Detailed information of oriT

oriT

The information of the oriT region


oriTDB ID   108405
Name   oriT_p2-4 in_silico
Organism   Salmonella enterica strain
Sequence Completeness      -
NCBI accession of oriT (coordinates [strand])   NZ_CP091574 (41310..41433 [+], 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_p2-4
GGTTGGTGGTTCTCACCACCAAAAGCACCACACCCCACGCAAAAACAAGTTTTTGCTGATTTGCTTTTTGAATCATTAGCTTATGTTTTAAATAATGTATTTTAATTTATTTTACATTATTAAA

Visualization of oriT structure

  oriT secondary structure

Predicted by RNAfold.

Download structure file


Relaxase

ID   5619 GenBank   WP_247863749
Name   traI_INN74_RS26090_p2-4 insolico UniProt ID   _
Length   1756 a.a. PDB ID   
Note   Predicted by oriTfinder 2.0

  Relaxase protein sequence


Download         Length: 1756 a.a.        Molecular weight: 192147.96 Da        Isoelectric Point: 6.1283

>WP_247863749.1 conjugative transfer relaxase/helicase TraI [Salmonella enterica]
MMSIAQVRSAGSAGNYYTDKDNYYVLGSMGERWAGRGAEQLGLQGSVDKDVFTRLLEGRLPDGADLSRMR
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   2704 GenBank   WP_000124981
Name   WP_000124981_p2-4 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

ID   2705 GenBank   WP_001254386
Name   WP_001254386_p2-4 insolico UniProt ID   A0A3Z6KJB5
Length   75 a.a. PDB ID   _
Note   Predicted by oriTfinder 2.0

  Auxiliary protein sequence


Download         Length: 75 a.a.        Molecular weight: 9005.11 Da        Isoelectric Point: 10.1422

>WP_001254386.1 MULTISPECIES: conjugal transfer relaxosome protein TraY [Gammaproteobacteria]
MRRRNARGGISRTVSVYLDEDTNNRLIKAKDRSGRSKTIEVQIRLRDHLKRFPDFYNEEIFREVTEESES
TFKEL

  Protein domains


Predicted by InterproScan.

TraY domain (TraY)

(14-61)


  Protein structure


Source ID Structure
AlphaFold DB A0A3Z6KJB5


T4CP

ID   6005 GenBank   WP_015059012
Name   traC_INN74_RS25980_p2-4 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.



ID   6006 GenBank   WP_086118634
Name   traD_INN74_RS26085_p2-4 insolico UniProt ID   _
Length   753 a.a. PDB ID   _
Note   Predicted by oriTfinder 2.0

  T4CP protein sequence


Download         Length: 753 a.a.        Molecular weight: 85673.46 Da        Isoelectric Point: 5.0504

>WP_086118634.1 MULTISPECIES: type IV conjugative transfer system coupling protein TraD [Enterobacteriaceae]
MSFNAKDMTQGGQIASMRIRMFSQIANIMLYCLFIFFWILVGLVLWVKISWQTFVNGCIYWWCTTLEGMR
DLIKSQPVYEIQYYGKTFRMNAAQVLHDKYMIWCGEQLWSAFVLATVVALVICLITFFVVSWILGRQGKQ
QSENEVTGGRQLTDNPKDVARMLKKDGKDSDIRIGDLPIIRDSEIQNFCLHGTVGAGKSEVIRRLANYAR
QRGDMVVIYDRSGEFVKSYYDPSIDKILNPLDARCAAWDLWKECLTQPDFDNTANTLIPMGTKEDPFWQG
SGRTIFAEAAYLMRNDPNRSYSKLVDTLLSIKIEKLRTFLRNSPAANLVEEKIEKTAISIRAVLTNYVKA
IRYLQGIEHNGESFTIRDWMRGVREDQKNGWLFISSNADTHASLKPVISMWLSIAIRGLLAMGENRNRRV
WFFCDELPTLHKLPDLVEILPEARKFGGCYVFGIQSYAQLEDIYGEKAAATLFDVMNTRAFFRSPSHKIA
EFAAGEIGEKEHLKASEQYSYGADPVRDGVSTGKDMERQTLVSYSDIQSLPDLTCYVTLPGPYPAVKLSL
KYQARPKVAPEFIPRDINPEMENRLSAVLAAREAEGRQMASLFEPDVPEVVSGEDVTQAEQPQQPQQPQQ
PQQPQQPQQPQQPQQPQQPQQPQQPQQPQQPVSPAINDKKSDSGVNVPAGGIEQELKMKPEEEMEQQLPP
GISESGEVVDMAAYEAWQQENHPDIQQQMQRREEVNINVHRERGEDVEPGDDF

  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: 40738..68962

Locus tag Coordinates Strand Size (bp) Protein ID Product Description
INN74_RS25875 (INN74_25875) 36710..37144 + 435 WP_000845953 conjugation system SOS inhibitor PsiB -
INN74_RS25880 (INN74_25880) 37141..37860 + 720 WP_001276217 plasmid SOS inhibition protein A -
INN74_RS25885 (INN74_25885) 38082..38231 + 150 Protein_48 plasmid maintenance protein Mok -
INN74_RS25890 (INN74_25890) 38173..38298 + 126 WP_001372321 type I toxin-antitoxin system Hok family toxin -
INN74_RS25895 (INN74_25895) 38617..38913 - 297 Protein_50 hypothetical protein -
INN74_RS25900 (INN74_25900) 39213..39509 + 297 WP_001272251 hypothetical protein -
INN74_RS25905 (INN74_25905) 39620..40441 + 822 WP_001234445 DUF932 domain-containing protein -
INN74_RS25910 (INN74_25910) 40738..41385 - 648 WP_015059008 transglycosylase SLT domain-containing protein virB1
INN74_RS25915 (INN74_25915) 41662..42045 + 384 WP_000124981 conjugal transfer relaxosome DNA-binding protein TraM -
INN74_RS25920 (INN74_25920) 42236..42922 + 687 WP_015059009 PAS domain-containing protein -
INN74_RS25925 (INN74_25925) 43016..43243 + 228 WP_001254386 conjugal transfer relaxosome protein TraY -
INN74_RS25930 (INN74_25930) 43277..43642 + 366 WP_021519752 type IV conjugative transfer system pilin TraA -
INN74_RS25935 (INN74_25935) 43657..43968 + 312 WP_000012106 type IV conjugative transfer system protein TraL traL
INN74_RS25940 (INN74_25940) 43990..44556 + 567 WP_000399794 type IV conjugative transfer system protein TraE traE
INN74_RS25945 (INN74_25945) 44543..45271 + 729 WP_001230787 type-F conjugative transfer system secretin TraK traK
INN74_RS25950 (INN74_25950) 45271..46698 + 1428 WP_032297072 F-type conjugal transfer pilus assembly protein TraB traB
INN74_RS25955 (INN74_25955) 46688..47278 + 591 WP_000002778 conjugal transfer pilus-stabilizing protein TraP -
INN74_RS25960 (INN74_25960) 47265..47462 + 198 WP_001324648 conjugal transfer protein TrbD -
INN74_RS25965 (INN74_25965) 47474..47725 + 252 WP_001038341 conjugal transfer protein TrbG -
INN74_RS25970 (INN74_25970) 47722..48237 + 516 WP_000809902 type IV conjugative transfer system lipoprotein TraV traV
INN74_RS25975 (INN74_25975) 48372..48593 + 222 WP_001278692 conjugal transfer protein TraR -
INN74_RS25980 (INN74_25980) 48753..51380 + 2628 WP_015059012 type IV secretion system protein TraC virb4
INN74_RS25985 (INN74_25985) 51377..51763 + 387 WP_015059013 type-F conjugative transfer system protein TrbI -
INN74_RS25990 (INN74_25990) 51760..52392 + 633 WP_001203735 type-F conjugative transfer system protein TraW traW
INN74_RS25995 (INN74_25995) 52389..53381 + 993 WP_000830838 conjugal transfer pilus assembly protein TraU traU
INN74_RS26000 (INN74_26000) 53408..53716 + 309 WP_000412447 hypothetical protein -
INN74_RS26005 (INN74_26005) 53779..54300 + 522 WP_015059014 hypothetical protein -
INN74_RS26010 (INN74_26010) 54327..54965 + 639 WP_000087532 type-F conjugative transfer system pilin assembly protein TrbC trbC
INN74_RS26015 (INN74_26015) 54962..55333 + 372 WP_000056336 hypothetical protein -
INN74_RS26020 (INN74_26020) 55359..55781 + 423 WP_001229309 HNH endonuclease signature motif containing protein -
INN74_RS26025 (INN74_26025) 55778..57628 + 1851 WP_015059015 type-F conjugative transfer system mating-pair stabilization protein TraN traN
INN74_RS26030 (INN74_26030) 57655..57912 + 258 WP_053913405 conjugal transfer protein TrbE -
INN74_RS26035 (INN74_26035) 57905..58648 + 744 WP_015059017 type-F conjugative transfer system pilin assembly protein TraF traF
INN74_RS26040 (INN74_26040) 58764..59045 + 282 WP_000549793 type-F conjugative transfer system pilin chaperone TraQ -
INN74_RS26045 (INN74_26045) 59032..59577 + 546 WP_000059817 type-F conjugative transfer system pilin assembly thiol-disulfide isomerase TrbB traF
INN74_RS26050 (INN74_26050) 59567..59881 + 315 WP_001384255 P-type conjugative transfer protein TrbJ -
INN74_RS26055 (INN74_26055) 59835..60227 + 393 WP_000126338 F-type conjugal transfer protein TrbF -
INN74_RS26060 (INN74_26060) 60214..61587 + 1374 WP_000944325 conjugal transfer pilus assembly protein TraH traH
INN74_RS26065 (INN74_26065) 61584..64400 + 2817 WP_015059018 conjugal transfer mating-pair stabilization protein TraG traG
INN74_RS26070 (INN74_26070) 64433..64954 + 522 WP_000632668 conjugal transfer entry exclusion protein TraS -
INN74_RS26075 (INN74_26075) 64979..65710 + 732 WP_021559024 conjugal transfer complement resistance protein TraT -
INN74_RS26080 (INN74_26080) 65913..66650 + 738 WP_015059020 hypothetical protein -
INN74_RS26085 (INN74_26085) 66701..68962 + 2262 WP_086118634 type IV conjugative transfer system coupling protein TraD prgC

Host bacterium

ID   8840 GenBank   NZ_CP091574
Plasmid name   p2-4 Incompatibility group   IncFII
Plasmid size   78621 bp Coordinate of oriT [Strand]   41310..41433 [+]
Host baterium   Salmonella enterica strain

Cargo genes

Drug resistance gene   fosA3, blaTEM-1B, blaCTX-M-55
Virulence gene   -
Metal resistance gene   -
Degradation gene   -
Symbiosis gene   -
Anti-CRISPR   -