Detailed information of oriT

oriT

The information of the oriT region


oriTDB ID   106367
Name   oriT_P048595|unnamed1 in_silico
Organism   Salmonella enterica strain P048595
Sequence Completeness      -
NCBI accession of oriT (coordinates [strand])   NZ_CP093387 (50531..50800 [-], 270 nt)
oriT length   270 nt
IRs (inverted repeats)      245..253, 262..270  (CACCCCTGG..CCAGGGGTG)
 92..98, 111..117  (ATTTAAT..ATTAAAT)
 103..108, 111..116  (TTTAAT..ATTAAA)
 33..38, 41..46  (AAAATT..AATTTT)
Location of nic site      _
Conserved sequence flanking the
  nic site    		  _
Note   Predicted by oriTfinder 2.0

  oriT sequence  


Download         Length: 270 nt

>oriT_P048595|unnamed1
GTCCTCACCACCAAAAGCACCACACCCCACGCAAAATTAAAATTTTTCTGATTTGTTTTTAGTAACAGTGAGTTATGTTCATAATAATGTAATTTAATTTATTTTAATGTATTAAATAGCGGTGCAGGCACGTCGCCGGCACCGCTATGACGACGCTATACAGGGGTAGTACTGACTATTTTTATAAAAAACATTGCATTATATCAGGGGCGCTGCTAGCGTCGCTGTGCCTGTTTTTAAGTAACACCCCTGGGGGCGCTGCCAGGGGTG

Visualization of oriT structure

  oriT secondary structure

Predicted by RNAfold.

Download structure file


Relaxase

ID   4266 GenBank   WP_000986921
Name   traI_MOQ57_RS23710_P048595|unnamed1 insolico UniProt ID   Q93GL4
Length   1752 a.a. PDB ID   
Note   Predicted by oriTfinder 2.0

  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


Source ID Structure
AlphaFold DB Q93GL4


Auxiliary protein

ID   1896 GenBank   WP_001676655
Name   WP_001676655_P048595|unnamed1 insolico UniProt ID   H3JT82
Length   75 a.a. PDB ID   _
Note   Predicted by oriTfinder 2.0

  Auxiliary protein sequence


Download         Length: 75 a.a.        Molecular weight: 9147.26 Da        Isoelectric Point: 9.6183

>WP_001676655.1 MULTISPECIES: conjugal transfer relaxosome protein TraY [Salmonella]
MRRRNAREGISRTVSVYLDEDTNNRLIRAKDRSGRSKTIEVQIRLRDHLKRYPDFYNEEIFREVIEETES
TFKEI

  Protein domains


Predicted by InterproScan.

TraY domain (TraY)

(14-61)


  Protein structure


Source ID Structure
AlphaFold DB H3JT82

ID   1897 GenBank   WP_001151546
Name   WP_001151546_P048595|unnamed1 insolico UniProt ID   Q93GP1
Length   126 a.a. PDB ID   _
Note   Predicted by oriTfinder 2.0

  Auxiliary protein sequence


Download         Length: 126 a.a.        Molecular weight: 14366.30 Da        Isoelectric Point: 5.7236

>WP_001151546.1 MULTISPECIES: conjugal transfer relaxosome DNA-binding protein TraM [Salmonella]
MAKVNVYISNEVHNKITAIVEKRRQEGARDKDISFSGTSSMLLELGLRVYEAQMERKESPFNQTEFNKVL
LENVLKTQSSVAKILGIGSLSPHVAGNPKFEYANMVEDIKEKVSSEMERFFHENEE

  Protein domains


Predicted by InterproScan.

TraM protein, DNA-binding (Tra_M)

(1-126)


  Protein structure


Source ID Structure
AlphaFold DB Q93GP1


T4CP

ID   4289 GenBank   WP_000009318
Name   traD_MOQ57_RS23725_P048595|unnamed1 insolico UniProt ID   _
Length   720 a.a. PDB ID   _
Note   Predicted by oriTfinder 2.0

  T4CP protein sequence


Download         Length: 720 a.a.        Molecular weight: 81447.01 Da        Isoelectric Point: 5.1045

>WP_000009318.1 MULTISPECIES: type IV conjugative transfer system coupling protein TraD [Salmonella]
MSFNAKDMTQGGQIASMRIRMFSQIANIIFYCLFIFFWILVGLVLWVKLSWQTFVNGGIYWWCTTLEGMR
DLIKSQPVYEIRYYGQTFRMNAAQVLQDKYTVWCGEQLWSAFVLAACVALVICLITFFMTTWILGRQGKQ
QSEDDVTGGRQLTDNPKDVARMLKKDGKASDILIGDLPIIKDSEIQNFLLHGTVSTGKSEIIRRLANYAR
QRGDMVVMYDRSCEFVKSYYDPSIDKILNPCDARCAAWDLWRECLTLPDFDNAANTLIPMGTKEDPFWQG
SGRTIFAEAAYLMRNDSDRSYSKLVDTLLSIKIEKLRTYLRDSPAANLVEEKIEKTAISIRAVLTNYVKA
VRYLQGIERNGEPFTIRDWMRGVREDQKNGWLFISSNADTHSSLKPVISMWLSIAIRGLLAMGENRNRRV
WFFCDELPTLHKLPDLVEIVPEARKFGGCYVFGIQSSTQMEDIYGEKAAATLLDVMNTRAFFRSPSYKIA
DYVAHEIGEKEILKASEQYSYGADPVRDGVSTGKEMERVTLVSYSDIQSLPDLTCYVTLPGPYPAVKLAL
KYQERPKVAPEFIPREMNPEAEARLSAVLAAREAEVRQMSSLFEPDTEAVAPTAAEAQAEQPQQPQPTVV
SDKKSAAAGTAVNTPAGGVGQELKMKPEDEEQPLPPGINASGEVVDMAAYERWRQEQEVNTQQQMQRREE
VNINVHRGHGKDEPEPGDDF

  Protein domains


Predicted by InterproScan.

F sex factor protein N terminal (TraD_N)

(32-128)

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

(173-560)

  Protein structure



No available structure.



ID   4290 GenBank   WP_000793310
Name   traC_MOQ57_RS23805_P048595|unnamed1 insolico UniProt ID   _
Length   882 a.a. PDB ID   _
Note   Predicted by oriTfinder 2.0

  T4CP protein sequence


Download         Length: 882 a.a.        Molecular weight: 100382.20 Da        Isoelectric Point: 6.9316

>WP_000793310.1 MULTISPECIES: type IV secretion system protein TraC [Salmonella]
MKNLLDTVTQAANSLLTALKLPDESAQANQILGEMSFPQFSRLLPYRDYNQESGLFMNDATMGFMLEATP
VNGANETIALSLDHLLRTKLPRGIPLCVHLMSSQLVGERIEYGLRKFSWSGEQAERFNAITRAYYMKAAE
THFPLPEGMNLPLTLRHYRVFISYCAPSRKKSRADILEMENLVKIIRASLQGAYISTQTVDAKAFINIVG
EMINHNPESIHPTRRRLDPYSDLNYQCVDDSFDLKVRQDYLTLGLRDNGKNSTARIMSFHLARNPEIAFL
WNSADNYSNLLNPELSISCPFILTLTLVVEDQVKTHSEANLKYMDLEKKSKTSYAKWFPSVEKEAKEWGD
LRQRLASNQSSVVSYFFNITAFCRDNKETALETEQDILNSFRKNGFELISPRFNHMRNFLACLPFMAGKG
LFKQLKEAGVVQRAESFNVTNLMPLVADNPLTPAGLLAPTYRNQLAFIDIFFRGMNNTNYNMAVCGTSGA
GKTGLIQPLIRSVLDSGGFAVVFDMGDGYKSLCENMGGVYLDGETLRFNPFANITNIDQSAERIRDQLSV
MASPNGNLDEVHEGLLLQAVRAAWLTKKNRARIDDVVDFLENARTSEQYAESPGIRSRLDEMIVLLNQYT
AAGTYGRYFNSDEPSLRDDARMVVLELGGLEDRPSLLVAVMFSLIIYIENRMYRTPRNLKKLNVIDEGWR
LLDFKNRKVGDFIEKGYRTARRHTGAYITITQNIVDFDSDKASSAARAAWGNSSYKIILKQSAKEFAKYN
QLYPDQFPQLHREMIEKFGAAKDQWFSSFLLQVENHSSWHRLFVDPLSRAMYSSDGPDFEFVQQKRKEGL
SIHEAVWQLAWKKSGPEMASLEAWLQEHETFRGTYEYKAETD

  Protein domains


Predicted by InterproScan.

Family of unknown function (DUF5934) (DUF5934)

(289-446)

TraG P-loop domain (P-loop_TraG)

(468-763)

TraC protein (TraC_F_IV)

(38-276)

  Protein structure



No available structure.




T4SS

T4SS were predicted by using oriTfinder2.

Region 1: 24986..51341

Locus tag Coordinates Strand Size (bp) Protein ID Product Description
MOQ57_RS23715 (MOQ57_23715) 24352..24579 + 228 WP_000450265 toxin-antitoxin system antitoxin VapB -
MOQ57_RS23720 (MOQ57_23720) 24579..24977 + 399 WP_000911322 type II toxin-antitoxin system VapC family toxin -
MOQ57_RS23725 (MOQ57_23725) 24986..27148 - 2163 WP_000009318 type IV conjugative transfer system coupling protein TraD virb4
MOQ57_RS23730 (MOQ57_23730) 27525..28256 - 732 WP_000782438 conjugal transfer complement resistance protein TraT -
MOQ57_RS23735 (MOQ57_23735) 28292..28786 - 495 WP_010999946 entry exclusion protein -
MOQ57_RS23740 (MOQ57_23740) 28802..31624 - 2823 WP_001007086 conjugal transfer mating-pair stabilization protein TraG traG
MOQ57_RS23745 (MOQ57_23745) 31621..33003 - 1383 WP_001161719 conjugal transfer pilus assembly protein TraH traH
MOQ57_RS23750 (MOQ57_23750) 32993..33541 - 549 WP_000055840 type-F conjugative transfer system pilin assembly thiol-disulfide isomerase TrbB traF
MOQ57_RS23755 (MOQ57_23755) 33528..33821 - 294 WP_001233881 type-F conjugative transfer system pilin chaperone TraQ -
MOQ57_RS23760 (MOQ57_23760) 34035..34784 - 750 WP_001226854 type-F conjugative transfer system pilin assembly protein TraF traF
MOQ57_RS23765 (MOQ57_23765) 34796..35011 - 216 WP_000700023 conjugal transfer protein TrbE -
MOQ57_RS23770 (MOQ57_23770) 35022..36848 - 1827 WP_000827528 type-F conjugative transfer system mating-pair stabilization protein TraN traN
MOQ57_RS23775 (MOQ57_23775) 36845..37264 - 420 WP_001229397 HNH endonuclease signature motif containing protein -
MOQ57_RS23780 (MOQ57_23780) 37301..37939 - 639 WP_000554823 type-F conjugative transfer system pilin assembly protein TrbC trbC
MOQ57_RS23785 (MOQ57_23785) 37924..38232 - 309 WP_010999945 hypothetical protein -
MOQ57_RS23790 (MOQ57_23790) 38251..39243 - 993 WP_000833320 conjugal transfer pilus assembly protein TraU traU
MOQ57_RS23795 (MOQ57_23795) 39240..39872 - 633 WP_000871995 type-F conjugative transfer system protein TraW traW
MOQ57_RS23800 (MOQ57_23800) 39869..40255 - 387 WP_000105164 type-F conjugative transfer system protein TrbI -
MOQ57_RS23805 (MOQ57_23805) 40230..42878 - 2649 WP_000793310 type IV secretion system protein TraC virb4
MOQ57_RS23810 (MOQ57_23810) 42894..43157 - 264 WP_001239255 hypothetical protein -
MOQ57_RS23815 (MOQ57_23815) 43274..43741 - 468 WP_000549562 hypothetical protein -
MOQ57_RS23820 (MOQ57_23820) 43734..43955 - 222 WP_001278699 conjugal transfer protein TraR -
MOQ57_RS23825 (MOQ57_23825) 44090..44604 - 515 Protein_49 type IV conjugative transfer system lipoprotein TraV -
MOQ57_RS23830 (MOQ57_23830) 44601..44846 - 246 WP_010999944 DUF2689 domain-containing protein virb4
MOQ57_RS23835 (MOQ57_23835) 44824..45420 - 597 WP_000527896 conjugal transfer pilus-stabilizing protein TraP -
MOQ57_RS23840 (MOQ57_23840) 45410..46831 - 1422 WP_000146700 F-type conjugal transfer pilus assembly protein TraB traB
MOQ57_RS23845 (MOQ57_23845) 46831..47571 - 741 WP_001230719 type-F conjugative transfer system secretin TraK traK
MOQ57_RS23850 (MOQ57_23850) 47558..48124 - 567 WP_000399768 type IV conjugative transfer system protein TraE traE
MOQ57_RS23855 (MOQ57_23855) 48146..48457 - 312 WP_000012129 type IV conjugative transfer system protein TraL traL
MOQ57_RS23860 (MOQ57_23860) 48472..48834 - 363 WP_001274201 type IV conjugative transfer system pilin TraA -
MOQ57_RS23865 (MOQ57_23865) 48876..49103 - 228 WP_001676655 conjugal transfer relaxosome protein TraY -
MOQ57_RS23870 (MOQ57_23870) 49197..49883 - 687 WP_000336297 PAS domain-containing protein -
MOQ57_RS23875 (MOQ57_23875) 50076..50456 - 381 WP_001151546 conjugal transfer relaxosome DNA-binding protein TraM -
MOQ57_RS23880 (MOQ57_23880) 50871..51341 + 471 WP_001526856 transglycosylase SLT domain-containing protein virB1
MOQ57_RS23885 (MOQ57_23885) 51652..52470 - 819 Protein_61 DUF932 domain-containing protein -
MOQ57_RS23890 (MOQ57_23890) 52573..52731 - 159 WP_001704449 hypothetical protein -
MOQ57_RS24245 52817..52945 - 129 WP_000372429 hypothetical protein -
MOQ57_RS23895 (MOQ57_23895) 52980..53717 - 738 WP_000581933 plasmid SOS inhibition protein A -
MOQ57_RS23900 (MOQ57_23900) 53714..54148 - 435 WP_010999943 conjugation system SOS inhibitor PsiB -
MOQ57_RS23905 (MOQ57_23905) 54188..56185 - 1998 WP_000117513 ParB/RepB/Spo0J family partition protein -

Host bacterium

ID   6804 GenBank   NZ_CP093387
Plasmid name   P048595|unnamed1 Incompatibility group   IncFIB
Plasmid size   93849 bp Coordinate of oriT [Strand]   50531..50800 [-]
Host baterium   Salmonella enterica strain P048595

Cargo genes

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