Detailed information of oriT

oriT

The information of the oriT region


oriTDB ID   102364
Name   oriT_15E434|unnamed in_silico
Organism   Salmonella enterica strain 15E434
Sequence Completeness      -
NCBI accession of oriT (coordinates [strand])   NZ_WUQC01000002 (26841..26964 [+], 124 nt)
oriT length   124 nt
IRs (inverted repeats)      101..106, 119..124  (TTTAAT..ATTAAA)
 91..99, 113..121  (AATAATGTA..TACATTATT)
 90..95, 107..112  (AAATAA..TTATTT)
 39..46, 49..56  (GCAAAAAC..GTTTTTGC)
 3..10, 15..22  (TTGGTGGT..ACCACCAA)
Location of nic site      _
Conserved sequence flanking the
  nic site    		  _
Note   Predicted by oriTfinder 2.0

  oriT sequence  


Download         Length: 124 nt

>oriT_15E434|unnamed
GGTTGGTGGTTCTCACCACCAAAAGCACCACACCCCACGCAAAAACAAGTTTTTGCTGATTTGCTTTTTGAATCATTAGCTTATGTTTTAAATAATGTATTTTAATTTATTTTACATTATTAAA

Visualization of oriT structure

  oriT secondary structure

Predicted by RNAfold.

Download structure file


Relaxase

ID   1787 GenBank   WP_015059123
Name   traI_FDG16_RS24750_15E434|unnamed insolico UniProt ID   I1WZQ7
Length   1756 a.a. PDB ID   
Note   Predicted by oriTfinder 2.0

  Relaxase protein sequence


Download         Length: 1756 a.a.        Molecular weight: 191914.74 Da        Isoelectric Point: 6.1060

>WP_015059123.1 MULTISPECIES: conjugative transfer relaxase/helicase TraI [Enterobacteriaceae]
MMSIAQVRSAGSAGNYYTDKDNYYVLGSMGERWAGRGAEQLGLQGSVDKDVFTRLLEGRLPDGADLSRMQ
DGSNRHRPGYDLTFSAPKSVSMMAMLGGDKRLIDAHNQAVDFAVRQVEALASTRVMTDGQSETVLTGNLV
MALFNHDTSRDQEPQLHTHAVVANVTQHNGEWKTLSSDKVGKTGFIENVYANQIAFGRLYREKLKEQVEA
LGYETEVVGKHGMWEMPGVPVEAFSGRSQAIREAVGEDASLKSRDVAALDTRKSKQHVDPEVRMAEWMQT
LKETGFDIRAYRDAADQRAETRTQAPGAVSQEGPDVQQAVTQAIAGLSERKVQFTYTDVLARTVGILPPE
NGVIERARAGIDEAISREQLIPLDREKGLFTSGIHVLDELSVRALSRDIMKQNRVTVHPEKSVPRTAGYS
DAVSVLAQDRPSLAIVSGQGGAAGQRERVAELVMMVREQGREVQIIAADRRSQMNLKQDERLSGELITGR
RQLLEGMAFTPGSTVIVDQGEKLSLKETLTLLDGAARHNVQVLITDSGQRTGTGSALMAMKDAGVNTYRW
QGGEQRPATIISEPDRNVRYARLAGDFAASVKAGEESVAQVSGVREQAILTQAIRSELKTQGVLGHQEVT
MTALSPVWLDSRSRYLRDMYRPGMVMEQWNPETRSHDRYVIDRVTAQSHSLTLRDAQGETQVVRISSLDS
SWSLFRPEKMPVADGERLRVTGKISGLRVSGGDRLQVASVSEDAMTVVVPGRAEPASLPVSDSPFTALKL
ENGWVETPGHSVSDSAKVFASVTQMAMDNATLNGLARSGRDVRLYSSLDETRTAEKLARHPSFTVVSEQI
KARAGETLLETAISLQKTGLHTPAQQAIHLALPVVESKNLAFSMVDLLTEAKSFAAEGTSFTELGGEINA
QIKRGDLLYVDVAKGYGTGLLVSRASYEAEKSILRHILEGKEAVTPLMERVPGELMEKLTSGQRAATRMI
LETSDRFTVVQGYAGVGKTTQFRAVMSAVNMLPESERPRVVGLGPTHRAVGEMRSAGVDAQTLASFLHDT
QLLQRSGETPNFSNTLFLLDESSMVGNTDMARAYALIAAGGGRAVASGDTDQLQAIAPGQPFRLQQTRSA
ADVAIMKEIVRQTPELREAVYSLINRDVERALSGLESVKPSQVPRLEGAWAPEHSVTEFSHSQEAKLAEA
QQKAMQKGEAFPDVPMTLYEAIVRDYTGRTPEAREQTLIVTHLNEDRRVLNSMIHDAREKAGELGKEQVM
VPVLNTANIRDGELRRLSTWETHRDALALVDNVYHRIAGISKDDGLITLQDAEGNTRLISPREAVAEGVT
LYTPDTIRVGTGDRMRFTKSDRERGYVANSVWTVTAVSGDSVTLSDGQQTRVIRPGQERAEQHIGLAYAI
TAHGAQGASETFAIALEGTEGNRKQMAGFESAYVALSRMKQHVQVYTDNRQGWTDAINNAVQKGTAHDVL
EPKSDREVMNAERLFSTARELRDVVAGRAVLRQAGLAGGDSPARFIAPGRKYPQPYVALPAFDRNGKSAG
IWLNPLTTDDGNGLRGFSGEGRVKGSGDAQFVALQGSRNGESLLADNMQDGVRIARDNPDSGVVVRIAGE
GRPWNPGTITGGRVWGDIPDNSVQPGAGNGEPVTAEVLAQRQAEEAIRRETERRADEIVRKMAENKPDLP
DGKTEQAVRDIAGLERDRSAISEREAALPESVLREPQRVREAVREVARENLLQERLQQMERDMVRDLQKE
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)

(575-627)

AAA domain (AAA_30)

(969-1156)

DNA helicase TraI (TraI_C)

(1434-1557)

TrwC relaxase (TrwC)

(10-283)


  Protein structure



No available structure.




Auxiliary protein

ID   706 GenBank   WP_000124981
Name   WP_000124981_15E434|unnamed insolico UniProt ID   A0A630FTW9
Length   127 a.a. PDB ID   _
Note   Predicted by oriTfinder 2.0

  Auxiliary protein sequence


Download         Length: 127 a.a.        Molecular weight: 14542.59 Da        Isoelectric Point: 5.0278

>WP_000124981.1 MULTISPECIES: conjugal transfer relaxosome DNA-binding protein TraM [Gammaproteobacteria]
MARVNLYISNEVHEKINMIVEKRRQEGARDKDISLSGTASMLLELGLRVYDAQMERKESAFNQTEFNKLL
LECVVKTQSTVAKILGIESLSPHVSGNPKFEYASMVDDIREKVSVEMDRFFPKNDDE

  Protein domains


Predicted by InterproScan.

TraM protein, DNA-binding (Tra_M)

(1-126)


  Protein structure


Source ID Structure
AlphaFold DB A0A630FTW9

ID   707 GenBank   WP_001254386
Name   WP_001254386_15E434|unnamed insolico UniProt ID   A0A3Z6KJB5
Length   75 a.a. PDB ID   _
Note   Predicted by oriTfinder 2.0

  Auxiliary protein sequence


Download         Length: 75 a.a.        Molecular weight: 9005.11 Da        Isoelectric Point: 10.1422

>WP_001254386.1 MULTISPECIES: conjugal transfer relaxosome protein TraY [Gammaproteobacteria]
MRRRNARGGISRTVSVYLDEDTNNRLIKAKDRSGRSKTIEVQIRLRDHLKRFPDFYNEEIFREVTEESES
TFKEL

  Protein domains


Predicted by InterproScan.

TraY domain (TraY)

(14-61)


  Protein structure


Source ID Structure
AlphaFold DB A0A3Z6KJB5


T4CP

ID   1369 GenBank   WP_000069764
Name   traC_FDG16_RS24665_15E434|unnamed insolico UniProt ID   _
Length   876 a.a. PDB ID   _
Note   Predicted by oriTfinder 2.0

  T4CP protein sequence


Download         Length: 876 a.a.        Molecular weight: 99302.93 Da        Isoelectric Point: 5.8486

>WP_000069764.1 MULTISPECIES: type IV secretion system protein TraC [Enterobacteriaceae]
MSNNPLEAVTQAVNSLVTALKLPDESAKANEVLGEMSFPQFSRLLPYRDYNQESGLFMNDTTMGFMLEAI
PINGANESIVEALDHMLRTKLPRGVPFCIHLMSSQLVGDRIEYGLREFSWSGEQAERFNAITRAYYMNAA
ATQFPLPEGMNLPLTLRHYRVFFSYCSPSKKKSRADILEMENLVKIIRASLQGASITTQAVDAQAFIDIV
GEMINHNPDSLYPKRRQLDPYSDLNYQCVEDSFDLKVRADYLTLGLREKGRNSTARILNFHLARNPEIAF
LWNMADNYSNLLNPELSISCPFILTLTLVVEDQVKTHSEANLKYMDLEKKSKTSYAKWFPSVEKEAKEWG
ELRQRLGSGQSSVVSYFLNITAFCKDNNETALEVEQDILNSFRKNGFELISPRFNHMRNFLTCLPFMAGK
GLFKQLKEAGVVQRAESFNVANLMPLVADNPLTPAGLLAPTYRNQLAFIDIFFRGMNNTNYNMAVCGTSG
AGKTGLIQPLIRSVLDSGGFAVVFDMGDGYKSLCENMGGVYLDGETLRFNPFANITDIDQSAERVRDQLS
VMASPNGNLDEVHEGLLLQAVRASWLAKENRARIDDVVDFLKNASDSEQYAESPTIRSRLDEMIVLLDQY
TANGTYGQYFNSDEPSLRDDAKMVVLELGGLEDRPSLLVAVMFSLIIYIENRMYRTPRNLKKLNVIDEGW
RLLDFKNHKVGEFIEKGYRTARRHTGAYITITQNIVDFDSDKASSAARAAWGNSSYKIILKQSAKEFAKY
NQLYPDQFLPLQRDMIGKFGAAKDQWFSSFLLQVENHSSWHRLFVDPLSRAMYSSDGPDFEFVQQKRKEG
LSIHEAVWQLAWKKSGPEMASLEAWLEEHEKYRSVA

  Protein domains


Predicted by InterproScan.

TraC protein (TraC_F_IV)

(39-277)

TraG P-loop domain (P-loop_TraG)

(468-772)

Family of unknown function (DUF5934) (DUF5934)

(290-447)

  Protein structure



No available structure.



ID   1370 GenBank   WP_021532655
Name   traD_FDG16_RS24745_15E434|unnamed insolico UniProt ID   _
Length   744 a.a. PDB ID   _
Note   Predicted by oriTfinder 2.0

  T4CP protein sequence


Download         Length: 744 a.a.        Molecular weight: 84627.35 Da        Isoelectric Point: 5.0524

>WP_021532655.1 MULTISPECIES: type IV conjugative transfer system coupling protein TraD [Enterobacteriaceae]
MSFNAKDMTQGGQIASMRIRMFSQIANIMLYCLFIFFWILVGLVLWVKISWQTFVNGCIYWWCTTLEGMR
DLIKSQPVYEIQYYGKTFRMNAAQVLHDKYMIWCGEQLWSAFVLATVVALVICLITFFVVSWILGRQGKQ
QSENEVTGGRQLTENPKDVARMLKKDGKDSDIRIGDLPIIRDSEIQNFCLHGTVGAGKSEVIRRLANYAR
QRGDMVVIYDRSGEFVKSYYDPSIDKILNPLDARCAAWDLWKECLTQPDFDNTANTLIPMGTKEDPFWQG
SGRTIFAEAAYLMRNDPNRSYSKLVDTLLSIKIEKLRTFLRNSPAANLVEEKIEKTAISIRAVLTNYVKA
IRYLQGIEHNGESFTIRDWMRGVREDQKNGWLFISSNADTHASLKPVISMWLSIAIRGLLAMGENRNRRV
WFFCDELPTLHKLPDLVEILPEARKFGGCYVFGIQSYAQLEDIYGEKAAATLFDVMNTRAFFRSPSHKIA
EFAAGEIGEKEHLKASEQYSYGADPVRDGVSTGKDMERQTLVSYSDIQSLPDLTCYVTLPGPYPAVKLSL
KYQARPKVAPEFIPRDINPEMENRLSAVLAAREAEGRQMASLFEPDVPEVVSGEDVTQAEQPQQPQQPQQ
PQQPQQPQQPQQPQQPQQPQQPVSPAINDKKSDSGVNVPAGGIEQELKMKPEEEMEQQLPPGISESGEVV
DMAAYEAWQQENHPDIQQQMQRREEVNINVHRERGEDVEPGDDF

  Protein domains


Predicted by InterproScan.

Type IV secretion-system coupling protein DNA-binding domain (TrwB_AAD_bind)

(173-560)

F sex factor protein N terminal (TraD_N)

(32-128)

  Protein structure



No available structure.




T4SS

T4SS were predicted by using oriTfinder2.

Region 1: 26269..53127

Locus tag Coordinates Strand Size (bp) Protein ID Product Description
FDG16_RS24550 (FDG16_24620) 22236..22670 + 435 WP_000845953 conjugation system SOS inhibitor PsiB -
FDG16_RS24555 (FDG16_24625) 22667..23386 + 720 WP_013362833 plasmid SOS inhibition protein A -
FDG16_RS25765 23608..23757 + 150 Protein_27 plasmid maintenance protein Mok -
FDG16_RS24560 (FDG16_24630) 23699..23824 + 126 WP_001372321 type I toxin-antitoxin system Hok family toxin -
FDG16_RS25770 24044..24274 + 231 WP_001426396 hypothetical protein -
FDG16_RS25775 (FDG16_24635) 24272..24445 - 174 Protein_30 hypothetical protein -
FDG16_RS25780 24515..24721 + 207 WP_000547968 hypothetical protein -
FDG16_RS24570 (FDG16_24645) 24746..25033 + 288 WP_000107544 hypothetical protein -
FDG16_RS24575 (FDG16_24650) 25151..25972 + 822 WP_001234469 DUF932 domain-containing protein -
FDG16_RS24580 (FDG16_24655) 26269..26916 - 648 WP_031943493 transglycosylase SLT domain-containing protein virB1
FDG16_RS24585 (FDG16_24660) 27193..27576 + 384 WP_000124981 conjugal transfer relaxosome DNA-binding protein TraM -
FDG16_RS24590 (FDG16_24665) 27767..28453 + 687 WP_000332484 PAS domain-containing protein -
FDG16_RS24595 (FDG16_24670) 28547..28774 + 228 WP_001254386 conjugal transfer relaxosome protein TraY -
FDG16_RS24600 (FDG16_24675) 28808..29167 + 360 WP_000340272 type IV conjugative transfer system pilin TraA -
FDG16_RS24605 (FDG16_24680) 29182..29493 + 312 WP_000012106 type IV conjugative transfer system protein TraL traL
FDG16_RS24610 (FDG16_24685) 29515..30081 + 567 WP_000399792 type IV conjugative transfer system protein TraE traE
FDG16_RS24615 (FDG16_24690) 30068..30796 + 729 WP_001230813 type-F conjugative transfer system secretin TraK traK
FDG16_RS24620 (FDG16_24695) 30796..32223 + 1428 WP_000146685 F-type conjugal transfer pilus assembly protein TraB traB
FDG16_RS24625 (FDG16_24700) 32213..32803 + 591 WP_000002787 conjugal transfer pilus-stabilizing protein TraP -
FDG16_RS24630 (FDG16_24705) 32790..33110 + 321 WP_001057287 conjugal transfer protein TrbD virb4
FDG16_RS24635 (FDG16_24710) 33103..33354 + 252 WP_001038342 conjugal transfer protein TrbG -
FDG16_RS24640 (FDG16_24715) 33351..33866 + 516 WP_015059130 type IV conjugative transfer system lipoprotein TraV traV
FDG16_RS24645 (FDG16_24720) 34001..34222 + 222 WP_001278695 conjugal transfer protein TraR -
FDG16_RS24650 (FDG16_24725) 34215..34691 + 477 WP_015059129 hypothetical protein -
FDG16_RS24655 (FDG16_24730) 34771..34985 + 215 Protein_49 hypothetical protein -
FDG16_RS24660 (FDG16_24735) 35013..35375 + 363 WP_000836675 hypothetical protein -
FDG16_RS24665 (FDG16_24740) 35501..38131 + 2631 WP_000069764 type IV secretion system protein TraC virb4
FDG16_RS24670 (FDG16_24745) 38128..38514 + 387 WP_000214092 type-F conjugative transfer system protein TrbI -
FDG16_RS24675 (FDG16_24750) 38511..39143 + 633 WP_001203720 type-F conjugative transfer system protein TraW traW
FDG16_RS24680 (FDG16_24755) 39140..40132 + 993 WP_000830839 conjugal transfer pilus assembly protein TraU traU
FDG16_RS24685 (FDG16_24760) 40141..40779 + 639 WP_000777692 type-F conjugative transfer system pilin assembly protein TrbC trbC
FDG16_RS24690 (FDG16_24765) 40776..42584 + 1809 WP_000821821 type-F conjugative transfer system mating-pair stabilization protein TraN traN
FDG16_RS24695 (FDG16_24770) 42611..42868 + 258 WP_000864352 conjugal transfer protein TrbE -
FDG16_RS24700 (FDG16_24775) 42861..43604 + 744 WP_001430248 type-F conjugative transfer system pilin assembly protein TraF traF
FDG16_RS24705 (FDG16_24780) 43620..43967 + 348 WP_001287891 conjugal transfer protein TrbA -
FDG16_RS24710 (FDG16_24785) 44086..44370 + 285 WP_000624109 type-F conjugative transfer system pilin chaperone TraQ -
FDG16_RS24715 (FDG16_24790) 44357..44902 + 546 WP_000059821 type-F conjugative transfer system pilin assembly thiol-disulfide isomerase TrbB traF
FDG16_RS24720 (FDG16_24795) 44832..45194 + 363 WP_010379880 P-type conjugative transfer protein TrbJ -
FDG16_RS24725 (FDG16_24800) 45191..46567 + 1377 WP_029400169 conjugal transfer pilus assembly protein TraH traH
FDG16_RS24730 (FDG16_24805) 46564..49389 + 2826 WP_001007045 conjugal transfer mating-pair stabilization protein TraG traG
FDG16_RS24735 (FDG16_24810) 49386..49895 + 510 WP_031943494 conjugal transfer entry exclusion protein TraS -
FDG16_RS24740 (FDG16_24815) 49909..50640 + 732 WP_000850424 conjugal transfer complement resistance protein TraT -
FDG16_RS24745 (FDG16_24820) 50893..53127 + 2235 WP_021532655 type IV conjugative transfer system coupling protein TraD virb4

Host bacterium

ID   2808 GenBank   NZ_WUQC01000002
Plasmid name   15E434|unnamed Incompatibility group   IncA/C2
Plasmid size   138255 bp Coordinate of oriT [Strand]   26841..26964 [+]
Host baterium   Salmonella enterica strain 15E434

Cargo genes

Drug resistance gene   qnrS1, blaCTX-M-55, catA2, mcr-3.1, blaTEM-1B, floR, tet(A), aph(6)-Id, aph(3'')-Ib, sul2
Virulence gene   -
Metal resistance gene   merE, merD
Degradation gene   -
Symbiosis gene   -
Anti-CRISPR   -