Detailed information of oriT

oriT

The information of the oriT region


oriTDB ID   102464
Name   oriT_S8_VPH_Chula|unnamed1 in_silico
Organism   Salmonella enterica strain S8_VPH_Chula
Sequence Completeness      -
NCBI accession of oriT (coordinates [strand])   NZ_JARVXA010000002 (91147..91270 [+], 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_S8_VPH_Chula|unnamed1
GGTTGGTGGTTCTCACCACCAAAAGCACCACACCCCACGCAAAAACAAGTTTTTGCTGATTTGCTTTTTGAATCATTAGCTTATGTTTTAAATAATGTATTTTAATTTATTTTACATTATTAAA

Visualization of oriT structure

  oriT secondary structure

Predicted by RNAfold.

Download structure file


Relaxase

ID   1838 GenBank   WP_279751861
Name   mobF_QAT84_RS24630_S8_VPH_Chula|unnamed1 insolico UniProt ID   _
Length   157 a.a. PDB ID   
Note   Predicted by oriTfinder 2.0

  Relaxase protein sequence


Download         Length: 157 a.a.        Molecular weight: 17124.20 Da        Isoelectric Point: 6.4789

>WP_279751861.1 MobF family relaxase [Salmonella enterica]
MMSIAQVRSAGSAGNYYTDKDNYYVLGSMGERWAGRGAEQLGLQGSVDKDVFTRLLEGRLPDGADLSRMQ
DGSNRHRPGYDLTFSAPKSVSMMAMLGGDKRLIDAHNQAVDFAVRQVEALASTRVMTDGQSETVLTGNLV
MALFNHDTSRDQGHCCK

  Protein domains


Predicted by InterproScan.

TrwC relaxase (TrwC)

(10-151)


  Protein structure



No available structure.




Auxiliary protein

ID   755 GenBank   WP_000124981
Name   WP_000124981_S8_VPH_Chula|unnamed1 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   756 GenBank   WP_001254386
Name   WP_001254386_S8_VPH_Chula|unnamed1 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   1426 GenBank   WP_001496532
Name   traD_QAT84_RS24635_S8_VPH_Chula|unnamed1 insolico UniProt ID   _
Length   732 a.a. PDB ID   _
Note   Predicted by oriTfinder 2.0

  T4CP protein sequence


Download         Length: 732 a.a.        Molecular weight: 83213.84 Da        Isoelectric Point: 5.0524

>WP_001496532.1 MULTISPECIES: type IV conjugative transfer system coupling protein TraD [Enterobacteriaceae]
MSFNAKDMTQGGQIASMRIRMFSQIANIMLYCLFIFFWILVGLVLWVKISWQTFVNGCIYWWCTTLEGMR
DLIKSQPVYEIQYYGKTFRMNAAQVLHDKYMIWCGEQLWSAFVLATVVALVICLITFFVVSWILGRQGKQ
QSENEVTGGRQLTENPKDVARMLKKDGKDSDIRIGDLPIIRDSEIQNFCLHGTVGAGKSEVIRRLANYAR
QRGDMVVIYDRSGEFVKSYYDPSIDKILNPLDARCAAWDLWKECLTQPDFDNTANTLIPMGTKEDPFWQG
SGRTIFAEAAYLMRNDPNRSYSKLVDTLLSIKIEKLRTFLRNSPAANLVEEKIEKTAISIRAVLTNYVKA
IRYLQGIEHNGESFTIRDWMRGVREDQKNGWLFISSNADTHASLKPVISMWLSIAIRGLLAMGENRNRRV
WFFCDELPTLHKLPDLVEILPEARKFGGCYVFGIQSYAQLEDIYGEKAAATLFDVMNTRAFFRSPSHKIA
EFAAGEIGEKEHLKASEQYSYGADPVRDGVSTGKDMERQTLVSYSDIQSLPDLTCYVTLPGPYPAVKLSL
KYQARPKVAPEFIPRDINPEMENRLSAVLAAREAEGRQMASLFEPDVPEVVSGEDVTQAEQPQQPQQPQQ
PQQPQQPQQPVSPAINDKKSDSGVNVPAGGIEQELKMKPEEEMEQQLPPGISESGEVVDMAAYEAWQQEN
HPDIQQQMQRREEVNINVHRERGEDVEPGDDF

  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.



ID   1427 GenBank   WP_000069764
Name   traC_QAT84_RS24715_S8_VPH_Chula|unnamed1 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.




T4SS

T4SS were predicted by using oriTfinder2.

Region 1: 63373..95102

Locus tag Coordinates Strand Size (bp) Protein ID Product Description
QAT84_RS24625 (QAT84_24625) 62149..62853 - 705 WP_001067855 IS6-like element IS26 family transposase -
QAT84_RS24630 (QAT84_24630) 62900..63373 - 474 WP_279751861 MobF family relaxase -
QAT84_RS24635 (QAT84_24635) 63373..65571 - 2199 WP_001496532 type IV conjugative transfer system coupling protein TraD virb4
QAT84_RS24640 (QAT84_24640) 65824..66555 - 732 WP_000850424 conjugal transfer complement resistance protein TraT -
QAT84_RS24645 (QAT84_24645) 66569..67078 - 510 WP_031943494 conjugal transfer entry exclusion protein TraS -
QAT84_RS24650 (QAT84_24650) 67075..69900 - 2826 WP_001007045 conjugal transfer mating-pair stabilization protein TraG traG
QAT84_RS24655 (QAT84_24655) 69897..71273 - 1377 WP_029400169 conjugal transfer pilus assembly protein TraH traH
QAT84_RS24660 (QAT84_24660) 71270..71632 - 363 WP_010379880 P-type conjugative transfer protein TrbJ -
QAT84_RS24665 (QAT84_24665) 71562..72107 - 546 WP_000059821 type-F conjugative transfer system pilin assembly thiol-disulfide isomerase TrbB traF
QAT84_RS24670 (QAT84_24670) 72094..72378 - 285 WP_000624109 type-F conjugative transfer system pilin chaperone TraQ -
QAT84_RS24675 (QAT84_24675) 72497..72844 - 348 WP_001287891 conjugal transfer protein TrbA -
QAT84_RS24680 (QAT84_24680) 72860..73603 - 744 WP_001430248 type-F conjugative transfer system pilin assembly protein TraF traF
QAT84_RS24685 (QAT84_24685) 73596..73853 - 258 WP_000864352 conjugal transfer protein TrbE -
QAT84_RS24690 (QAT84_24690) 73880..75688 - 1809 WP_000821821 type-F conjugative transfer system mating-pair stabilization protein TraN traN
QAT84_RS24695 (QAT84_24695) 75685..76323 - 639 WP_000777692 type-F conjugative transfer system pilin assembly protein TrbC trbC
QAT84_RS24700 (QAT84_24700) 76332..77324 - 993 WP_000830839 conjugal transfer pilus assembly protein TraU traU
QAT84_RS24705 (QAT84_24705) 77321..77953 - 633 WP_001203720 type-F conjugative transfer system protein TraW traW
QAT84_RS24710 (QAT84_24710) 77950..78336 - 387 WP_000214092 type-F conjugative transfer system protein TrbI -
QAT84_RS24715 (QAT84_24715) 78333..80963 - 2631 WP_000069764 type IV secretion system protein TraC virb4
QAT84_RS24720 (QAT84_24720) 81089..81451 - 363 WP_000836675 hypothetical protein -
QAT84_RS24725 (QAT84_24725) 81479..81693 - 215 Protein_101 hypothetical protein -
QAT84_RS24730 (QAT84_24730) 81773..82249 - 477 WP_015059129 hypothetical protein -
QAT84_RS24735 (QAT84_24735) 82242..82463 - 222 WP_001278695 conjugal transfer protein TraR -
QAT84_RS24740 (QAT84_24740) 82598..83113 - 516 WP_015059130 type IV conjugative transfer system lipoprotein TraV traV
QAT84_RS24745 (QAT84_24745) 83110..83361 - 252 WP_001038342 conjugal transfer protein TrbG -
QAT84_RS24750 (QAT84_24750) 83354..83674 - 321 WP_001057287 conjugal transfer protein TrbD virb4
QAT84_RS24755 (QAT84_24755) 83661..84251 - 591 WP_000002787 conjugal transfer pilus-stabilizing protein TraP -
QAT84_RS24760 (QAT84_24760) 84241..85341 - 1101 Protein_108 F-type conjugal transfer pilus assembly protein TraB -
QAT84_RS24765 (QAT84_24765) 85394..86098 - 705 WP_001067855 IS6-like element IS26 family transposase -
QAT84_RS24770 (QAT84_24770) 86164..86487 + 324 Protein_110 hypothetical protein -
QAT84_RS24775 (QAT84_24775) 86542..86976 + 435 WP_000845953 conjugation system SOS inhibitor PsiB -
QAT84_RS24780 (QAT84_24780) 86973..87692 + 720 WP_013362833 plasmid SOS inhibition protein A -
QAT84_RS24785 (QAT84_24785) 87914..88063 + 150 Protein_113 plasmid maintenance protein Mok -
QAT84_RS24790 (QAT84_24790) 88005..88130 + 126 WP_001372321 type I toxin-antitoxin system Hok family toxin -
QAT84_RS24795 (QAT84_24795) 88350..88580 + 231 WP_001426396 hypothetical protein -
QAT84_RS24800 (QAT84_24800) 88578..88751 - 174 Protein_116 hypothetical protein -
QAT84_RS24805 (QAT84_24805) 88821..89027 + 207 WP_000547968 hypothetical protein -
QAT84_RS24810 (QAT84_24810) 89052..89339 + 288 WP_000107544 hypothetical protein -
QAT84_RS24815 (QAT84_24815) 89457..90278 + 822 WP_001234469 DUF932 domain-containing protein -
QAT84_RS24820 (QAT84_24820) 90575..91222 - 648 WP_031943493 transglycosylase SLT domain-containing protein virB1
QAT84_RS24825 (QAT84_24825) 91499..91882 + 384 WP_000124981 conjugal transfer relaxosome DNA-binding protein TraM -
QAT84_RS24830 (QAT84_24830) 92073..92759 + 687 WP_000332484 PAS domain-containing protein -
QAT84_RS24835 (QAT84_24835) 92853..93080 + 228 WP_001254386 conjugal transfer relaxosome protein TraY -
QAT84_RS24840 (QAT84_24840) 93114..93473 + 360 WP_000340272 type IV conjugative transfer system pilin TraA -
QAT84_RS24845 (QAT84_24845) 93488..93799 + 312 WP_000012106 type IV conjugative transfer system protein TraL traL
QAT84_RS24850 (QAT84_24850) 93821..94387 + 567 WP_000399792 type IV conjugative transfer system protein TraE traE
QAT84_RS24855 (QAT84_24855) 94374..95102 + 729 WP_001230813 type-F conjugative transfer system secretin TraK traK
QAT84_RS24860 (QAT84_24860) 95102..95437 + 336 Protein_128 conjugal transfer protein TraB -
QAT84_RS24865 (QAT84_24865) 95500..96204 + 705 WP_001067855 IS6-like element IS26 family transposase -
QAT84_RS24870 (QAT84_24870) 96255..96320 - 66 Protein_130 hypothetical protein -
QAT84_RS24875 (QAT84_24875) 96463..97323 + 861 WP_000557454 aminoglycoside N-acetyltransferase AAC(3)-IId -
QAT84_RS24880 (QAT84_24880) 97336..97878 + 543 WP_000587837 AAA family ATPase -
QAT84_RS24885 (QAT84_24885) 98021..98725 - 705 WP_001067855 IS6-like element IS26 family transposase -
QAT84_RS24890 (QAT84_24890) 98786..99256 + 471 Protein_134 recombinase family protein -

Host bacterium

ID   2908 GenBank   NZ_JARVXA010000002
Plasmid name   S8_VPH_Chula|unnamed1 Incompatibility group   IncA/C2
Plasmid size   142378 bp Coordinate of oriT [Strand]   91147..91270 [+]
Host baterium   Salmonella enterica strain S8_VPH_Chula

Cargo genes

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