Detailed information of oriT

oriT

The information of the oriT region


oriTDB ID   107498
Name   oriT_pSG in_silico
Organism   Salmonella enterica subsp. enterica serovar Gallinarum str. 287/91
Sequence Completeness      -
NCBI accession of oriT (coordinates [strand])   NZ_HG970001 (78301..78362 [+], 62 nt)
oriT length   62 nt
IRs (inverted repeats)      18..25, 28..35  (GCAAAATT..AATTTTGC)
Location of nic site      44..45
Conserved sequence flanking the
  nic site    		  GGTGTGGTGC
Note   Predicted by oriTfinder 2.0

  oriT sequence  


Download         Length: 62 nt

>oriT_pSG
TTTATAAATAAAAATCAGCAAAATTTTAATTTTGCGTGGGGTGTGGTGCTTTTTGTGGTGAG

Visualization of oriT structure

  oriT secondary structure

Predicted by RNAfold.

Download structure file


Relaxase

ID   5021 GenBank   WP_000986919
Name   traI_SG_RS00310_pSG 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: 191273.14 Da        Isoelectric Point: 5.8628

>WP_000986919.1 conjugative transfer relaxase/helicase TraI [Salmonella enterica]
MMSIAQVRSAGSAAGYYSDRDNYYVLGSLEERWAGKGAEQLGVQGTVDKEVFTRVLEGRLPDGADLSRQQ
DGGNKHRPGYDLTFSAPKSVSLIAMLAGDKRLTEAHNQAVDIAVRQVEALASTRVMTDGQSETVLTGNLV
MALFNHDTSRDQEPQLHTHAVVANVTLHDGEWKTLSSDKVGKTGFIENVYANQIAFGKIYRAVLKEKVEA
LGYETEVVGKHGMWEMPGVPVEAFSSRSQAIREAVGEDASLKSRDVAALDTRKSKQHVDPEVKMAEWMQT
LKDTGFDISAYREAADRRAEIQAAQPVPSQEQPDIQQAVTQAIAGLSDRKVQFTYTDVLARTVGMLPPEA
GVIEKARAGIDEAISRERLIPLDREKGLFTSGIHVLDELSVRALSSDIMKQNRVTVHPEKSVPRTGSYSD
AVSVLAQDRPSLAIISGQGSAAGQRERVAELTMMAREQGREVQIIAADRRSQTNLKQDERLSGELITGRR
QLQEGMSFSPGSTVIVDQGEKLSLKETLTLLDGAARHNIQVLITDSGQRTGTGSALMAMKEAGVNSYRWQ
GGQQTPATVISEPDRNVRYARLAGDFVAAVKAGEESVAQVSGVREQAILAGMIRSELKTQGVLGQQDTMM
TALSPVWLDSRNRYLRDMYREGMVMEQWNPEKRSHDRYVIDRVTAQSHSLTLRDAQGETQMVRISALDSS
WSLFRPEKIPVADGERLMVTGKIPGLRVSGGDRLQVSAVNDGMMTVIVPGRAEPASLPVGDSPFTALKLE
SGWVETPGHSVSDSAKVFVSVTQMAMDNATLNGLARSGRDVRLYSSLDETRTAEKLSRHPSFTVVSEQIK
ARAGEVSLETAISRQKAGLHTPAQQAIHLALPVVESKNLAFSQVELLTEAKSFAAEGTGFAELGREIDAQ
IKRGDLLHVDVAKGYGTDLLISRASYDAEKSILHHILEGKEAVTPLMERVSGELMETLTSGQRAATRMIL
ETKDRFTVVQGYAGVGKTTQFRAVMSAVNLLPGSERPRVVGLGPTHRAVGEMRSAGVEAQTLASFLHDTQ
LQQRSGETPDFSNTLFLLDESSMVGNTDMARAYALIAAGGGRAVASGDTDQLQAIAPGQPFRLQQTRSAA
DVAIMKEIVRQTPELRDAVYSLINRDVNKALSGLENVKPVQVPRLKGAWVPENSVTEFSRLQERELVKAA
QEAEKKGEAFPDVPVTLYEAIVRDYTGRTPDAREQTLIVTHLNEDRRVLNSMIQDALAKPGEQQVTVPVL
TTANIRDGELRRLSTWENHQCALALVDKVYHRIAGISKEDGLITLQDADGNTRLISPREAAAEGVTLYNP
ETIRVGAGDRMRFTKSDRERGYVANSVWPVTAVSGDGVTLSDGKQTRVVRPGQDRAEQHIDLAYAITAHG
AQGASETFAIALEGTEGGRKQMAGFESAYVALSRMKQHVQVYTDDRQGWTDAINRAAQKGTAHDVLEPKA
DREAMNAERLFSTARELRDVAAGRAVLRNAGLALGDSRARFIAPGRKYPQPYVALPAFDRNGKSAGIWLN
PLTTDDGAGLRGFSGEGRVKGSEEAQFVALQGSRNGESLLADNMQEGVRIARDNPDSGVVVRIAGDGSPW
NPGAITGGRVWGDIPDSSVQPGAVNGEPVTAEILAQRQAEEAVRRETEQRAAEIVRKMAEDKPDLPEEKT
AQAVREIAGQEQDRMTPPERETPLPESVLREPVRERETIREVARENRVRERLQQTEQEMVRDLQKERTPD
GD

  Protein domains


Predicted by InterproScan.

TrwC relaxase (TrwC)

(11-282)

DNA helicase TraI (TraI_C)

(1430-1553)

AAA domain (AAA_30)

(967-1158)

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

(574-626)

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

(632-711)


  Protein structure



No available structure.




Auxiliary protein

ID   2302 GenBank   WP_032490308
Name   WP_032490308_pSG insolico UniProt ID   _
Length   133 a.a. PDB ID   _
Note   Predicted by oriTfinder 2.0

  Auxiliary protein sequence


Download         Length: 133 a.a.        Molecular weight: 15514.81 Da        Isoelectric Point: 10.6555

>WP_032490308.1 MULTISPECIES: conjugal transfer relaxosome DNA-bindin protein TraY [Salmonella]
MSLKRFGTRSATGKMVKLKLPVDVEKLLREASDRSGRSRSFEAVIRLKDHLHRYPKFNRKGNVYGKSLVK
YLTMRLDDETNQLLITAKNRSGWCKTDEAADRVIDHLTKFPDFYNSDIFREANEGKKSTFKER

  Protein domains


Predicted by InterproScan.

TraY domain (TraY)

(72-119)

TraY domain (TraY)

(17-60)


  Protein structure



No available structure.



ID   2303 GenBank   WP_001151568
Name   WP_001151568_pSG insolico UniProt ID   Q8L369
Length   126 a.a. PDB ID   _
Note   Predicted by oriTfinder 2.0

  Auxiliary protein sequence


Download         Length: 126 a.a.        Molecular weight: 14293.25 Da        Isoelectric Point: 4.8463

>WP_001151568.1 MULTISPECIES: conjugal transfer relaxosome DNA-binding protein TraM [Salmonella]
MAKVQAYVSDEVVEKINAIVEKRRSEGAKSTDVSFSSISTMLLELGLRVYEAQMERKESAFNQMEFNRVL
LENVLKTQSSVVKILGIGSISPHVAGNPKFEYANMVEDIKEKVSSEMERFFHENDE

  Protein domains


Predicted by InterproScan.

TraM protein, DNA-binding (Tra_M)

(1-126)


  Protein structure


Source ID Structure
AlphaFold DB Q8L369


T4CP

ID   5227 GenBank   WP_000009315
Name   traD_SG_RS00315_pSG insolico UniProt ID   _
Length   750 a.a. PDB ID   _
Note   Predicted by oriTfinder 2.0

  T4CP protein sequence


Download         Length: 750 a.a.        Molecular weight: 84983.77 Da        Isoelectric Point: 5.2394

>WP_000009315.1 type IV conjugative transfer system coupling protein TraD [Salmonella enterica]
MSFNAKDMTQGGQIASMRIRMFSQIANIIFYCLFIFFWILVGLVLWVKLSWQTFVNGCIYWWCTTLEGMR
DLIKSQPVYEIRYYGQTFRMNAAQVLQDKYTVWCGEQLWSAFVLAACVALVICLITFFMTTWILGRQGKQ
QSEDDVTGGRQLTDNPKDVARMLKKDGKASDILIGDLPIIKDSEIQNFLLHGTVSTGKSEIIRRLANYAR
QRGDMVVMYDRSCEFVKSYYDPSIDKILNPCDARCAAWDLWRECLTLPDFDNAANTLIPMGTKEDPFWQG
SGRTIFAEAAYLMRNDSDRSYSKLVDTLLSIKIEKLRTYLRDSPAANLVEEKIEKTAISIRAVLTNYVKA
VRYLQGIERNGEPFTIRDWMRGVREDQKNGWLFISSNADTHSSLKPVISMWLSIAIRGLLAMGENRNRRV
WFFCDELPTLHKLPDLVEIVPEARKFGGCYVFGIQSSTQMEDIYGEKAAATLLDVMNTRAFFRSPSYKIA
DYVAHEIGEKEILKASEQYSYGADPVRDGVSTGKEMERVTLVSYSDIQSLPDLTCYVTLPGPYPAVKLAL
KYQERPKVAPEFIPREMNPEAEARLSAVLATREAEGRQMSSLFEPDTEAVAPAAAEAQAEQPQQPQQPQQ
PQQPQQPQQPQQPQQPQQPQQPQQPQPTVVSDKKSAAAGTAANTSAGGVGQELKMKQEDEEQPLPPGINA
AGEVVDMAAYERWRQEQEVNTQQQMQRREEVNINVHRGHGKDEPEPGDHF

  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   5228 GenBank   WP_000793308
Name   traC_SG_RS00400_pSG 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: 100503.26 Da        Isoelectric Point: 6.8525

>WP_000793308.1 type IV secretion system protein TraC [Salmonella enterica]
MKNLLDTVTQAANSLLTALKLPDESAQANQILGEMSFPQFSRLLPYRDYNQESGLFMNDATMGFMLEATP
VNGANETIALSLDHLLRTKLPRGIPLCIHLMSSQLVGERIEYGLREFSWSGEQAERFNAITRSYYMKAAE
THFPLPEGMNLPLTLRHYRVFTSYCAPSRKKSRADILVMENLVKIIRASLQGAYISTQTVDAQAFINIVG
EMINHNPESLHPTRRRLDPYSDLNYQCVDDSFDLKVRQDYLTLGLRDHGRNSTARIMIFHLARNPEIAFL
WNSADNYSNLLNPELSISCPFILTLTLVVEDQVKTHSEANLKYMDLEKKSKTSYAKWFPSVEKEAKEWGD
LRQRLASNQSSVVSYFFNITAFCRDNKETALETEQDILNSFRKNGFELISPRFNHMRNFLACLPFMAGKG
LFKQLKEAGVVQRAESFNVANLMPLVADNPLTPAGLLAPTYRNQLAFIDIFFRGMNNTNYNMAVCGTSGA
GKTGLIQPLIRSVLDSGGFAVVFDMGDGYKSLCENMGGGYLDGETLRFNPFANITNIDQSAERIRDQLSV
MASPNGNLDEVHEGLLLQAVRAAWLTKKNRARIDDVVDFLENARTSEQYAESPGIRSRLDEMIVLLNQYT
AAGTYGRYFNSDEPSLRDDARMVVLELGGLEDRPSLLVAVMFSLIIYIENRMYRTPRNLKKLNVIDEGWR
LLDFKNRKVGDFIEKGYRTARRHTGAYITITQNIVDFDSDKASSAARAAWGNSSYKIILKQSAKEFAKYN
QLYPDQFPQLHREMIEKFGAAKDQWFSSFLLQVENHSSWHRLFVDPLSRAMYSSDGPDFEFVQQKRKEGL
SIHEAVWQLAWKKSGPEMASLEAWLQEHETFRRTYEYRAETD

  Protein domains


Predicted by InterproScan.

TraC protein (TraC_F_IV)

(38-276)

Family of unknown function (DUF5934) (DUF5934)

(289-446)

TraG P-loop domain (P-loop_TraG)

(468-763)

  Protein structure



No available structure.




T4SS

T4SS were predicted by using oriTfinder2.

Region 1: 51623..78906

Locus tag Coordinates Strand Size (bp) Protein ID Product Description
SG_RS00315 (SG_p0064) 51623..53875 - 2253 WP_000009315 type IV conjugative transfer system coupling protein TraD prgC
SG_RS00320 (SG_p0065) 54252..54983 - 732 WP_000850404 conjugal transfer complement resistance protein TraT -
SG_RS00325 (SG_p0066) 55229..55711 - 483 WP_000787664 hypothetical protein -
SG_RS00330 (SG_p0067) 55733..58555 - 2823 WP_001007082 conjugal transfer mating-pair stabilization protein TraG traG
SG_RS00335 (SG_p0068) 58552..59935 - 1384 Protein_70 conjugal transfer pilus assembly protein TraH -
SG_RS00340 (SG_p0070) 59925..60473 - 549 WP_000055842 type-F conjugative transfer system pilin assembly thiol-disulfide isomerase TrbB traF
SG_RS00345 60460..60753 - 294 WP_001233883 type-F conjugative transfer system pilin chaperone TraQ -
SG_RS00350 (SG_p0071) 60967..61710 - 744 WP_001227834 type-F conjugative transfer system pilin assembly protein TraF traF
SG_RS00355 (SG_p0072) 61723..61938 - 216 WP_001220321 conjugal transfer protein TrbE -
SG_RS00360 (SG_p0074) 61949..62425 - 477 WP_000046069 hypothetical protein -
SG_RS00365 (SG_p0075) 62436..64253 - 1818 WP_000827526 type-F conjugative transfer system mating-pair stabilization protein TraN traN
SG_RS00370 (SG_p0076) 64250..64669 - 420 WP_001229398 HNH endonuclease -
SG_RS00375 (SG_p0077) 64700..65338 - 639 WP_001576661 type-F conjugative transfer system pilin assembly protein TrbC trbC
SG_RS00380 (SG_p0078) 65323..65631 - 309 WP_001576663 hypothetical protein -
SG_RS00385 (SG_p0079) 65650..66642 - 993 WP_000830820 conjugal transfer pilus assembly protein TraU traU
SG_RS00390 (SG_p0080) 66639..67271 - 633 WP_000871994 type-F conjugative transfer system protein TraW traW
SG_RS00395 (SG_p0081) 67268..67654 - 387 WP_000102756 type-F conjugative transfer system protein TrbI -
SG_RS00400 (SG_p0082) 67629..70277 - 2649 WP_000793308 type IV secretion system protein TraC virb4
SG_RS00405 70293..70676 - 384 WP_000870325 hypothetical protein -
SG_RS00410 (SG_p0083) 70673..71140 - 468 WP_000549559 hypothetical protein -
SG_RS00415 (SG_p0084) 71133..71354 - 222 WP_001278699 conjugal transfer protein TraR -
SG_RS00420 (SG_p0085) 71489..72004 - 516 WP_001015676 type IV conjugative transfer system lipoprotein TraV traV
SG_RS00425 (SG_p0086) 72001..72225 - 225 WP_077906351 DUF2689 domain-containing protein -
SG_RS00430 (SG_p0087) 72203..72799 - 597 WP_000527898 conjugal transfer pilus-stabilizing protein TraP -
SG_RS00435 (SG_p0088) 72789..74210 - 1422 WP_000146698 F-type conjugal transfer pilus assembly protein TraB traB
SG_RS00440 (SG_p0089) 74210..74950 - 741 WP_115335117 type-F conjugative transfer system secretin TraK traK
SG_RS00445 (SG_p0090) 74937..75503 - 567 WP_000399760 type IV conjugative transfer system protein TraE traE
SG_RS00450 (SG_p0091) 75525..75836 - 312 WP_000012129 type IV conjugative transfer system protein TraL traL
SG_RS00455 (SG_p0092) 75851..76213 - 363 WP_001274203 type IV conjugative transfer system pilin TraA -
SG_RS00460 (SG_p0093) 76255..76650 - 396 WP_001746564 conjugal transfer relaxosome DNA-bindin protein TraY -
SG_RS00465 (SG_p0094) 76749..77438 - 690 WP_000283370 conjugal transfer transcriptional regulator TraJ -
SG_RS00470 (SG_p0095) 77633..78013 - 381 WP_001151568 conjugal transfer relaxosome DNA-binding protein TraM -
SG_RS00480 (SG_p0096) 78436..78906 + 471 WP_024134052 transglycosylase SLT domain-containing protein virB1
SG_RS00485 (SG_p0097) 79217..80035 - 819 Protein_99 DUF932 domain-containing protein -
SG_RS00490 (SG_p0098) 80138..80308 - 171 WP_000229547 hypothetical protein -
SG_RS00575 (SG_p0099) 80382..80510 - 129 WP_000372430 hypothetical protein -
SG_RS00495 (SG_p0100) 80545..81201 - 657 Protein_102 plasmid SOS inhibition protein A -
SG_RS00500 81195..81329 - 135 Protein_103 conjugation system SOS inhibitor PsiB family protein -
SG_RS00505 (SG_p0101) 81369..83366 - 1998 WP_000117512 ParB/RepB/Spo0J family partition protein -
SG_RS00510 (SG_p0102) 83435..83677 - 243 WP_000131519 DUF905 domain-containing protein -

Host bacterium

ID   7933 GenBank   NZ_HG970001
Plasmid name   pSG Incompatibility group   IncFII
Plasmid size   88350 bp Coordinate of oriT [Strand]   78301..78362 [+]
Host baterium   Salmonella enterica subsp. enterica serovar Gallinarum str. 287/91

Cargo genes

Drug resistance gene   -
Virulence gene   spvB, spvC, faeI, faeH
Metal resistance gene   -
Degradation gene   -
Symbiosis gene   -
Anti-CRISPR   -