Detailed information of oriT

oriT

The information of the oriT region


oriTDB ID   101949
Name   oriT_ST452|unnamed in_silico
Organism   Salmonella enterica subsp. enterica serovar Typhimurium strain ST452
Sequence Completeness      -
NCBI accession of oriT (coordinates [strand])   NZ_LYRS01000412 (1..189 [+], 189 nt)
oriT length   189 nt
IRs (inverted repeats)      29..35, 43..49  (TATAAAA..TTTTATA)
Location of nic site      _
Conserved sequence flanking the
  nic site    		  _
Note   Predicted by oriTfinder 2.0

  oriT sequence  


Download         Length: 189 nt

>oriT_ST452|unnamed
GCTTTGTAGGGGTGGTACTGACTATTTTTATAAAAAACATTATTTTATATTAGGGGTGCTGCTAGCGGCGCGGTGTGTTTTTTTATAGGATACCGCCAGGGGCGCTGCTAGCGGTGCGTCCCTGTTTGCATTATGAATTTTAGTGTTTCGAAATTAACTTTATTTTATGTTCAAAAAAGGTAATCTCTA

Visualization of oriT structure

  oriT secondary structure

Predicted by RNAfold.

Download structure file


Relaxase

ID   1574 GenBank   WP_000986969
Name   traI_A8276_RS17515_ST452|unnamed insolico UniProt ID   A0A731Y7R8
Length   1756 a.a. PDB ID   
Note   Predicted by oriTfinder 2.0

  Relaxase protein sequence


Download         Length: 1756 a.a.        Molecular weight: 191917.73 Da        Isoelectric Point: 5.9718

>WP_000986969.1 MULTISPECIES: conjugative transfer relaxase/helicase TraI [Enterobacteriaceae]
MMSIAQVRSAGSAGNYYTDKDNYYVLGSMGERWAGRGAEQLGLQGSVDKDVFTRLLEGKLPDGADLSRMQ
DGSNKHRPGYDLTFSAPKSVSVMAMLGGDKRLIDAHNQAVDFAVRQVEALASTRVMTDGQSETVLTGNLV
MALFNHDTSRDQEPQLHTHAVVANVTQHNGEWKTLSSDKVGKTGFIENVYANQIAFGRLYREKLKEQVEA
LGYETEVVGKHGMWEMPGVPVEAFSGRSQAIREAVGEDASLKSRDVAALDTRKSKQHVDPEVRMAEWMQT
LKETGFDIRAYRDAADQRAETRTQTPGPASQDGPDVQQAVTQAIAGLSERKVQFTYTDVLARTVGILPPE
NGVIERARAGIDEAISREQLIPLDREKGLFTSGIHVLDELSVRALSRDIMKQNRVTVHPEKSVPRTAGYS
DAVSVLAQDRPSLAIVSGQGGAAGQRERVAELVMMAREQGREVQIIAADRRSQMNLKQDERLSGELITGR
RQLQEGMAFTPGNTVIVDQGEKLSLKETLTLLDGAARHNVQVLITDSGQRTGTGSALMAMKDAGVNTYRW
QGGEQRPATIISEPDRNVRYARLAGDFAASVKAGEESVAQVSGVREQAILTQAIRSELKTQGVLGRPEVT
MTALSPVWLDSRSRYLRDMYRPGMVMEQWNPETRSHDRYVIDRVTAQSNSLTLRDAQGETQVVRISSLDS
SWSLFRPEKMPVADGERLRVTGKIPGLRVSGGDRLQVASVSEDAMTVVVPGRAEPATLPVSDSPFMALKL
ENGWVETPGHSVSDSAKVFASVTQMAMDNATLNGLARSGRDVRLYSSLDETRTAEKLARHPSFTVVSEQI
KARAGETLLETAISLQKTGLHTPAQQAIHLALPVVESKNLAFSMVDLLTEAKSFAAEGTSFTELGGEINA
QIKRGDLLYVDVAKGYGTGLLVSRASYEAEKSILRHILEGKEAVTPLMERVPGELMEKLTSGQRAATRMI
LETSDRFTVVQGYAGVGKTTQFRAVMSAVNMLPESERPRVVGLGPTHRAVGEMRSAGVDAQTLASFLHDT
QLLQRSGETPNFSNTLFLLDESSMVGNTDMARAYALIAAGGGRAVASGDTDQLQAIAPGQPFRLQQTRSA
ADVAIMKEIVRQTPELREAVYSLINRDVERALSGLESVKPSQVPRQEGAWVPEHSVTEFSHSQEAKLAEA
QQKAMLKGEAFPDIPMTLYEAIVRDYTGRTPEAREQTLIVTHLNEDRRVLNSMIHDAREKAGELGKEQVM
APVLNTANIRDGELRRLSTWETHRDALALVDNVYHRIAGISKDDGLITLQDAEGNTRLISPREAVAEGVT
LYTPDTIRVGTGDRMRFTKSDRERGYVANSVWTVTAVSGDSVTLSDGQQTRVIRPGQERAEQHIDLAYAI
TAHGAQGASETFAIALEGTEGNRKQMAGFESAYVALSRMKQHVQVYTDNRQGWTDAINNAVQKGTAHDVL
EPKSDREVMNAERLFSTARELRDVVAGRAVLRQAGLAGGDSPARFIAPGRKYPQPYVALPAFDRNGKSAG
IWLNPLTTDDGNGLRGFSGEGRVKGSGDAQFVALQGSRNGESLLADNMQDGVQIARDNPDSGVVVRIAGE
GRPWNPGTITGGRVWGDIPDNSVQPGAGNGEPVTAEVLAQRQAEEAIRRETERRADEIVRKMAENKPDLP
DGKTEQAVRDIAGLERDRSAISEREAALPESVLREPQRVREAVREVARENLLQERLQQMERDMVRDLQKE
KTLGGD

  Protein domains


Predicted by InterproScan.

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

(575-626)

AAA domain (AAA_30)

(969-1156)

TrwC relaxase (TrwC)

(10-283)

DNA helicase TraI (TraI_C)

(1434-1557)

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

(633-712)


  Protein structure



No available structure.




Auxiliary protein

ID   639 GenBank   WP_001151528
Name   WP_001151528_ST452|unnamed insolico UniProt ID   A0A731UEV6
Length   127 a.a. PDB ID   _
Note   Predicted by oriTfinder 2.0

  Auxiliary protein sequence


Download         Length: 127 a.a.        Molecular weight: 14577.51 Da        Isoelectric Point: 5.0517

>WP_001151528.1 MULTISPECIES: conjugal transfer relaxosome DNA-binding protein TraM [Enterobacteriaceae]
MAKVNLYISNDAYEKINAIIEKRRQEGAREKDVSFSATASMLLELGLRVHEAQMERKESAFNQTEFNKLL
LEYVVKTQSSVAKILGIESLSPHVSGNPKFEYANMVEDIREKVSSEMERFFPKNDDE

  Protein domains


Predicted by InterproScan.

TraM protein, DNA-binding (Tra_M)

(1-126)


  Protein structure


Source ID Structure
AlphaFold DB A0A731UEV6

ID   640 GenBank   WP_223195105
Name   WP_223195105_ST452|unnamed 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: 15423.73 Da        Isoelectric Point: 9.9240

>WP_223195105.1 MULTISPECIES: conjugal transfer relaxosome DNA-bindin protein TraY [Enterobacteriaceae]
MLLKRFGTRSATGKMVKLKLPLDVESLLIEASNRSGRSRSFEAVIRLKDHLHRYPKFNRAGNIYGKSLVK
YLTMRLDDETNQLLIAAKNRSGWCKTDEAADRVIDHLIKFPDFYNSEIFREADKEEDITFNTL

  Protein domains


Predicted by InterproScan.

TraY domain (TraY)

(18-61)

TraY domain (TraY)

(72-119)


  Protein structure



No available structure.




T4CP

ID   1242 GenBank   WP_001064265
Name   traC_A8276_RS17410_ST452|unnamed insolico UniProt ID   _
Length   875 a.a. PDB ID   _
Note   Predicted by oriTfinder 2.0

  T4CP protein sequence


Download         Length: 875 a.a.        Molecular weight: 99296.07 Da        Isoelectric Point: 6.3032

>WP_001064265.1 MULTISPECIES: type IV secretion system protein TraC [Enterobacteriaceae]
MNNPLEAVTQAVNSLVTALKLPDESAKANEVLGEMSFPQFSRLLPYRDYNQESGLFMNDTTMGFMLEAIP
INGANESIVEALDHMLRTKLPRGVPFCIHLMSSQLVGDRIEYGLREFSWSGEQAERFNAITRAYYMNAAA
TQFPLPEGMNLPLTLRHYRVFFSYCSPSKKKSRADILEMENLVKIIRASLQGASITTQAVDAQAFIDIVG
EMINHNPDSLYPKRRQLDPYSDLNYQCVEDSFDLKVRADYLTLGLREKGRNSTARILNFHLARNPEIAFL
WNMADNYSNLLNPELSISCPFILTLTLVVEDQVKTHSEANLKYMDLEKKSKTSYAKWFPSVEKEAKEWGE
LRQRLGSGQSSVVSYFLNITAFCKDNNETALEVEQDILNSFRKNGFELISPRFNHMRNFLTCLPFMAGKG
LFKQLKEAGVVQRAESFNVANLMPLVADNPLTPAGLLAPTYRNQLAFIDIFFRGMNNTNYNMAVCGTSGA
GKTGLIQPLIRSVLDSGGFAVVFDMGDGYKSLCENMGGVYLDGETLRFNPFANITDIDQSAERVRDQLSV
MASPNGNLDEVHEGLLLQAVRASWLAKKNRARIDDVVDFLKNARDNDQYVESPTIRSRLDEMIVLLDQYT
AGGTYGRYFNSDEPSLRDDAKMVVLELGGLEDRPSLLVAVMFSLIIYIENRMYRTPRNLKKLNVIDEGWR
LLDFKNHKVGEFIEKGYRTARRHTGAYITITQNIVDFDSDKASSAARAAWGNSSYKIILKQSAKEFAKYN
QLYPDQFLPLQRDMIGKFGAAKDQWFSSFLLQVENHSSWHRLFVDPLSRAMYSSDGPDFEFVQQKRKEGL
SIHEAVWQLAWKKSGPEMASLEAWLEEHEKYRSVA

  Protein domains


Predicted by InterproScan.

TraC protein (TraC_F_IV)

(38-276)

TraG P-loop domain (P-loop_TraG)

(467-771)

Family of unknown function (DUF5934) (DUF5934)

(289-446)

  Protein structure



No available structure.



ID   1243 GenBank   WP_000009324
Name   traD_A8276_RS17500_ST452|unnamed insolico UniProt ID   _
Length   717 a.a. PDB ID   _
Note   Predicted by oriTfinder 2.0

  T4CP protein sequence


Download         Length: 717 a.a.        Molecular weight: 81528.14 Da        Isoelectric Point: 5.1126

>WP_000009324.1 MULTISPECIES: type IV conjugative transfer system coupling protein TraD [Enterobacteriaceae]
MSFNAKDMTQGGQIASMRIRMFSQIANIILYCLFIFFWILVGLVLWVKISWQTFVNGCIYWWCTTLEGMR
DLIRSQPVYEIQYYGKTFRMNAAQVLHDKYMIWCGEQLWSAFVLASVVALVICLITFFVVSWILGRQGKQ
QSENEITGGRQLTDNPKEVARMLKKDGKDSDIRIGDLPIIRDSEIQNFCLHGTVGAGKSEVIRRLANYAR
QRGDMVVIYDRSGEFVKSYYDPSIDKILNPLDARCAAWDLWKECLTQPDFDNTANTLIPMGTKEDPFWQG
SGRTIFAEAAYLMRNDPNRSYSKLVDTLLSIKIEKLRTFLRNSPAANLVEEKIEKTAISIRAVLTNYVKA
IRYLQGIEHNGEPFTIRDWMRGVREDQKNGWLFISSNADTHASLKPVISMWLSIAIRGLLAMGENRNRRV
WFFCDELPTLHKLPDLVEILPEARKFGGCYVFGIQSYAQLEDIYGEKAAATLFDVMNTRAFFRSPSHKIA
EFAAGEIGEKEHLKASEQYSYGADPVRDGVSTGKDMERQTLVSYSDIQSLPDLTCYVTLPGPYPAVKLSL
KYQTRPKVAPEFIPRDINPEMENRLSAVLAAREAEGRQMASLFEPDVPEVVSGEDVTQAEQPQQPVSPAI
NDKKSDAGVNVPAGGIEQELKMKPEEEMEQQLPPGISESGEVVDMAVYEAWQREQNPDIQQKMQRREEVN
INVHRERGEDVEPGDDF

  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.




T4SS

T4SS were predicted by using oriTfinder2.

Region 1: 2343..25725

Locus tag Coordinates Strand Size (bp) Protein ID Product Description
A8276_RS17345 (A8276_18000) 190..573 + 384 WP_001151528 conjugal transfer relaxosome DNA-binding protein TraM -
A8276_RS17350 (A8276_18005) 760..1449 + 690 WP_000283383 conjugal transfer transcriptional regulator TraJ -
A8276_RS17355 (A8276_18010) 1548..1943 + 396 WP_001366159 conjugal transfer relaxosome DNA-bindin protein TraY -
A8276_RS17360 (A8276_18015) 1976..2338 + 363 WP_000994784 type IV conjugative transfer system pilin TraA -
A8276_RS17365 (A8276_18020) 2343..2654 + 312 WP_000012106 type IV conjugative transfer system protein TraL traL
A8276_RS17370 (A8276_18025) 2676..3242 + 567 WP_000399792 type IV conjugative transfer system protein TraE traE
A8276_RS17375 (A8276_18030) 3229..3957 + 729 WP_001230805 type-F conjugative transfer system secretin TraK traK
A8276_RS17380 (A8276_18035) 3957..5408 + 1452 WP_000146659 F-type conjugal transfer pilus assembly protein TraB traB
A8276_RS17385 (A8276_18040) 5398..5958 + 561 WP_000896605 conjugal transfer pilus-stabilizing protein TraP -
A8276_RS17390 (A8276_18045) 5945..6265 + 321 WP_001057304 conjugal transfer protein TrbD virb4
A8276_RS17395 (A8276_18050) 6258..6509 + 252 WP_001038331 conjugal transfer protein TrbG -
A8276_RS17400 (A8276_18055) 6506..7021 + 516 WP_000809885 type IV conjugative transfer system lipoprotein TraV traV
A8276_RS17405 (A8276_18060) 7156..7377 + 222 WP_001278686 conjugal transfer protein TraR -
A8276_RS17410 (A8276_18065) 7537..10164 + 2628 WP_001064265 type IV secretion system protein TraC virb4
A8276_RS17415 (A8276_18070) 10161..10547 + 387 WP_000099693 type-F conjugative transfer system protein TrbI -
A8276_RS17420 (A8276_18075) 10544..11176 + 633 WP_001203750 type-F conjugative transfer system protein TraW traW
A8276_RS17425 (A8276_18080) 11173..12165 + 993 WP_000830835 conjugal transfer pilus assembly protein TraU traU
A8276_RS17430 (A8276_18085) 12174..12812 + 639 WP_000777690 type-F conjugative transfer system pilin assembly protein TrbC trbC
A8276_RS17435 (A8276_18090) 12809..14617 + 1809 WP_000821840 type-F conjugative transfer system mating-pair stabilization protein TraN traN
A8276_RS17440 (A8276_18095) 14644..14901 + 258 WP_000864318 conjugal transfer protein TrbE -
A8276_RS17445 (A8276_18100) 14894..15637 + 744 WP_001030378 type-F conjugative transfer system pilin assembly protein TraF traF
A8276_RS17450 (A8276_18105) 15653..16000 + 348 WP_001287910 conjugal transfer protein TrbA -
A8276_RS17455 (A8276_18110) 16002..16316 - 315 WP_000415566 protein ArtA -
A8276_RS17460 (A8276_18115) 16397..16681 + 285 WP_000624109 type-F conjugative transfer system pilin chaperone TraQ -
A8276_RS17465 (A8276_18120) 16668..17213 + 546 WP_000059851 type-F conjugative transfer system pilin assembly thiol-disulfide isomerase TrbB traF
A8276_RS17470 (A8276_18125) 17143..17484 + 342 WP_001443031 P-type conjugative transfer protein TrbJ -
A8276_RS17475 (A8276_18130) 17471..17851 + 381 WP_001366201 F-type conjugal transfer protein TrbF -
A8276_RS17480 (A8276_18135) 17848..19224 + 1377 WP_000982840 conjugal transfer pilus assembly protein TraH traH
A8276_RS17485 (A8276_18140) 19221..22043 + 2823 WP_001007016 conjugal transfer mating-pair stabilization protein TraG traG
A8276_RS17490 (A8276_18145) 22059..22556 + 498 WP_000605859 entry exclusion protein -
A8276_RS17495 (A8276_18150) 22588..23319 + 732 WP_023565183 conjugal transfer complement resistance protein TraT -
A8276_RS17500 (A8276_18155) 23572..25725 + 2154 WP_000009324 type IV conjugative transfer system coupling protein TraD virb4
A8276_RS17505 (A8276_18160) 25734..26132 - 399 WP_000911313 type II toxin-antitoxin system VapC family toxin -
A8276_RS17510 (A8276_18165) 26132..26359 - 228 WP_000450520 toxin-antitoxin system antitoxin VapB -

Host bacterium

ID   2393 GenBank   NZ_LYRS01000412
Plasmid name   ST452|unnamed Incompatibility group   -
Plasmid size   38696 bp Coordinate of oriT [Strand]   1..189 [+]
Host baterium   Salmonella enterica subsp. enterica serovar Typhimurium strain ST452

Cargo genes

Drug resistance gene   -
Virulence gene   -
Metal resistance gene   -
Degradation gene   -
Symbiosis gene   -
Anti-CRISPR   -