Detailed information of oriT

oriT

The information of the oriT region


oriTDB ID   107490
Name   oriT_pSPUV in_silico
Organism   Salmonella enterica subsp. enterica serovar Pullorum
Sequence Completeness      -
NCBI accession of oriT (coordinates [strand])   NC_019112 (58976..59037 [+], 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_pSPUV
TTTATAAATAAAAATCAGCAAAATTTTAATTTTGCGTGGGGTGTGGTGCTTTTTGTGGTGAG

Visualization of oriT structure

  oriT secondary structure

Predicted by RNAfold.

Download structure file


Relaxase

ID   5016 GenBank   WP_015059446
Name   traI_HS862_RS00215_pSPUV insolico UniProt ID   H9ACC1
Length   1752 a.a. PDB ID   
Note   Predicted by oriTfinder 2.0

  Relaxase protein sequence


Download         Length: 1752 a.a.        Molecular weight: 191399.30 Da        Isoelectric Point: 5.9179

>WP_015059446.1 conjugative transfer relaxase/helicase TraI [Salmonella enterica]
MMSIAQVRSAGSAAGYYSDRDNYYVLGSLEERWAGKGAEQLGVQGTVDKEVFTRVLEGRLPDGADLSRQQ
DGGNKHRPGYDLTFSAPKSVSLIAMLAGDKRLTEAHNQAVDIAVRQVEALASTRVMTDGQSETVLTGNLV
MALFNHDTSRDQEPQLHTHAVVANVTLHDGEWKTLSSDKVGKTGFIENVYANQIAFGKIYRAVLKEKVEA
LGYETEVVGKHGMWEMPGVPVEAFSSRSQAIREAVGEDASLKSRDVAALDTRKSKQHVDPEVKMAEWMQT
LKDTGFDISAYREAADRRAEIQAAQPVPSQEQPDIQQAVTQAIAGLSDRKVQFTYTDVLARTVGMLPPEA
GVIEKARAGIDEAISRERLIPLDREKGLFTSGIHVLDELSVRALSSDIMKQNRVTVHPEKSVPRTGSYSD
AVSVLAQDRPSLAIISGQGSAAGQRERVADLTMMAREQGREVQIIAADRRSQTNLKQDERLSGELITGRR
QLQEGMSFSPGSTVIVDQGEKLSLKETLTLLDGAARHNIQVLITDSGQRTGTGSALMAMKEAGVNSYRWQ
GGQQTPATVISEPDRNVRYARLAGDFVAAVKAGEESVAQVSGVREQAILAGMIRSELKTQGVLGQQDTMM
TALSPVWLDSRNRYLRDMYREGMVMEQWNPEKRSHDRYVIDRVTAQSHSLTLRDAQGETQMVRISALDSS
WSLFRPEKIPVADGERLMVTGKIPGLRVSGGDRLQVSAVNDGMMTVIVPGRAEPASLPVGDSPFTALKLE
NGWVETPGHSVSDSAKVFVSVTQMAMDNATLNGLARSGRDVRLYSSLDETRTAEKLSRHPSFTVVSEQIK
ARAGEVSLETAISRQKAGLHTPAQQAIHLALPVVESKNLAFSQVELLTEAKSFAAEVTGFAELGREIDAQ
IKRGDLLHVDVAKGYGTDLLISRASYDAEKSILHHILEGKEAVTPLMERVSGELMETLTSGQRAATRMIL
ETKDRFTVVQGYAGVSKTTQFRAVMSAVNLLPGSERPRVVGLGPTHRAVGEMRSAGVEAQTLASFLHDTQ
LQQRSGETPDFSNTLFLLDESSMVGNTDMARAYALIAAGGGRAVASGDTDQLQAIAPGQPFRLQQTRSAA
DVAIMKEIVRQTPELRDAVYSLINRDVNKALSGLENVKPVQVPRLKGAWVPENSVTEFSRLQERELVKAA
QEAEKKGEAFPDVPVTLYEAIVRDYTGRTPDAREQTLIVTHLNEDRRVLNSMIQDALAKPGEQQVTVPVL
TTANIRDGELRRLSTWENHQCALALVDKVYHRIAGISKEDGLITLQDADGNTRLISPREAAAEGVTLYNP
ETIRVGAGDRMRFTKSDRERGYVANSVWPVTAVSGDGVTLSDGKQTRVVRPGQDRAEQHIDLAYAITAHG
AQGASETFAIALEGTEGGRKQMAGFESAYVALSRMKQHVQVYTDDRQGWTDAINRAAQKGTAHDVLEPKA
DREAMNAERLFSTARELRDVAAGRAVLRNAGLALGDSRARFIAPGRKYPQPYVALPAFDRNGKSAGIWLN
PLTTDDGAGLRGFSGEGRVKGSEEAQFAALQGSRNGESLLADNMQEGVRIARDNPDSGVVVRIAGDGRPW
NPGAITGGRVWGDIPDSSVQPGAVNGEPVTAEILAQRQAEEAVRRETEQRAAEIVRKMAEDKPDLPEEKT
AQAVREIAGQEQDRMTPPERETPLPESVLREPVRERETIREVARENRVRERLQQTEQEMVRDLQKERTPD
GD

  Protein domains


Predicted by InterproScan.

TrwC relaxase (TrwC)

(11-282)

AAA domain (AAA_30)

(967-1158)

DNA helicase TraI (TraI_C)

(1430-1553)

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

(632-711)

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

(574-626)


  Protein structure



No available structure.




Auxiliary protein

ID   2296 GenBank   WP_032490308
Name   WP_032490308_pSPUV 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   2297 GenBank   WP_001151568
Name   WP_001151568_pSPUV 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   5220 GenBank   WP_015059447
Name   traD_HS862_RS00220_pSPUV insolico UniProt ID   _
Length   777 a.a. PDB ID   _
Note   Predicted by oriTfinder 2.0

  T4CP protein sequence


Download         Length: 777 a.a.        Molecular weight: 88102.10 Da        Isoelectric Point: 5.2353

>WP_015059447.1 type IV conjugative transfer system coupling protein TraD [Salmonella enterica]
MSFNAKDMTQGGQIASMRIRMFSQIANIIFYCLFIFFWILVGLVLWVKLSWQTFVNGCIYWWCTTLEGMR
DLIKSQPVYEIRYYGQTFRMNAAQVLQDKYTVWCGEQLWSAFVLAACVALVICLITFFMTTWILGRQGKQ
QSEDDVTGGRQLTDNPKDVARMLKKDGKASDILIGDLPIIKDSEIQNFLLHGTVSTGKSEIIRRLANYAR
QRGDMVVMYDRSCEFVKSYYDPSIDKILTPCDARCAAWDLWRECLTLPDFDNAANTLIPMGTKEDPFWQG
SGRTIFAEAAYLMRNDSDRSYSKLVDTLLSIKIEKLRTYLRDSPAANLVEEKIEKTAISIRAVLTNYVKA
VRYLQGIERNGEPFTIRDWMRGVREDQKNGWLFISSNADTHSSLKPVISMWLSIAIRGLLAMGENRNRRV
WFFCDELPTLHKLPDLVEIVPEARKFGGCYVFGIQSSTQMEDIYGEKAAATLLDVMNTRAFFRSPSYKIA
DYVAHEIGEKEILKASEQYSYGADPVRDGVSTGKEMERVTLVSYSDIQSLPDLTCYVTLPGPYPAVKLAL
KYQERPKVAPEFIPREMNPEAEARLSAVLAAREAEGRQMSSLFEPDTEAVAPAAAEAQAEQPQQPQQPQQ
PQQPQQPQQPQQPQQPQQPQQPQQPQQPQQPQQPQQPQQPQQPQQPQQPQQPQPTVVSDKKSAAAGTAAN
TSAGGVGQELKMKQEDEEQPLPPGINAAGEVVDMAAYERWRQEQEVNTQQQMQRREEVNINVHHGHGKDE
PEPGDHF

  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.




T4SS

T4SS were predicted by using oriTfinder2.

Region 1: 33919..59581

Locus tag Coordinates Strand Size (bp) Protein ID Product Description
HS862_RS00220 (pSPUV_047) 33919..36252 - 2334 WP_015059447 type IV conjugative transfer system coupling protein TraD prgC
HS862_RS00225 (pSPUV_048) 36629..37360 - 732 WP_000850404 conjugal transfer complement resistance protein TraT -
HS862_RS00230 (pSPUV_049) 37606..38088 - 483 WP_000787664 hypothetical protein -
HS862_RS00550 39325..40596 - 1272 Protein_48 conjugal transfer pilus assembly protein TraH -
HS862_RS00240 (pSPUV_051) 40586..41134 - 549 WP_000055842 type-F conjugative transfer system pilin assembly thiol-disulfide isomerase TrbB traF
HS862_RS00245 (pSPUV_052) 41121..41414 - 294 WP_001233883 type-F conjugative transfer system pilin chaperone TraQ -
HS862_RS00250 (pSPUV_053) 41628..42371 - 744 WP_001746545 type-F conjugative transfer system pilin assembly protein TraF traF
HS862_RS00255 42384..42599 - 216 WP_001746544 conjugal transfer protein TrbE -
HS862_RS00260 42610..43086 - 477 WP_001746543 hypothetical protein -
HS862_RS00265 (pSPUV_055) 43097..44923 - 1827 WP_001746541 type-F conjugative transfer system mating-pair stabilization protein TraN traN
HS862_RS00270 (pSPUV_056) 44920..45339 - 420 WP_001229398 HNH endonuclease -
HS862_RS00275 (pSPUV_057) 45376..46014 - 639 WP_001576661 type-F conjugative transfer system pilin assembly protein TrbC trbC
HS862_RS00280 (pSPUV_058) 45999..46307 - 309 WP_001576663 hypothetical protein -
HS862_RS00285 (pSPUV_059) 46326..47318 - 993 WP_015059450 conjugal transfer pilus assembly protein TraU traU
HS862_RS00290 (pSPUV_060) 47315..47947 - 633 WP_015059451 type-F conjugative transfer system protein TraW traW
HS862_RS00295 (pSPUV_061) 47944..48330 - 387 WP_000102756 type-F conjugative transfer system protein TrbI -
HS862_RS00300 (pSPUV_062) 48305..50952 - 2648 Protein_61 type IV secretion system protein TraC -
HS862_RS00305 (pSPUV_063) 50968..51351 - 384 WP_000870325 hypothetical protein -
HS862_RS00310 (pSPUV_064) 51348..51815 - 468 WP_000549559 hypothetical protein -
HS862_RS00315 (pSPUV_065) 51808..52029 - 222 WP_001278699 conjugal transfer protein TraR -
HS862_RS00320 (pSPUV_066) 52164..52679 - 516 WP_001746951 type IV conjugative transfer system lipoprotein TraV traV
HS862_RS00325 (pSPUV_067) 52676..52900 - 225 WP_001746950 DUF2689 domain-containing protein -
HS862_RS00330 (pSPUV_068) 52878..53474 - 597 WP_000527898 conjugal transfer pilus-stabilizing protein TraP -
HS862_RS00335 (pSPUV_069) 53464..54885 - 1422 WP_000146698 F-type conjugal transfer pilus assembly protein TraB traB
HS862_RS00340 (pSPUV_070) 54885..55625 - 741 WP_015059453 type-F conjugative transfer system secretin TraK traK
HS862_RS00345 (pSPUV_071) 55612..56178 - 567 WP_000399760 type IV conjugative transfer system protein TraE traE
HS862_RS00350 (pSPUV_072) 56200..56511 - 312 WP_000012129 type IV conjugative transfer system protein TraL traL
HS862_RS00355 (pSPUV_073) 56526..56888 - 363 WP_001274202 type IV conjugative transfer system pilin TraA -
HS862_RS00360 (pSPUV_074) 56930..57325 - 396 WP_001746564 conjugal transfer relaxosome DNA-bindin protein TraY -
HS862_RS00365 (pSPUV_075) 57424..58113 - 690 WP_001746563 conjugal transfer transcriptional regulator TraJ -
HS862_RS00370 (pSPUV_076) 58308..58688 - 381 WP_001151568 conjugal transfer relaxosome DNA-binding protein TraM -
HS862_RS00375 (pSPUV_077) 59111..59581 + 471 WP_024134052 transglycosylase SLT domain-containing protein virB1
HS862_RS00380 (pSPUV_079) 59892..60710 - 819 Protein_77 DUF932 domain-containing protein -
HS862_RS00385 (pSPUV_080) 60813..60983 - 171 WP_000229547 hypothetical protein -
HS862_RS00560 (pSPUV_081) 61057..61185 - 129 WP_001746558 hypothetical protein -
HS862_RS00390 (pSPUV_082) 61220..61876 - 657 Protein_80 plasmid SOS inhibition protein A -
HS862_RS00395 (pSPUV_083) 61870..62004 - 135 Protein_81 conjugation system SOS inhibitor PsiB family protein -
HS862_RS00400 (pSPUV_084) 62044..64027 - 1984 Protein_82 ParB/RepB/Spo0J family partition protein -
HS862_RS00405 (pSPUV_085) 64096..64236 - 141 Protein_83 DUF905 family protein -
HS862_RS00410 (pSPUV_086) 64238..64552 - 315 Protein_84 single-stranded DNA-binding protein SSB2 -

Host bacterium

ID   7925 GenBank   NC_019112
Plasmid name   pSPUV Incompatibility group   IncFII
Plasmid size   86686 bp Coordinate of oriT [Strand]   58976..59037 [+]
Host baterium   Salmonella enterica subsp. enterica serovar Pullorum

Cargo genes

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