Detailed information of oriT

oriT

The information of the oriT region


oriTDB ID   101995
Name   oriT_SE696A|unnamed2 in_silico
Organism   Salmonella enterica subsp. enterica strain SE696A
Sequence Completeness      -
NCBI accession of oriT (coordinates [strand])   NZ_LXHA01000113 (28481..28832 [+], 352 nt)
oriT length   352 nt
IRs (inverted repeats)      192..198, 206..212  (TATAAAA..TTTTATA)
 40..47, 50..57  (GCAAAAAC..GTTTTTGC)
 4..11, 16..23  (TTGGTGGT..ACCACCAA)
Location of nic site      _
Conserved sequence flanking the
  nic site    		  _
Note   Predicted by oriTfinder 2.0

  oriT sequence  


Download         Length: 352 nt

>oriT_SE696A|unnamed2
AGGTTGGTGGTTCTCACCACCAAAAGCACCACACCCCACGCAAAAACAAGTTTTTGCTGATTTTTCTTTATAAATAGAGAGTTATGAAAAATTAGTTTCTCTTACTCTCTTTATGATATTTAAAAAAGCGGTGTCGGCGCGGCTACAACAACGCGCCGACACCGCTTTGTAGGGGTGGTACTGACTATTTTTATAAAAAACATTATTTTATATTAGGGGTGCTGCTAGCGGCGCGGTGTGTTTTTTTATAGGATACCGCCAGGGGCGCTGCTAGCGGTGCGTCCCTGTTTGCATTATGAATTTTAGTGTTTCGAAATTAACTTTATTTTATGTTCAAAAAAGGTAATCTCTA

Visualization of oriT structure

  oriT secondary structure

Predicted by RNAfold.

Download structure file


Relaxase

ID   1594 GenBank   WP_000986969
Name   traI_A7B05_RS08570_SE696A|unnamed2 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   649 GenBank   WP_001151528
Name   WP_001151528_SE696A|unnamed2 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   650 GenBank   WP_223195105
Name   WP_223195105_SE696A|unnamed2 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   1258 GenBank   WP_001064265
Name   traC_A7B05_RS08465_SE696A|unnamed2 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   1259 GenBank   WP_000009324
Name   traD_A7B05_RS08555_SE696A|unnamed2 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: 27910..54368

Locus tag Coordinates Strand Size (bp) Protein ID Product Description
A7B05_RS26030 23838..25207 + 1370 WP_085947770 IS3-like element IS150 family transposase -
A7B05_RS28135 25249..25398 + 150 Protein_31 plasmid maintenance protein Mok -
A7B05_RS27530 (A7B05_13750) 25340..25465 + 126 WP_001372321 type I toxin-antitoxin system Hok family toxin -
A7B05_RS28405 25685..25914 + 230 Protein_33 hypothetical protein -
A7B05_RS28140 25912..26085 - 174 Protein_34 hypothetical protein -
A7B05_RS28145 (A7B05_13760) 26155..26361 + 207 WP_015059635 hypothetical protein -
A7B05_RS08385 (A7B05_13765) 26386..26672 + 287 Protein_36 hypothetical protein -
A7B05_RS08390 (A7B05_13770) 26792..27613 + 822 WP_001234423 DUF932 domain-containing protein -
A7B05_RS08395 (A7B05_13775) 27910..28500 - 591 WP_023565181 transglycosylase SLT domain-containing protein -
A7B05_RS08400 (A7B05_13780) 28833..29216 + 384 WP_001151528 conjugal transfer relaxosome DNA-binding protein TraM -
A7B05_RS08405 (A7B05_13785) 29403..30092 + 690 WP_000283383 conjugal transfer transcriptional regulator TraJ -
A7B05_RS08410 (A7B05_13790) 30191..30586 + 396 WP_001366159 conjugal transfer relaxosome DNA-bindin protein TraY -
A7B05_RS08415 (A7B05_13795) 30619..30981 + 363 WP_000994784 type IV conjugative transfer system pilin TraA -
A7B05_RS08420 (A7B05_13800) 30986..31297 + 312 WP_000012106 type IV conjugative transfer system protein TraL traL
A7B05_RS08425 (A7B05_13805) 31319..31885 + 567 WP_000399792 type IV conjugative transfer system protein TraE traE
A7B05_RS08430 (A7B05_13810) 31872..32600 + 729 WP_001230805 type-F conjugative transfer system secretin TraK traK
A7B05_RS08435 (A7B05_13815) 32600..34051 + 1452 WP_000146659 F-type conjugal transfer pilus assembly protein TraB traB
A7B05_RS08440 (A7B05_13820) 34041..34601 + 561 WP_000896605 conjugal transfer pilus-stabilizing protein TraP -
A7B05_RS08445 (A7B05_13825) 34588..34908 + 321 WP_001057304 conjugal transfer protein TrbD virb4
A7B05_RS08450 (A7B05_13830) 34901..35152 + 252 WP_001038331 conjugal transfer protein TrbG -
A7B05_RS08455 (A7B05_13835) 35149..35664 + 516 WP_000809885 type IV conjugative transfer system lipoprotein TraV traV
A7B05_RS08460 (A7B05_13840) 35799..36020 + 222 WP_001278686 conjugal transfer protein TraR -
A7B05_RS08465 (A7B05_13845) 36180..38807 + 2628 WP_001064265 type IV secretion system protein TraC virb4
A7B05_RS08470 (A7B05_13850) 38804..39190 + 387 WP_000099693 type-F conjugative transfer system protein TrbI -
A7B05_RS08475 (A7B05_13855) 39187..39819 + 633 WP_001203750 type-F conjugative transfer system protein TraW traW
A7B05_RS08480 (A7B05_13860) 39816..40808 + 993 WP_000830835 conjugal transfer pilus assembly protein TraU traU
A7B05_RS08485 (A7B05_13865) 40817..41455 + 639 WP_000777690 type-F conjugative transfer system pilin assembly protein TrbC trbC
A7B05_RS08490 (A7B05_13870) 41452..43260 + 1809 WP_000821840 type-F conjugative transfer system mating-pair stabilization protein TraN traN
A7B05_RS08495 (A7B05_13875) 43287..43544 + 258 WP_000864318 conjugal transfer protein TrbE -
A7B05_RS08500 (A7B05_13880) 43537..44280 + 744 WP_001030378 type-F conjugative transfer system pilin assembly protein TraF traF
A7B05_RS08505 (A7B05_13885) 44296..44643 + 348 WP_001287910 conjugal transfer protein TrbA -
A7B05_RS08510 (A7B05_13890) 44645..44959 - 315 WP_000415566 protein ArtA -
A7B05_RS08515 (A7B05_13895) 45040..45324 + 285 WP_000624109 type-F conjugative transfer system pilin chaperone TraQ -
A7B05_RS08520 (A7B05_13900) 45311..45856 + 546 WP_000059851 type-F conjugative transfer system pilin assembly thiol-disulfide isomerase TrbB traF
A7B05_RS08525 (A7B05_13905) 45786..46127 + 342 WP_001443031 P-type conjugative transfer protein TrbJ -
A7B05_RS08530 (A7B05_13910) 46114..46494 + 381 WP_001366201 F-type conjugal transfer protein TrbF -
A7B05_RS08535 (A7B05_13915) 46491..47867 + 1377 WP_000982840 conjugal transfer pilus assembly protein TraH traH
A7B05_RS08540 (A7B05_13920) 47864..50686 + 2823 WP_001007016 conjugal transfer mating-pair stabilization protein TraG traG
A7B05_RS08545 (A7B05_13925) 50702..51199 + 498 WP_000605859 entry exclusion protein -
A7B05_RS08550 (A7B05_13930) 51231..51962 + 732 WP_023565183 conjugal transfer complement resistance protein TraT -
A7B05_RS08555 (A7B05_13935) 52215..54368 + 2154 WP_000009324 type IV conjugative transfer system coupling protein TraD virb4
A7B05_RS08560 (A7B05_13940) 54377..54775 - 399 WP_000911313 type II toxin-antitoxin system VapC family toxin -
A7B05_RS08565 (A7B05_13945) 54775..55002 - 228 WP_000450520 toxin-antitoxin system antitoxin VapB -

Host bacterium

ID   2439 GenBank   NZ_LXHA01000113
Plasmid name   SE696A|unnamed2 Incompatibility group   IncFIA
Plasmid size   70375 bp Coordinate of oriT [Strand]   28481..28832 [+]
Host baterium   Salmonella enterica subsp. enterica strain SE696A

Cargo genes

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