Detailed information of oriT

oriT

The information of the oriT region


oriTDB ID   100745
Name   oriT_p12-4374_62 in_silico
Organism   Salmonella enterica subsp. enterica serovar Heidelberg strain 12-4374
Sequence Completeness      intact
NCBI accession of oriT (coordinates [strand])   NZ_CP012928 (36265..36554 [+], 290 nt)
oriT length   290 nt
IRs (inverted repeats)      225..232, 235..242 n  (GCAAAAAC..GTTTTTGC)
Location of nic site      251..252
Conserved sequence flanking the
  nic site    		  GTGGGGTGT|GG
Note   predicted by the oriTfinder

  oriT sequence  


Download         Length: 290 nt

>oriT_p12-4374_62
CGCACCGCTAGCAGCGCCCCTGGCGGTATCCTATAAAAAAACACACCGCGCCGCTAGCAGCACCCCTAATATAAAATAATGTTTTTTATAAAAATAGTCAGTACCACCCCTACAAAGCGGTGTCGGCGCGTTGTTGTAGCCGCGCCGACACCGCTTTTTTAAATATCATAAAGAGAGTAAGAGAAGCTAATTTTTCATAACTCTCTATTTATAAAGAAAAATCAGCAAAAACTTGTTTTTGCGTGGGGTGTGGTACTTTTGGTGGTGAGAACCACCAACCTGTTGAGCCT

Visualization of oriT structure

  oriT secondary structure

Predicted by RNAfold.

Download structure file


Relaxase

ID   817 GenBank   WP_044864167
Name   TraI_p12-4374_62 insolico UniProt ID   _
Length   1756 a.a. PDB ID   
Note   putative relaxase

  Relaxase protein sequence


Download         Length: 1756 a.a.        Molecular weight: 191851.73 Da        Isoelectric Point: 5.8723

>WP_044864167.1 MULTISPECIES: conjugative transfer relaxase/helicase TraI [Enterobacteriaceae]
MMSIAQVRSAGSAGNYYTDKDNYYVLGSMGERWAGRGAEQLGLQGSVDKDVFTRLLEGRLPDGADLSRMQ
DGSNKHRPGYDLTFSAPKSVSMMAMLGGDKRLIDAHNQAVDFAVRQVEALASTRVMTDGQSETVLTGNLV
MALFNHDTSRDQEPQLHTHAVVANVTQHNGEWKTLSSDKVGKTGFIENVYANQIAFGRLYREKLKEQVEA
LGYETEVVGKHGMWEMPGVPVEAFSGRSQAIREAVGEDASLKSRDVAALDTRKSKQHVDPEVRMAEWMQT
LKETGFDIRAYRGAADQRAETRTQAPGAVSQDGPDVQQAVTQAIAGLSERKVQFTYTDVLARTVGILPPE
NGVIERARAGIDEAISREQLIPLDREKGLFTSGIHVLDELSVRALSRDIMKQNRVTVHPEKSVPRTAGYS
DAVSVLAQDRPSLAIVSGQGGAAGQRERVAELVMMAREQGREVQIIAADRRSQMNLKQDERLSGELITGR
RQLQEGMAFTPGNTVIVDQGEKLSLKETLTLLDGAARHNVQVLITDSGQRTGTGSALMAMKDAGVNTYRW
QGGEQRPATIISEPDRNVRYARLAGDFAASVKAGEESVAQVSGVREQAILTQAIRSELKTQGVLGRPEVT
MTALSPVWLDSRSRYLRDMYRPGMVMEQWNPETRSHDRYVIDRVTAQSNSLTLRDAQGETQVVRISSLDS
SWSLFRPEKMPVADGERLRVTGKIPGLRVSGGDRLQVASVSEDAMTVVVPGRAEPASLPVSDSPFMALKL
ENGWVETPGHSVSDSAKVFASVTQMAMDNATLNGLARSGRDVRLYSSLDETRTAEKLARHPSFTVVSEQI
KARAGETLLETAISLQKTGLHTPAQQAIHLALPVVESKNLAFSMVDLLTEAKSFAAEGTSFTELGGEINA
QIKRGDLLYVDVAKGYGTGLLVSRASYEAEKSILRHILEGKEAVTPLMERVPGELMEKLTSGQRAATRMI
LETSDRFTVVQGYAGVGKTTQFRAVMSAVNMLPESERPRVVGLGPTHRAVGEMRSAGVDAQTLASFLHDT
QLLQRSGETPNFSNTLFLLDESSMVGNTDMARAYALIAAGGGRAVASGDTDQLQAIAPGQPFRLQQTRSA
ADVVIMKEIVRQTPELREAVYSLINRDVERALSGLESVKPSQVPRQEGAWAPEHSVTEFSHSQEAKLAEA
QQKAMLKGEAFPDIPMTLYEAIVRDYTGRTPEAREQTLIVTHLNEDRRVLNSMIHDAREKAGELGKEQVM
VPVLNTANIRDGELRRLSTWENNPDALALVDSVYHRIAGISKDDGLITLEDAEGNTRLISPREAVAEGVT
LYTPDTIRVGTGDRMRFTKSDRERGYVANSVWTVTAVSGDSVTLSDGQQTRVIRPGQERAEQHIDLAYAI
TAHGAQGASETFAIALEGTEGNRKLMAGFESAYVALSRMKQHVQVYTDNRQGWTDAINNAVQKGTAHDVF
EPKPDREVMNAERLFSTARELRDVAAGRAVLRQAGLAGGDSPARFIAPGRKYPQPYVALPAFDRNGKSAG
IWLNPLTTDDGNGLRGFSGEGRVKGSGDAQFVALQGSRNGESLLADNMQDGVRIARDNPDSGVVVRIAGE
GRPWNPGAITGGRVWGDIPDNSVQPGAGNGEPVTAEVLAQRQAEEAIRRETERRADEIVRKMAENKPDLP
DGKTELAVREIAGQERDRAAITEREAALPESVLREPQREREAVREVARENLLQERLQQMERDMVRDLQKE
KTLGGD

  Protein domains


Predicted by InterproScan.

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

(633-712)

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

(575-626)

TrwC relaxase (TrwC)

(10-283)

DNA helicase TraI (TraI_C)

(1434-1557)

AAA domain (AAA_30)

(969-1156)


  Protein structure



No available structure.




T4SS

T4SS were predicted by using oriTfinder2.

Region 1: 10249..37116

Locus tag Coordinates Strand Size (bp) Protein ID Product Description
APS45_RS23475 (APS45_23680) 10249..12465 - 2217 WP_044864168 type IV conjugative transfer system coupling protein TraD virb4
APS45_RS23480 (APS45_23685) 12717..13448 - 732 WP_000850424 conjugal transfer complement resistance protein TraT -
APS45_RS23485 (APS45_23690) 13462..13971 - 510 WP_000628099 conjugal transfer entry exclusion protein TraS -
APS45_RS23490 (APS45_23695) 13968..16793 - 2826 WP_001554363 conjugal transfer mating-pair stabilization protein TraG traG
APS45_RS23495 (APS45_23700) 16790..18166 - 1377 WP_000982833 conjugal transfer pilus assembly protein TraH traH
APS45_RS23500 (APS45_23705) 18163..18525 - 363 WP_001443292 P-type conjugative transfer protein TrbJ -
APS45_RS23505 (APS45_23710) 18455..19000 - 546 WP_000052618 type-F conjugative transfer system pilin assembly thiol-disulfide isomerase TrbB traF
APS45_RS23510 (APS45_23715) 18987..19271 - 285 WP_000624110 type-F conjugative transfer system pilin chaperone TraQ -
APS45_RS23515 (APS45_23720) 19390..19737 - 348 WP_001287895 conjugal transfer protein TrbA -
APS45_RS23520 (APS45_23725) 19753..20496 - 744 WP_001030376 type-F conjugative transfer system pilin assembly protein TraF traF
APS45_RS23525 (APS45_23730) 20489..20746 - 258 WP_000864325 conjugal transfer protein TrbE -
APS45_RS23530 (APS45_23735) 20773..22581 - 1809 WP_000821818 type-F conjugative transfer system mating-pair stabilization protein TraN traN
APS45_RS23535 (APS45_23740) 22578..23174 - 597 WP_234034274 type-F conjugative transfer system pilin assembly protein TrbC trbC
APS45_RS23540 (APS45_23745) 23244..23696 - 453 WP_000069427 hypothetical protein -
APS45_RS23545 (APS45_23750) 23726..24187 - 462 WP_000277845 hypothetical protein -
APS45_RS23550 (APS45_23755) 24213..25205 - 993 WP_000830839 conjugal transfer pilus assembly protein TraU traU
APS45_RS23555 (APS45_23760) 25202..25834 - 633 WP_060554329 type-F conjugative transfer system protein TraW traW
APS45_RS23560 (APS45_23765) 25831..26217 - 387 WP_000214096 type-F conjugative transfer system protein TrbI -
APS45_RS23565 (APS45_23770) 26214..28841 - 2628 WP_001064248 type IV secretion system protein TraC virb4
APS45_RS23570 (APS45_23775) 29001..29222 - 222 WP_001278689 conjugal transfer protein TraR -
APS45_RS23575 (APS45_23780) 29356..29871 - 516 WP_000809906 type IV conjugative transfer system lipoprotein TraV traV
APS45_RS23580 (APS45_23785) 29868..30119 - 252 WP_001038341 conjugal transfer protein TrbG -
APS45_RS23585 (APS45_23790) 30116..30433 - 318 WP_001057292 conjugal transfer protein TrbD virb4
APS45_RS23590 (APS45_23795) 30430..31002 - 573 WP_000002794 conjugal transfer pilus-stabilizing protein TraP -
APS45_RS23595 (APS45_23800) 30992..32419 - 1428 WP_000146685 F-type conjugal transfer pilus assembly protein TraB traB
APS45_RS23600 (APS45_23805) 32419..33147 - 729 WP_001230787 type-F conjugative transfer system secretin TraK traK
APS45_RS23605 (APS45_23810) 33134..33700 - 567 WP_000399792 type IV conjugative transfer system protein TraE traE
APS45_RS23610 (APS45_23815) 33722..34033 - 312 WP_000012106 type IV conjugative transfer system protein TraL traL
APS45_RS23615 (APS45_23820) 34048..34407 - 360 WP_000994781 type IV conjugative transfer system pilin TraA -
APS45_RS23620 (APS45_23825) 34440..34835 - 396 WP_001309237 conjugal transfer relaxosome DNA-bindin protein TraY -
APS45_RS23625 (APS45_23830) 34934..35623 - 690 WP_000283380 conjugal transfer transcriptional regulator TraJ -
APS45_RS23630 (APS45_23835) 35810..36193 - 384 WP_001151524 conjugal transfer relaxosome DNA-binding protein TraM -
APS45_RS23635 (APS45_23840) 36514..37116 + 603 WP_000243703 transglycosylase SLT domain-containing protein virB1
APS45_RS23640 (APS45_23845) 37411..38232 - 822 WP_001234469 DUF932 domain-containing protein -
APS45_RS23645 (APS45_23850) 38352..38639 - 288 WP_000107535 hypothetical protein -
APS45_RS27005 (APS45_23855) 38664..38870 - 207 WP_000547971 hypothetical protein -
APS45_RS27340 38940..39113 + 174 Protein_46 hypothetical protein -
APS45_RS27345 39111..39341 - 231 WP_001426396 hypothetical protein -
APS45_RS23660 (APS45_23865) 39561..39686 - 126 WP_001372321 type I toxin-antitoxin system Hok family toxin -
APS45_RS27350 39628..39777 - 150 Protein_49 plasmid maintenance protein Mok -
APS45_RS23665 (APS45_23870) 39956..40718 - 763 Protein_50 plasmid SOS inhibition protein A -
APS45_RS23670 (APS45_23875) 40715..41149 - 435 WP_000845873 conjugation system SOS inhibitor PsiB -

Host bacterium

ID   1205 GenBank   NZ_CP012928
Plasmid name   p12-4374_62 Incompatibility group   IncFII
Plasmid size   62920 bp Coordinate of oriT [Strand]   36265..36554 [+]
Host baterium   Salmonella enterica subsp. enterica serovar Heidelberg strain 12-4374

Cargo genes

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