 WP_000372429 hypothetical protein -
BBC45_RS28115 58737..58895 + 159 WP_001704449 hypothetical protein -
BBC45_RS28120 58998..59816 + 819 Protein_79 DUF932 domain-containing protein -
BBC45_RS25140 (BBC45_01640) 60127..60596 - 470 Protein_80 transglycosylase SLT domain-containing protein -
BBC45_RS25145 (BBC45_01645) 61011..61391 + 381 WP_001151546 conjugal transfer relaxosome DNA-binding protein TraM -
BBC45_RS25150 (BBC45_01650) 61584..62270 + 687 WP_000336297 PAS domain-containing protein -
BBC45_RS27110 62364..62591 + 228 WP_001676655 conjugal transfer relaxosome protein TraY -
BBC45_RS25155 (BBC45_01655) 62633..62995 + 363 WP_001274201 type IV conjugative transfer system pilin TraA -
BBC45_RS25160 (BBC45_01660) 63010..63321 + 312 WP_000012129 type IV conjugative transfer system protein TraL traL
BBC45_RS25165 (BBC45_01665) 63343..63909 + 567 WP_000399768 type IV conjugative transfer system protein TraE traE
BBC45_RS25170 (BBC45_01670) 63896..64636 + 741 WP_001230719 type-F conjugative transfer system secretin TraK traK
BBC45_RS25175 (BBC45_01675) 64636..66057 + 1422 WP_000146700 F-type conjugal transfer pilus assembly protein TraB traB
BBC45_RS25180 (BBC45_01680) 66047..66643 + 597 WP_000527896 conjugal transfer pilus-stabilizing protein TraP -
BBC45_RS25185 (BBC45_01685) 66621..66866 + 246 WP_010999944 DUF2689 domain-containing protein virb4
BBC45_RS25190 (BBC45_01690) 66863..67378 + 516 WP_001079995 type IV conjugative transfer system lipoprotein TraV traV
BBC45_RS25195 (BBC45_01695) 67513..67734 + 222 WP_001278699 conjugal transfer protein TraR -
BBC45_RS25200 (BBC45_01700) 67727..68194 + 468 WP_000549562 hypothetical protein -
BBC45_RS25205 (BBC45_01705) 68311..68574 + 264 WP_001239255 hypothetical protein -
BBC45_RS25210 (BBC45_01710) 68590..71238 + 2649 WP_000793310 type IV secretion system protein TraC virb4
BBC45_RS25215 (BBC45_01715) 71213..71599 + 387 WP_000105164 type-F conjugative transfer system protein TrbI -
BBC45_RS25220 (BBC45_01720) 71596..72228 + 633 WP_000871995 type-F conjugative transfer system protein TraW traW
BBC45_RS25225 (BBC45_01725) 72225..73217 + 993 WP_000833320 conjugal transfer pilus assembly protein TraU traU
BBC45_RS25230 (BBC45_01730) 73236..73544 + 309 WP_010999945 hypothetical protein -
BBC45_RS25235 (BBC45_01735) 73529..74167 + 639 WP_000554823 type-F conjugative transfer system pilin assembly protein TrbC trbC
BBC45_RS25240 (BBC45_01740) 74204..74623 + 420 WP_001229397 HNH endonuclease signature motif containing protein -
BBC45_RS25245 (BBC45_01745) 74620..76446 + 1827 WP_000827528 type-F conjugative transfer system mating-pair stabilization protein TraN traN
BBC45_RS25250 (BBC45_01750) 76457..76672 + 216 WP_000700023 conjugal transfer protein TrbE -
BBC45_RS25255 (BBC45_01755) 76684..77433 + 750 WP_001226854 type-F conjugative transfer system pilin assembly protein TraF traF
BBC45_RS25260 (BBC45_01760) 77647..77940 + 294 WP_001233881 type-F conjugative transfer system pilin chaperone TraQ -
BBC45_RS25265 (BBC45_01765) 77927..78475 + 549 WP_000055840 type-F conjugative transfer system pilin assembly thiol-disulfide isomerase TrbB traF
BBC45_RS25270 (BBC45_01770) 78465..79847 + 1383 WP_001161719 conjugal transfer pilus assembly protein TraH traH
BBC45_RS25275 (BBC45_01775) 79844..82666 + 2823 WP_001007086 conjugal transfer mating-pair stabilization protein TraG traG
BBC45_RS25280 (BBC45_01780) 82682..83176 + 495 WP_010999946 entry exclusion protein -
BBC45_RS25285 (BBC45_01785) 83212..83943 + 732 WP_000782438 conjugal transfer complement resistance protein TraT -
BBC45_RS25290 (BBC45_01790) 84320..86482 + 2163 WP_000009318 type IV conjugative transfer system coupling protein TraD virb4
BBC45_RS25295 (BBC45_01795) 86491..86889 - 399 WP_000911322 type II toxin-antitoxin system VapC family toxin -
BBC45_RS25300 (BBC45_01800) 86889..87116 - 228 WP_000450265 toxin-antitoxin system antitoxin VapB -

Host bacterium

ID   1280 GenBank   NZ_CP016390
Plasmid name   pSLT931 Incompatibility group   IncFII
Plasmid size   93855 bp Coordinate of oriT [Strand]   60670..60928 [-]
Host baterium   Salmonella enterica subsp. enterica serovar Typhimurium strain ST931R

Cargo genes

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