Detailed information of oriT

oriT

The information of the oriT region


oriTDB ID   103923
Name   oriT_p12367A in_silico
Organism   Salmonella enterica subsp. enterica serovar Enteritidis strain SJTUF12367v2
Sequence Completeness      -
NCBI accession of oriT (coordinates [strand])   NZ_CP041177 (40867..40990 [+], 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_p12367A
GGTTGGTGGTTCTCACCACCAAAAGCACCACACCCCACGCAAAAACAAGTTTTTGCTGATTTGCTTTTTGAATCATTAGCTTATGTTTTAAATAATGTATTTTAATTTATTTTACATTATTAAA

Visualization of oriT structure

  oriT secondary structure

Predicted by RNAfold.

Download structure file


Relaxase

ID   2915 GenBank   WP_072648275
Name   traI_FKO11_RS23440_p12367A insolico UniProt ID   A0A647AQ34
Length   1756 a.a. PDB ID   
Note   Predicted by oriTfinder 2.0

  Relaxase protein sequence


Download         Length: 1756 a.a.        Molecular weight: 192066.85 Da        Isoelectric Point: 6.0285

>WP_072648275.1 MULTISPECIES: conjugative transfer relaxase/helicase TraI [Enterobacteriaceae]
MMSIAQVRSAGSAGNYYTDKDNYYVLGSMGERWAGRGAEQLGLQGSVDKDVFTRLLEGRLPDGADLSRMQ
DGSNRHRPGYDLTFSAPKSVSMMAMLGGDKRLIDAHNQAVDFAVRQVEALASTRVMTDGQSETVLTGNLV
MALFNHDTSRDQEPQLHTHAVVANVTQHNGEWKTLSSDKVGKTGFIENVYANQIAFGRLYREKLKEQVEA
LGYETEVVGKHGMWEMPGVPVEAFSGRSQAIREAVGEDASLKSRDVAALDTRKSKQHVDPEVRMAEWMQT
LKETGFDIRAYRDAADQRAETRTQAPGAVSQEGPDVQQAVTQAIAGLSERKVQFTYTDVLARTVGILPPE
NGVIERARAGIDEAISREQLIPLDREKGLFTSGIHVLDELSVRALSRDIMKQNRVTVHPEKSVPRTAGYS
DAVSVLAQDRPSLAIVSGQGGAAGQRERVAELVMMAREQGREVQIIAADRRSQMNLKQDERLSGELITGR
RQLPEGMAFTPGSTVIVDQGEKLSLKETLTLLDGAARHNVQVLITDSGQRTGTGSALMAMKDAGVNIYRW
QGGEQRPATIISEPDRNVRYARLAGDFAASVKAGEESVAQVSGVREQAILTQAIRSELKTQGVLGHPEVT
MTALSPVWLDSRSRYLRDMYRPGMVMEQWNPETRSHDRYVIDRVTAQSHSLTLRDVQGETQVVRISSLDS
SWSLFRPEKMPVADGERLRVTGKIPGLRVSGGDRLQVASVSEDVMTVVVPGRAEPASLPVSDSPFTALKL
ENGWVETPGHSVSDSAKVFASVTQMAMDKATLNGLACSGRDVRLYSSLDETRTAEKLARHPSFTVVSEQI
KARAGETSLETAISHQKSALNTPAQQAIHLALPVVESKNLAFSHVDLLTEAKSFAAEGTSFADLGREIDA
QIKRGDLLHVDVAKGYGTDLLVSRASYEAEKSILRHILEGKEAVTPLMERVPGELMEKLTSGQRAATRMI
LETPDRFTVVQGYAGVGKTTQFRAVMSAVNMLPESERPRVVGLGPTHRAVGEMRSAGVDAQTLASFLHDT
QLQQRSGETPDFSNTLFLLDESSMVGNTDMARAYALIAAGGGRAVASGDTDQLQAIAPGQPFRLQQTRSA
ADVAIMKEIVRQTPELREAVYSLINRDVERALSGLESVKPSQVPRQEGAWAPEHSVTEFSHSQEAKLAEA
QQKAMLKGEAFPDVPMTLYEAIVRDYTGRTPEAREQTLIVTHLNEDRRVLNSMIHDAREKAGELGKEQVM
VPVLNTANIRDGELRRLSTWETHRDALALVDNVYHRIAGISRDDGLITLQDAEGNTRLISPREAVAEGVT
LYTPDKIRVGTGDRMRFTKSDRERGYVANSVWTVTAVSGDSVTLSDGQQTRVIRPAQEQAEQHIDLAYAI
TAHGAQGASETFAIALEGTEGNRKLMAGFESAYVALSRMKQHVQVYTDNRQGWTDAINNAVQKGTAHDVL
EPKPDREVMNAERLFSTARELRDVAAGRAVLRQAGLAGGDSPARFIAPGRKYPQPYVALPAFDRNGKSAG
IWLNPLTSDDGNGLRGFSGEGRVKGSGDAQFVALQGSRNGESLLADNMQDGVRIARDNPDSGVVVRIAGE
GRPWNPGAITGGRVWGDIPDNSVQPGAGNGEPVTAEVLAQRQAEEAIRRETERRADEIVRKMAENKPDLP
DGKTEQAVREIAGQVRERAAITERETALPESVLREPQREREAVREVARENLLQERLQQMERDMVRDLQKE
KTLGGD

  Protein domains


Predicted by InterproScan.

AAA domain (AAA_30)

(969-1156)

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)


  Protein structure



No available structure.




Auxiliary protein

ID   1201 GenBank   WP_000124981
Name   WP_000124981_p12367A 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   1202 GenBank   WP_001254386
Name   WP_001254386_p12367A 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   2762 GenBank   WP_015059012
Name   traC_FKO11_RS23330_p12367A 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   2763 GenBank   WP_072646483
Name   traD_FKO11_RS23435_p12367A insolico UniProt ID   _
Length   747 a.a. PDB ID   _
Note   Predicted by oriTfinder 2.0

  T4CP protein sequence


Download         Length: 747 a.a.        Molecular weight: 84966.71 Da        Isoelectric Point: 5.0504

>WP_072646483.1 MULTISPECIES: type IV conjugative transfer system coupling protein TraD [Enterobacteriaceae]
MSFNAKDMTQGGQIASMRIRMFSQIANIMLYCLFIFFWILVGLVLWVKISWQTFVNGCIYWWCTTLEGMR
DLIKSQPVYEIQYYGKTFRMNAAQVLHDKYMIWCGEQLWSAFVLATVVALVICLITFFVVSWILGRQGKQ
QSENEVTGGRQLTDNPKDVARMLKKDGKDSDIRIGDLPIIRDSEIQNFCLHGTVGAGKSEVIRRLANYAR
QRGDMVVIYDRSGEFVKSYYDPSIDKILNPLDARCAAWDLWKECLTQPDFDNTANTLIPMGTKEDPFWQG
SGRTIFAEAAYLMRNDPNRSYSKLVDTLLSIKIEKLRTFLRNSPAANLVEEKIEKTAISIRAVLTNYVKA
IRYLQGIEHNGESFTIRDWMRGVREDQKNGWLFISSNADTHASLKPVISMWLSIAIRGLLAMGENRNRRV
WFFCDELPTLHKLPDLVEILPEARKFGGCYVFGIQSYAQLEDIYGEKAAATLFDVMNTRAFFRSPSHKIA
EFAAGEIGEKEHLKASEQYSYGADPVRDGVSTGKDMERQTLVSYSDIQSLPDLTCYVTLPGPYPAVKLSL
KYQARPKVAPEFIPRDINPEMENRLSAVLAAREAEGRQMASLFEPDVPEVVSGEDVTQAEQPQQPQQPQQ
PQQPQQPQQPQQPQQPQQPQQPQQPVSPAINDKKSDSGVNVPAGGIEQELKMKPEEEMEQQLPPGISESG
EVVDMAAYEAWQQENHPDIQQQMQRREEVNINVHRERGEDVEPGDDF

  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: 40295..68501

Locus tag Coordinates Strand Size (bp) Protein ID Product Description
FKO11_RS23220 (FKO11_23225) 36267..36701 + 435 WP_000845953 conjugation system SOS inhibitor PsiB -
FKO11_RS23225 (FKO11_23230) 36698..37417 + 720 WP_001276217 plasmid SOS inhibition protein A -
FKO11_RS24590 37639..37788 + 150 Protein_53 plasmid maintenance protein Mok -
FKO11_RS23230 (FKO11_23235) 37730..37855 + 126 WP_001372321 type I toxin-antitoxin system Hok family toxin -
FKO11_RS24290 38174..38470 - 297 Protein_55 hypothetical protein -
FKO11_RS23250 (FKO11_23255) 38770..39066 + 297 WP_001272251 hypothetical protein -
FKO11_RS23255 (FKO11_23260) 39177..39998 + 822 WP_001234445 DUF932 domain-containing protein -
FKO11_RS23260 (FKO11_23265) 40295..40942 - 648 WP_015059008 transglycosylase SLT domain-containing protein virB1
FKO11_RS23265 (FKO11_23270) 41219..41602 + 384 WP_000124981 conjugal transfer relaxosome DNA-binding protein TraM -
FKO11_RS23270 (FKO11_23275) 41793..42479 + 687 WP_015059009 PAS domain-containing protein -
FKO11_RS23275 (FKO11_23280) 42573..42800 + 228 WP_001254386 conjugal transfer relaxosome protein TraY -
FKO11_RS23280 (FKO11_23285) 42834..43199 + 366 WP_021519752 type IV conjugative transfer system pilin TraA -
FKO11_RS23285 (FKO11_23290) 43214..43525 + 312 WP_000012106 type IV conjugative transfer system protein TraL traL
FKO11_RS23290 (FKO11_23295) 43547..44113 + 567 WP_000399794 type IV conjugative transfer system protein TraE traE
FKO11_RS23295 (FKO11_23300) 44100..44828 + 729 WP_001230787 type-F conjugative transfer system secretin TraK traK
FKO11_RS23300 (FKO11_23305) 44828..46255 + 1428 WP_032297072 F-type conjugal transfer pilus assembly protein TraB traB
FKO11_RS23305 (FKO11_23310) 46245..46835 + 591 WP_000002778 conjugal transfer pilus-stabilizing protein TraP -
FKO11_RS23310 (FKO11_23315) 46822..47019 + 198 WP_001324648 conjugal transfer protein TrbD -
FKO11_RS23315 (FKO11_23320) 47031..47282 + 252 WP_001038341 conjugal transfer protein TrbG -
FKO11_RS23320 (FKO11_23325) 47279..47794 + 516 WP_000809902 type IV conjugative transfer system lipoprotein TraV traV
FKO11_RS23325 (FKO11_23330) 47929..48150 + 222 WP_001278692 conjugal transfer protein TraR -
FKO11_RS23330 (FKO11_23335) 48310..50937 + 2628 WP_015059012 type IV secretion system protein TraC virb4
FKO11_RS23335 (FKO11_23340) 50934..51320 + 387 WP_015059013 type-F conjugative transfer system protein TrbI -
FKO11_RS23340 (FKO11_23345) 51317..51949 + 633 WP_001203735 type-F conjugative transfer system protein TraW traW
FKO11_RS23345 (FKO11_23350) 51946..52938 + 993 WP_000830838 conjugal transfer pilus assembly protein TraU traU
FKO11_RS23350 (FKO11_23355) 52965..53273 + 309 WP_000412447 hypothetical protein -
FKO11_RS23355 (FKO11_23360) 53336..53857 + 522 WP_015059014 hypothetical protein -
FKO11_RS23360 (FKO11_23365) 53884..54522 + 639 WP_000087532 type-F conjugative transfer system pilin assembly protein TrbC trbC
FKO11_RS23365 (FKO11_23370) 54519..54890 + 372 WP_000056336 hypothetical protein -
FKO11_RS23370 (FKO11_23375) 54916..55338 + 423 WP_001229309 HNH endonuclease signature motif containing protein -
FKO11_RS23375 (FKO11_23380) 55335..57185 + 1851 WP_015059015 type-F conjugative transfer system mating-pair stabilization protein TraN traN
FKO11_RS23380 (FKO11_23385) 57212..57469 + 258 WP_053913405 conjugal transfer protein TrbE -
FKO11_RS23385 (FKO11_23390) 57462..58205 + 744 WP_015059017 type-F conjugative transfer system pilin assembly protein TraF traF
FKO11_RS23390 (FKO11_23395) 58321..58602 + 282 WP_000549793 type-F conjugative transfer system pilin chaperone TraQ -
FKO11_RS23395 (FKO11_23400) 58589..59134 + 546 WP_000059817 type-F conjugative transfer system pilin assembly thiol-disulfide isomerase TrbB traF
FKO11_RS23400 (FKO11_23405) 59124..59438 + 315 WP_001384255 P-type conjugative transfer protein TrbJ -
FKO11_RS23405 (FKO11_23410) 59392..59784 + 393 WP_000126338 F-type conjugal transfer protein TrbF -
FKO11_RS23410 (FKO11_23415) 59771..61144 + 1374 WP_000944325 conjugal transfer pilus assembly protein TraH traH
FKO11_RS23415 (FKO11_23420) 61141..63957 + 2817 WP_015059018 conjugal transfer mating-pair stabilization protein TraG traG
FKO11_RS23420 (FKO11_23425) 63990..64511 + 522 WP_000632668 conjugal transfer entry exclusion protein TraS -
FKO11_RS23425 (FKO11_23430) 64536..65267 + 732 WP_021559024 conjugal transfer complement resistance protein TraT -
FKO11_RS23430 (FKO11_23435) 65470..66207 + 738 WP_015059020 hypothetical protein -
FKO11_RS23435 (FKO11_23440) 66258..68501 + 2244 WP_072646483 type IV conjugative transfer system coupling protein TraD virb4

Host bacterium

ID   4363 GenBank   NZ_CP041177
Plasmid name   p12367A Incompatibility group   IncX1
Plasmid size   111764 bp Coordinate of oriT [Strand]   40867..40990 [+]
Host baterium   Salmonella enterica subsp. enterica serovar Enteritidis strain SJTUF12367v2

Cargo genes

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