Detailed information of oriT

oriT

The information of the oriT region


oriTDB ID   104956
Name   oriT_pSA20051401.2 in_silico
Organism   Salmonella enterica strain SA20051401
Sequence Completeness      -
NCBI accession of oriT (coordinates [strand])   NZ_CP030198 (110526..110795 [-], 270 nt)
oriT length   270 nt
IRs (inverted repeats)      245..253, 262..270  (CACCCCTGG..CCAGGGGTG)
 92..98, 111..117  (ATTTAAT..ATTAAAT)
 31..38, 41..48  (GCAAAATT..AATTTTGC)
Location of nic site      _
Conserved sequence flanking the
  nic site    		  _
Note   Predicted by oriTfinder 2.0

  oriT sequence  


Download         Length: 270 nt

>oriT_pSA20051401.2
GTCCTCACCACCAAAAGCACCACACCCCACGCAAAATTAAAATTTTGCTGATTTGTTTTTAGTAACAGTGAGTTATGTTCATAATAATGTAATTTAATTTATTTTAAAGTATTAAATAGCGGTGCAGGCACGTCGCCGGCACCGCTATGACGACGCTATACAGGGGTAGTACTGACTATTTTTATAAAAAACATTGCATTATATCAGGGGCGCTGCTAGCGTCGCTGTGCCTGTTTTTAAGTAACACCCCTGGGGGCGCTGCCAGGGGTG

Visualization of oriT structure

  oriT secondary structure

Predicted by RNAfold.

Download structure file


Relaxase

ID   3482 GenBank   WP_114064573
Name   traI_CHD15_RS26380_pSA20051401.2 insolico UniProt ID   _
Length   1752 a.a. PDB ID   
Note   Predicted by oriTfinder 2.0

  Relaxase protein sequence


Download         Length: 1752 a.a.        Molecular weight: 191453.37 Da        Isoelectric Point: 5.8007

>WP_114064573.1 conjugative transfer relaxase/helicase TraI [Salmonella enterica]
MMSIAQVRSAGSAAGYYSDRDNYYVLGSLEERWAGKGAEQLGLQGAVDKEVFTRVLEGRLPDGADLSRQQ
EGGNKHRPGYDLTFSAPKSVSLMAMLAGDKRLTEAHNQAVDIAVRQVEALASTRVMTDGQSETVLTGNLV
MALFNHDTSRDQEPQLHTHAVVANVTLHDGEWKTLSSDKVGKTGFIENVYANQIAFGKIYRAVLKEKVEA
LGYETEVVGKHGMWEMPGVPVEAFSSRSQVIREAVGEDASLKSRDVAALDTRKSKQHVDPEVKMAEWMQT
LKDTGFDISAYREAADRRAEIQAAQPVPSQEQPDIQQAVTQAIAGLSDRKVQFTYTDVLARTVGMLPPEA
GVIEKARAGIDEAISREQLIPLDREKGLFTSGIHVLDELSIRALSSDIMKQNRVTVHPEKSVPRTGSYSD
AVSVLAQDRPSLAIISGQGGAAGQRERVAELTMMAREQGREVQIIAADRRSQTNLKQDERLSGELITGRR
QLQEGMSFSPGSTVIVDQGEKLSLKETLTLLDGAARHNIQVLITDSGQRTGTGSALMAMKEAGVNSYRWQ
GGQQTPATVISEPDRNVRYARLAGDFVAAVKAGEESVAQVSGVREQAILAGMIRSELKTQGILGQQDTMM
TALSPVWLDSRNRYLRDMYREGMVMEQWNPEKRSHDRYVIDRVTAQSHSLTLRDAQGRTQMVRISALDSS
WSLFRPEKIPVADGERLMVTGKIPGLRVSGGDRLQVSAVNDGMMTVIVPGRAEPASLPVGDSPFTALKLE
NGWVETPGHSVSDSAKVFASVTQMAMDNATLNGLARSGRDVRLYSSLDEARTAEKLSRHPSFTVVSEQIK
ARAGEVSLETAISLQKAGLHTPAQQALHLAIPVVESKKLAFSQVELLTEAKSFAAEGTGFAELGREIDAQ
IKRGDLLHVDVAKGYGTDLLISRASYDAEKSILHHILEGKEAVTPLMERVSGELMETLTSGQRATTRMIL
ETKDRFTVVQGYAGVGKTTQFRAVMSAVNLLPEDERPRVVGLGPTHRAVGEMRSAGVEAQTLASFLHDTQ
LQQRSGETPDFSNTLFLLDESSMVGNTDMARAYALIAAGGGRAVASGDTDQLQAIAPGQPFRLQQTRSAA
DVAIMKEIVRQTPELRDAVYSLINRDVNKALSGLENVKPIQVPRLKGAWVPENSVTEFSRLQERELVKAA
QEAEKKGEAFPDVPVTLYEAIVRDYTGRTPDAREQTLIVTHLNEDRRVLNSMIQDALAKPGEQQVTVPVL
TTANIRDGELRRLSTWENHQGALALVDKVYHRIAGISKEDGLITLQDADGNTRLISPREASAEGVTLYNP
ETIRVGAGDRMRFTKSDRERGYVANSVWTVTAVSGDGVTLSDGKQTRVVRPGQDRAEQHIDLAYAITAHG
AQGASETFAIALEGTEGGRKQMAGFESAYVALSRMKQHVQVYTDDRQGWVKAINSAEQKGSAHDVLEPKS
EREMMNAERLFSTARELRDVAAGRAVLRNAGLAQGDSRARFIAPGRKYPQPYVALPAFDRNGKSAGIWLN
PLTTDDGAGLRGFSGEGRVKGSEEAQFVALQGSRNGESLLADNMQEGVRIARDNPDSGVVVRIAGDGRPW
NSGAITGGRVWGDIPDSSVQPGAGNGEPVTAEILAQWQAEEAVRSETEHRADEIVRKMAEDKSDLPEEKT
AQAVREIAGQEQDRMTPPEREPPLPESVLREPQRERETIREVARENRVRERLQQMEQEMVRDLQKEKTPG
GD

  Protein domains


Predicted by InterproScan.

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

(632-711)

AAA domain (AAA_30)

(967-1158)

TrwC relaxase (TrwC)

(11-282)

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.




Auxiliary protein

ID   1549 GenBank   WP_001676655
Name   WP_001676655_pSA20051401.2 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   1550 GenBank   WP_053253587
Name   WP_053253587_pSA20051401.2 insolico UniProt ID   _
Length   126 a.a. PDB ID   _
Note   Predicted by oriTfinder 2.0

  Auxiliary protein sequence


Download         Length: 126 a.a.        Molecular weight: 14385.34 Da        Isoelectric Point: 5.8154

>WP_053253587.1 MULTISPECIES: conjugal transfer relaxosome DNA-binding protein TraM [Salmonella]
MAKVNVYISNEVRNKITAIVEKRRQEGARDKDISFSGTSSMLLELGLRVYEAQMERKESPFNQTEFNKVL
LENVLKTQSSVAKILGIGSLSPHVAGNPKFEYANMVEDIKEKVSSEMERFFHENEE

  Protein domains


Predicted by InterproScan.

TraM protein, DNA-binding (Tra_M)

(1-126)


  Protein structure



No available structure.




T4CP

ID   3428 GenBank   WP_114064574
Name   traD_CHD15_RS26385_pSA20051401.2 insolico UniProt ID   _
Length   747 a.a. PDB ID   _
Note   Predicted by oriTfinder 2.0

  T4CP protein sequence


Download         Length: 747 a.a.        Molecular weight: 84744.41 Da        Isoelectric Point: 5.6482

>WP_114064574.1 type IV conjugative transfer system coupling protein TraD [Salmonella enterica]
MSFNAKDMTQGGQIASMRIRMFSQIANIIFYCLFIFFWILVGLVLWVKLSWQTFVNGCIYWWCTTLEGMR
DLIKSQPVYEIRYYGQTFRMNAAQVLQDKYTVWCGEQLWSAFVLAACVALVICLITFFMTTWILGRQGKQ
QSENEVTGGRQLTDNPKDVARMLKKDGKDSDIRIGDLPIIRDSEIQNFCLHGTVGAGKSEVIRRLANYAR
QRGDMVVIYDRSGEFVKSYYDPSIDKILNPLDARCAAWDLWKECLTQPDFDNTANTLIPMGTKEDPFWQG
SGRTIFAEAAYLMRNDPNRSYSKLVDTLLSIKIEKLRTFLRNSPAANLVEEKIEKTAISIRAVLTNYVKA
IRYLQGIEHNGEPFTIRDWMRGVREDQKNGWLFISSNADTHASLKPVISMWLSIAIRGLLAMGENRNRRV
WFFCDELPTLHKLPDLVEILPEARKFGGCYVFGIQSYAQLEDIYGEKAAATLFDVMNTRAFFRSPSHKIA
EFAAGEIGEKEHLKASEQYSYGADPVRDGVSTGKDMERQTLVSYSDIQSLPDLTCYVTLPGPYPAVKLSL
KYQARPKVAPEFIPREINPEMENRLSAVLAAREAEGRQMASLFEPDVPEVVSGEDVTQAEQPQQPQQPQQ
PQQPQQPQQPQQPQQPQQPQQPQPTVVSDKKSAAAGTAANTSAGGVGQELKMKQEDEEQPLPPGINASGE
VVDMAAYERWRQEQEVNTQQQMQRREEVNINIHRGHGKDEPEPGDHF

  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   3429 GenBank   WP_114064582
Name   traC_CHD15_RS26465_pSA20051401.2 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: 100619.42 Da        Isoelectric Point: 6.7851

>WP_114064582.1 type IV secretion system protein TraC [Salmonella enterica]
MKNLLDTVTQAANSLLTALKLPDESAQANQILGEMSFPQFSRLLPYRDYNQESGLFMNDATMGFMLEATP
VNGANETIALSLDHLLRTKLPRGIPLCIHLMSSQLVGERIEYGLREFSWSGEQAERFNAITRAYYMKAAE
THFPLPEGMNLPLTLRHYRVFISYCAPSRKKSRADILEMENLVKIIRASLQGAYISTQTVDAQAFINIVG
EMINHNPESLHPTRRRLDPYSDLNYQCVDDSFDLKVRQDYLTLGLRDHGKNSTARIMSFHLARNPEIAFL
WNSADNYSNLLNPELSISCPFILTLTLVVEDQVKTHSEANLKYMDLEKKSKTSYAKWFPSVEKEAKEWGD
LRQRLASNQSSVVSYFFNITAFCRDNKETALETEQDILNSFRKNGFELISPRFNHMRNFLACLPFMAGKG
LFKQLKEAGVVQRAESFNVANLMPLVVDNPLTPAGLLAPTYRNQLAFIDIFFRGMNNTNYNMAVCGTSGA
GKTGLIQPLIRSVLDSGGFAVVFDMGDGYKSLCENMGGVYLDGETLRFNPFANITNIDQSAERIRDQLSV
MASPNGNLDEVHEGLLLQAVRAAWLTKKNRARIDDVVDFLENARTSERYAESPGIRSRLDEMIVLLNQYT
AAGTYGRYFNSDEPSLRDDARMVVLELGGLEDRPSLLVAVMFSLIIYIENRMYRTPRNLKKLNVIDEGWR
LLDFKNRKVGDFIEKGYRTARRHTGAYITITQNIVDFDSDKASSAARAAWGNSSYKIILKQSAKEFAKYN
QLYPDQFPQLHREMIEKFGAAKDQWFSSFLLQVENHSSWHRLFVDPLSRAMYSSDGPDFEFVQQKRKEGL
SIHEAVWQLAWKKSEPEMASLEAWLQEHETFRRTHEYRAETD

  Protein domains


Predicted by InterproScan.

TraG P-loop domain (P-loop_TraG)

(467-763)

Family of unknown function (DUF5934) (DUF5934)

(289-445)

TraC protein (TraC_F_IV)

(38-276)

  Protein structure



No available structure.




T4SS

T4SS were predicted by using oriTfinder2.

Region 1: 84648..111336

Locus tag Coordinates Strand Size (bp) Protein ID Product Description
CHD15_RS26385 (CHD15_26375) 84648..86891 - 2244 WP_114064574 type IV conjugative transfer system coupling protein TraD virb4
CHD15_RS26390 (CHD15_26380) 87267..87998 - 732 WP_114064575 conjugal transfer complement resistance protein TraT -
CHD15_RS26395 (CHD15_26385) 88311..88793 - 483 WP_114064576 surface exclusion protein -
CHD15_RS26400 (CHD15_26390) 88815..91637 - 2823 WP_114064577 conjugal transfer mating-pair stabilization protein TraG traG
CHD15_RS26405 (CHD15_26395) 91634..93016 - 1383 WP_001161720 conjugal transfer pilus assembly protein TraH traH
CHD15_RS26410 (CHD15_26400) 93006..93554 - 549 WP_094882718 type-F conjugative transfer system pilin assembly thiol-disulfide isomerase TrbB traF
CHD15_RS26415 (CHD15_26405) 93541..93834 - 294 WP_053253523 type-F conjugative transfer system pilin chaperone TraQ -
CHD15_RS26420 (CHD15_26410) 94048..94797 - 750 WP_114064578 type-F conjugative transfer system pilin assembly protein TraF traF
CHD15_RS26425 (CHD15_26415) 94809..95024 - 216 WP_053253599 conjugal transfer protein TrbE -
CHD15_RS26430 (CHD15_26420) 95035..96861 - 1827 WP_114064579 type-F conjugative transfer system mating-pair stabilization protein TraN traN
CHD15_RS26435 (CHD15_26425) 96858..97277 - 420 WP_021003392 HNH endonuclease signature motif containing protein -
CHD15_RS26440 (CHD15_26430) 97314..97952 - 639 WP_053253597 type-F conjugative transfer system pilin assembly protein TrbC trbC
CHD15_RS26445 (CHD15_26435) 97937..98245 - 309 WP_114064580 hypothetical protein -
CHD15_RS26450 (CHD15_26440) 98264..99256 - 993 WP_114064581 conjugal transfer pilus assembly protein TraU traU
CHD15_RS26455 (CHD15_26445) 99253..99885 - 633 WP_053253595 type-F conjugative transfer system protein TraW traW
CHD15_RS26460 (CHD15_26450) 99882..100268 - 387 WP_053253594 type-F conjugative transfer system protein TrbI -
CHD15_RS26465 (CHD15_26455) 100243..102891 - 2649 WP_114064582 type IV secretion system protein TraC virb4
CHD15_RS26470 (CHD15_26460) 102907..103290 - 384 WP_042827805 hypothetical protein -
CHD15_RS26475 (CHD15_26465) 103287..103754 - 468 WP_114064583 hypothetical protein -
CHD15_RS26480 (CHD15_26470) 103747..103968 - 222 WP_001278699 conjugal transfer protein TraR -
CHD15_RS26485 (CHD15_26475) 104103..104618 - 516 WP_001015676 type IV conjugative transfer system lipoprotein TraV traV
CHD15_RS26490 (CHD15_26480) 104615..104839 - 225 WP_001746950 DUF2689 domain-containing protein -
CHD15_RS26495 (CHD15_26485) 104817..105413 - 597 WP_114064584 conjugal transfer pilus-stabilizing protein TraP -
CHD15_RS26500 (CHD15_26490) 105403..106824 - 1422 WP_114064585 F-type conjugal transfer pilus assembly protein TraB traB
CHD15_RS26505 (CHD15_26495) 106824..107564 - 741 WP_114064586 type-F conjugative transfer system secretin TraK traK
CHD15_RS26510 (CHD15_26500) 107551..108117 - 567 WP_053253589 type IV conjugative transfer system protein TraE traE
CHD15_RS26515 (CHD15_26505) 108139..108450 - 312 WP_000012129 type IV conjugative transfer system protein TraL traL
CHD15_RS26520 (CHD15_26510) 108465..108827 - 363 WP_001274199 type IV conjugative transfer system pilin TraA -
CHD15_RS26525 (CHD15_26515) 108869..109096 - 228 WP_001676655 conjugal transfer relaxosome protein TraY -
CHD15_RS26530 (CHD15_26520) 109190..109876 - 687 WP_114064587 PAS domain-containing protein -
CHD15_RS26535 (CHD15_26525) 110070..110450 - 381 WP_053253587 conjugal transfer relaxosome DNA-binding protein TraM -
CHD15_RS26545 (CHD15_26535) 110866..111336 + 471 WP_042828200 transglycosylase SLT domain-containing protein virB1
CHD15_RS27095 (CHD15_26540) 111647..112465 - 819 Protein_121 DUF932 domain-containing protein -
CHD15_RS26950 112568..112726 - 159 WP_162785956 hypothetical protein -
CHD15_RS27590 112812..112940 - 129 WP_000372430 hypothetical protein -
CHD15_RS26555 (CHD15_26545) 112975..113712 - 738 WP_114064588 plasmid SOS inhibition protein A -
CHD15_RS26560 (CHD15_26550) 113709..114143 - 435 WP_010999943 conjugation system SOS inhibitor PsiB -
CHD15_RS26565 (CHD15_26555) 114183..116180 - 1998 WP_114064589 ParB/RepB/Spo0J family partition protein -

Host bacterium

ID   5394 GenBank   NZ_CP030198
Plasmid name   pSA20051401.2 Incompatibility group   IncFIB
Plasmid size   134274 bp Coordinate of oriT [Strand]   110526..110795 [-]
Host baterium   Salmonella enterica strain SA20051401

Cargo genes

Drug resistance gene   -
Virulence gene   prgI, spaQ, spaP, invC/sctN, invA, faeJ, faeI, faeH, faeC
Metal resistance gene   -
Degradation gene   -
Symbiosis gene   -
Anti-CRISPR   -