Detailed information of oriT

oriT

The information of the oriT region


oriTDB ID   106605
Name   oriT_pST3606-2 in_silico
Organism   Salmonella enterica subsp. enterica strain 3018683606
Sequence Completeness      -
NCBI accession of oriT (coordinates [strand])   NZ_CP094334 (49372..49495 [-], 124 nt)
oriT length   124 nt
IRs (inverted repeats)      101..106, 119..124  (TTTAAT..ATTAAA)
 91..99, 113..121  (AATAATGTA..TACATTATT)
 90..95, 107..112  (AAATAA..TTATTT)
 39..46, 49..56  (GCAAAAAC..GTTTTTGC)
 3..10, 15..22  (TTGGTGGT..ACCACCAA)
Location of nic site      _
Conserved sequence flanking the
  nic site    		  _
Note   Predicted by oriTfinder 2.0

  oriT sequence  


Download         Length: 124 nt

>oriT_pST3606-2
GGTTGGTGGTTCTCACCACCAAAAGCACCACACCCCACGCAAAAACAAGTTTTTGCTGATTTGCTTTTTGAATCATTAGCTTATGTTTTAAATAATGTATTTTAATTTATTTTACATTATTAAA

Visualization of oriT structure

  oriT secondary structure

Predicted by RNAfold.

Download structure file


Relaxase

ID   4385 GenBank   WP_061093447
Name   traI_MQF88_RS25185_pST3606-2 insolico UniProt ID   A0A2Z4I1F4
Length   1756 a.a. PDB ID   
Note   Predicted by oriTfinder 2.0

  Relaxase protein sequence


Download         Length: 1756 a.a.        Molecular weight: 192119.90 Da        Isoelectric Point: 6.0788

>WP_061093447.1 MULTISPECIES: conjugative transfer relaxase/helicase TraI [Enterobacteriaceae]
MMSIAQVRSAGSAGNYYTDKDNYYVLGSMGERWAGRGAEQLGLQGSVDKDVFTRLLEGRLPDGADLSRMQ
DGSNRHRPGYDLTFSAPKSVSMMAMLGGDKRLIDAHNQAVDFAVRQVEALASTRVMTDGQSETVLTGNLV
MALFNHDTSRDQEPQLHTHAVVANVTQHNGEWKTLSSDKVGKTGFIENVYANQIAFGRLYREKLKEQVEA
LGYETEVVGKHGMWEMPGVPVEAFSGRSQAIREAVGEDASLKSRDVAALDTRKSKQHVDPEVRMAEWMQT
LKETGFDIRAYRDAADQRAETRTQAPGAVSQEGPDVQQAVTQAIAGLSERKVQFTYTDVLARTVGILPPE
NGVIERARAGIDEAISREQLIPLDREKGLFTSGIHVLDELSVRALSRDIMKQNRVTVHPEKSVPRTAGYS
DAVSVLAQDRPSLAIVSGQGGAAGQRERVAELVMMAREQGREVQIIAADRRSQMNLKQDERLSGELITGR
RQLPEGMAFTPGSTVIVDQGEKLSLKETLTLLDGAARHNVQVLITDSGQRTGTGSALMAMKDAGVNIYRW
QGGEQRPATIISEPDRNVRYARLAGDFAASVKAGEESVAQVSGVREQAILTQAIRSELKTQGVLGHPEVT
MTALSPVWLDSRSRYLRDMYRPGMVMEQWNPETRSHDRYVIDRVTAQSHSLTLRDVQGETQVVRISSLDS
SWSLFRPEKMPVADGERLRVTGKIPGLRVSGGDRLQVASVSEDVMTVVVPGRAEPASLPVSDSPFTALKL
ENGWVETPGHSVSDSAKVFASVTQMAMDKATLNGLARSGRDVRLYSSLDETRTAEKLARHPSFTVVSEQI
KARAGETSLETAISHQKSALNTPAQQAIHLALPVVESKNLAFSHVDLLTEAKSFAAEGTSFADLGREIDA
QIKRGDLLHVDVAKGYGTDLLVSRASYEAEKSILRHILEGKEAVTPLMERVPGELMEKLTSGQRAATRMI
LETPDRFTVVQGYAGVGKTTQFRAVMSAVNMLPESERPRVVGLGPTHRAVGEMRSAGVDAQTLASFLHDT
QLQQRSGETPDFSNTLFLLDESSMVGNTDMARAYALIAAGGGRAVASGDTDQLQAIAPGQPFRLQQTRSA
ADVAIMKEIVRQTPELREAVYSLINRDVERALSGLESVKPSQVPRQEGAWAPEHSVTEFSHSQEAKLAEA
QQKAMLKGEAFPDVPMTLYEAIVRDYTGRTPEAREQTLIVTHLNEDRRVLNSMIHDAREKAGELGKEQVM
VPVLNTANIRDGELRRLSTWETHRDALALVDNVYHRIAGISRDDGLITLQDAEGNTRLISPREAVAEGVT
LYTPDKIRVGTGDRMRFTKSDRERGYVANSVWTVTAVSGDSVTLSDGQQTRVIRPAQEQAEQHIDLAYAI
TAHGAQGASETFAIALEGTEGNRKLMAGFESAYVALSRMKQHVQVYTDNRQGWTDAINNAVQKGTAHDVL
EPKPDREVMNAERLFSTARELRDVAAGRAVLRQAGLAGGDSPARFIAPGRKYPQPYVALPAFDRNGKSAG
IWLNPLTSDDGNGLRGFSGEGRVKGSGDAQFVALQGSRNGESLLADNMQDGVRIARDNPDSGVVVRIAGE
GRPWNPGAITGGRVWGDIPDNSVQPGAGNGEPVTAEVLAQRQAEEAIRRETERRADEIVRKMAENKPDLP
DGKTEQAVREIAGQVRERAAITERETALPESVLREPQREREAVREVARENLLQERLQQMERDMVRDLQKE
KTLGGD

  Protein domains


Predicted by InterproScan.

DNA helicase TraI (TraI_C)

(1434-1557)

TrwC relaxase (TrwC)

(10-283)

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

(575-626)

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

(633-712)

AAA domain (AAA_30)

(969-1156)


  Protein structure



No available structure.




Auxiliary protein

ID   1952 GenBank   WP_242935023
Name   WP_242935023_pST3606-2 insolico UniProt ID   _
Length   56 a.a. PDB ID   _
Note   Predicted by oriTfinder 2.0

  Auxiliary protein sequence


Download         Length: 56 a.a.        Molecular weight: 6826.71 Da        Isoelectric Point: 8.5849

>WP_242935023.1 TraY domain-containing protein [Salmonella enterica]
MYLDEDTNNRLIKAKDRSGRSKTIEVQIRLRDHLKRFPDFYNEEIFREVTGERVNI

  Protein domains


Predicted by InterproScan.

TraY domain (TraY)

(2-46)


  Protein structure



No available structure.



ID   1953 GenBank   WP_000124981
Name   WP_000124981_pST3606-2 insolico UniProt ID   A0A630FTW9
Length   127 a.a. PDB ID   _
Note   Predicted by oriTfinder 2.0

  Auxiliary protein sequence


Download         Length: 127 a.a.        Molecular weight: 14542.59 Da        Isoelectric Point: 5.0278

>WP_000124981.1 MULTISPECIES: conjugal transfer relaxosome DNA-binding protein TraM [Gammaproteobacteria]
MARVNLYISNEVHEKINMIVEKRRQEGARDKDISLSGTASMLLELGLRVYDAQMERKESAFNQTEFNKLL
LECVVKTQSTVAKILGIESLSPHVSGNPKFEYASMVDDIREKVSVEMDRFFPKNDDE

  Protein domains


Predicted by InterproScan.

TraM protein, DNA-binding (Tra_M)

(1-126)


  Protein structure


Source ID Structure
AlphaFold DB A0A630FTW9


T4CP

ID   4418 GenBank   WP_000009363
Name   traD_MQF88_RS25190_pST3606-2 insolico UniProt ID   _
Length   741 a.a. PDB ID   _
Note   Predicted by oriTfinder 2.0

  T4CP protein sequence


Download         Length: 741 a.a.        Molecular weight: 84259.95 Da        Isoelectric Point: 5.0504

>WP_000009363.1 MULTISPECIES: type IV conjugative transfer system coupling protein TraD [Enterobacteriaceae]
MSFNAKDMTQGGQIASMRIRMFSQIANIMLYCLFIFFWILVGLVLWVKISWQTFVNGCIYWWCTTLEGMR
DLIKSQPVYEIQYYGKTFRMNAAQVLHDKYMIWCGEQLWSAFVLATVVALVICLITFFVVSWILGRQGKQ
QSENEVTGGRQLTDNPKDVARMLKKDGKDSDIRIGDLPIIRDSEIQNFCLHGTVGAGKSEVIRRLANYAR
QRGDMVVIYDRSGEFVKSYYDPSIDKILNPLDARCAAWDLWKECLTQPDFDNTANTLIPMGTKEDPFWQG
SGRTIFAEAAYLMRNDPNRSYSKLVDTLLSIKIEKLRTFLRNSPAANLVEEKIEKTAISIRAVLTNYVKA
IRYLQGIEHNGESFTIRDWMRGVREDQKNGWLFISSNADTHASLKPVISMWLSIAIRGLLAMGENRNRRV
WFFCDELPTLHKLPDLVEILPEARKFGGCYVFGIQSYAQLEDIYGEKAAATLFDVMNTRAFFRSPSHKIA
EFAAGEIGEKEHLKASEQYSYGADPVRDGVSTGKDMERQTLVSYSDIQSLPDLTCYVTLPGPYPAVKLSL
KYQARPKVAPEFIPRDINPEMENRLSAVLAAREAEGRQMASLFEPDVPEVVSGEDVTQAEQPQQPQQPQQ
PQQPQQPQQPQQPQQPQQPVSPAINDKKSDSGVNVPAGGIEQELKMKPEEEMEQQLPPGISESGEVVDMA
AYEAWQQENHPDIQQQMQRREEVNINVHRERGEDVEPGDDF

  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.



ID   4419 GenBank   WP_015059012
Name   traC_MQF88_RS25295_pST3606-2 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: 99393.22 Da        Isoelectric Point: 6.3465

>WP_015059012.1 MULTISPECIES: type IV secretion system protein TraC [Gammaproteobacteria]
MNNPLEAVTQAVNSLVTALKLPDESAKANEVLGEMSFPQFSRLLPYRDYNQESGLFMNDTTMGFMLEAIP
INGANESIVEALDHMLRTKLPRGVPFCIHLMSSQLVGDRIEYGLREFSWSGEQAERFNAITRAYYMNAAA
TQFPLPEGMNLPLTLRHYRVFFSYCSPSKKKSRADILEMENLVKIIRASLQGASITTQAVDAQAFIDIVG
EMINHNPDSLYPKRRQLDPYSDLNYQCVEDSFDLKVRADYLTLGLRENGRNSTARILNFHLARNPEIAFL
WNMADNYSNLLNPEMSISCPFILTLTLVVEDQVKTHSEANLKYMDLEKKSKTSYAKWFPSVEKEAKEWGE
LRQRLGSGQSSVVSYFLNITAFCKDNNETALEVEQDILNSFRKNGFELISPRFNHMRNFLTCLPFMAGKG
LFKQLKEAGVVQRAESFNVANLMPLVADNPLTPAGLLAPTYRNQLAFIDIFFKGMNNTNYNMAVCGTSGA
GKTGLIQPLIRSVLDSGGFAVVFDMGDGYKSLCENMGGVYLDGETLRFNPFANITDIDQSAERVRDQLSV
MASPNGNLDEVHEGLLLQAVRASWLAKKKQARIDDVVDFLKNARDNDQYVESPTIRSRLDEMIVLLDQYT
ANGTYGRYFNSDEPSLRDDARMVVLELGGLEDRPSLLVAVMFSLIIYIENRMYRTPRNLKKLNVIDEGWR
LLDFKNRKVGEFIQKGYRTCRRHTGAYITITQNIVDFDSDKASSAARAAWGNSSYKIILKQSAKEFAKYN
QLYPDQFLPLQRDMIGKFGAAKDQWFSSFLLQVENHSSWHRLFVDPLSRAMYSSDGPDFEFVQQKRKEGL
SIHEAVWQLAWKKSGPEMASLEAWLEEHEKYRSVA

  Protein domains


Predicted by InterproScan.

Family of unknown function (DUF5934) (DUF5934)

(290-446)

TraG P-loop domain (P-loop_TraG)

(467-771)

TraC protein (TraC_F_IV)

(38-276)

  Protein structure



No available structure.




T4SS

T4SS were predicted by using oriTfinder2.

Region 1: 21888..50067

Locus tag Coordinates Strand Size (bp) Protein ID Product Description
MQF88_RS25190 (MQF88_25200) 21888..24113 - 2226 WP_000009363 type IV conjugative transfer system coupling protein TraD virb4
MQF88_RS25195 (MQF88_25205) 24164..24901 - 738 WP_015059020 hypothetical protein -
MQF88_RS25200 (MQF88_25210) 25104..25835 - 732 WP_021559024 conjugal transfer complement resistance protein TraT -
MQF88_RS25205 (MQF88_25215) 25860..26381 - 522 WP_000632668 conjugal transfer entry exclusion protein TraS -
MQF88_RS25210 (MQF88_25220) 26414..29228 - 2815 Protein_30 conjugal transfer mating-pair stabilization protein TraG -
MQF88_RS25215 (MQF88_25225) 29225..30598 - 1374 WP_000944325 conjugal transfer pilus assembly protein TraH traH
MQF88_RS25220 (MQF88_25230) 30585..30977 - 393 WP_000126338 F-type conjugal transfer protein TrbF -
MQF88_RS25225 (MQF88_25235) 30931..31245 - 315 WP_001384255 P-type conjugative transfer protein TrbJ -
MQF88_RS25230 (MQF88_25240) 31235..31780 - 546 WP_000059817 type-F conjugative transfer system pilin assembly thiol-disulfide isomerase TrbB traF
MQF88_RS25235 (MQF88_25245) 31767..32048 - 282 WP_000549793 type-F conjugative transfer system pilin chaperone TraQ -
MQF88_RS25240 (MQF88_25250) 32164..32907 - 744 WP_015059017 type-F conjugative transfer system pilin assembly protein TraF traF
MQF88_RS25245 (MQF88_25255) 32900..33157 - 258 WP_053913405 conjugal transfer protein TrbE -
MQF88_RS25250 (MQF88_25260) 33184..35034 - 1851 WP_015059015 type-F conjugative transfer system mating-pair stabilization protein TraN traN
MQF88_RS25255 (MQF88_25265) 35031..35453 - 423 WP_001229309 HNH endonuclease signature motif containing protein -
MQF88_RS25260 (MQF88_25270) 35479..35850 - 372 WP_000056336 hypothetical protein -
MQF88_RS25265 (MQF88_25275) 35847..36485 - 639 WP_000087532 type-F conjugative transfer system pilin assembly protein TrbC trbC
MQF88_RS25270 (MQF88_25280) 36512..37033 - 522 WP_015059014 hypothetical protein -
MQF88_RS25275 (MQF88_25285) 37096..37404 - 309 WP_000412447 hypothetical protein -
MQF88_RS25280 (MQF88_25290) 37431..38423 - 993 WP_000830838 conjugal transfer pilus assembly protein TraU traU
MQF88_RS25285 (MQF88_25295) 38420..39052 - 633 WP_001203735 type-F conjugative transfer system protein TraW traW
MQF88_RS25290 (MQF88_25300) 39049..39435 - 387 WP_015059013 type-F conjugative transfer system protein TrbI -
MQF88_RS25295 (MQF88_25305) 39432..42059 - 2628 WP_015059012 type IV secretion system protein TraC virb4
MQF88_RS25300 (MQF88_25310) 42219..42440 - 222 WP_001278692 conjugal transfer protein TraR -
MQF88_RS25305 (MQF88_25315) 42575..43090 - 516 WP_000809902 type IV conjugative transfer system lipoprotein TraV traV
MQF88_RS25310 (MQF88_25320) 43087..43338 - 252 WP_001038341 conjugal transfer protein TrbG -
MQF88_RS25315 (MQF88_25325) 43350..43547 - 198 WP_001324648 conjugal transfer protein TrbD -
MQF88_RS25320 (MQF88_25330) 43534..44124 - 591 WP_000002778 conjugal transfer pilus-stabilizing protein TraP -
MQF88_RS25325 (MQF88_25335) 44114..45541 - 1428 WP_032297072 F-type conjugal transfer pilus assembly protein TraB traB
MQF88_RS25330 (MQF88_25340) 45541..46269 - 729 WP_001230787 type-F conjugative transfer system secretin TraK traK
MQF88_RS25335 (MQF88_25345) 46256..46822 - 567 WP_000399794 type IV conjugative transfer system protein TraE traE
MQF88_RS25340 (MQF88_25350) 46844..47155 - 312 WP_000012106 type IV conjugative transfer system protein TraL traL
MQF88_RS25345 (MQF88_25355) 47170..47535 - 366 WP_021519752 type IV conjugative transfer system pilin TraA -
MQF88_RS25350 (MQF88_25360) 47569..47749 - 181 Protein_58 TraY domain-containing protein -
MQF88_RS25355 (MQF88_25365) 47886..48569 - 684 Protein_59 PAS domain-containing protein -
MQF88_RS25360 (MQF88_25370) 48760..49143 - 384 WP_000124981 conjugal transfer relaxosome DNA-binding protein TraM -
MQF88_RS25365 (MQF88_25375) 49420..50067 + 648 WP_015059008 transglycosylase SLT domain-containing protein virB1
MQF88_RS25370 (MQF88_25380) 50364..51185 - 822 WP_001234445 DUF932 domain-containing protein -
MQF88_RS25375 (MQF88_25385) 51296..51592 - 297 WP_001272251 hypothetical protein -
MQF88_RS25380 (MQF88_25390) 51892..52188 + 297 Protein_64 hypothetical protein -
MQF88_RS25385 (MQF88_25395) 52507..52632 - 126 WP_001372321 type I toxin-antitoxin system Hok family toxin -
MQF88_RS25390 (MQF88_25400) 52574..52723 - 150 Protein_66 plasmid maintenance protein Mok -
MQF88_RS25395 (MQF88_25405) 52945..53664 - 720 WP_001276217 plasmid SOS inhibition protein A -
MQF88_RS25400 (MQF88_25410) 53661..54095 - 435 WP_000845953 conjugation system SOS inhibitor PsiB -

Host bacterium

ID   7042 GenBank   NZ_CP094334
Plasmid name   pST3606-2 Incompatibility group   IncFII
Plasmid size   70455 bp Coordinate of oriT [Strand]   49372..49495 [-]
Host baterium   Salmonella enterica subsp. enterica strain 3018683606

Cargo genes

Drug resistance gene   blaTEM-1B, aac(3)-IId
Virulence gene   -
Metal resistance gene   -
Degradation gene   -
Symbiosis gene   -
Anti-CRISPR   -