Detailed information of oriT

oriT

The information of the oriT region


oriTDB ID   105374
Name   oriT_p30177-1 in_silico
Organism   Salmonella enterica subsp. enterica serovar Kentucky strain CVM 30177
Sequence Completeness      -
NCBI accession of oriT (coordinates [strand])   NZ_CP051347 (44645..44997 [-], 353 nt)
oriT length   353 nt
IRs (inverted repeats)      256..263, 272..279  (ACCGCTAG..CTAGCGGT)
 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: 353 nt

>oriT_p30177-1
AGGTTGGTGGTTCTCACCACCAAAAGCACCACACCCCACGCAAAAACAAGTTTTTGCTGATTTTTCTTTATAAATAGAGTGTTATGAAAAATTAGTTTCTCTTACTCTCTTTATGATATTTAAAAAAGCGGTGTCGGCGCGGCTACAACAACGCGCCGACACCGTTTTGTAGGGGTGGTACTGACTATTTTTATAAAAAACATTATTTTATATTAGGGGGGGCTGCTAGCGGCGCGGTGTGTTTTTTTATAGGATACCGCTAGGGGCGCTGCTAGCGGTGCGTCCCTGTTTGCATTATGAATTTTAGTGTTTCGAAATTAACTTTATTTTATGTTCAAAAAAGGTAATCTCTA

Visualization of oriT structure

  oriT secondary structure

Predicted by RNAfold.

Download structure file


Relaxase

ID   3668 GenBank   WP_000986988
Name   traI_HFT18_RS22875_p30177-1 insolico UniProt ID   A0A5V2AWD5
Length   1756 a.a. PDB ID   
Note   Predicted by oriTfinder 2.0

  Relaxase protein sequence


Download         Length: 1756 a.a.        Molecular weight: 191867.46 Da        Isoelectric Point: 5.6862

>WP_000986988.1 MULTISPECIES: conjugative transfer relaxase/helicase TraI [Enterobacteriaceae]
MMSIAQVRSAGSAGNYYTDKDNYYVLGSMGERWAGRGAEQLGLQGSVDKDVFTRLLEGRLPDGADLSRMQ
DGSNRHRPGYDLTFSAPKSVSMMAMLGGDKRLIDAHNQAVDFAVRQVEALASTRIMTDGQSETVLTGNLV
MALFNHDTSRDQEPQLHTHAVVANVTQHNGEWKTLSSDKVGKTGFIENVYANQIAFGRLYREKLKEQVEA
LGYETEVVGKHGMWEMPGVPVEAFSGRSQAIREAVGEDASLKSRDVAALDTRKSKQHVDPEVRMAEWMQT
LKETGFDIRAYRDAADQRAETRTQAPGPASQDGPDVQQAVTQAIAGLSERKVQFTYTDVLARTVGILPPE
NGVIERARAGIDEAISREQLIPLDREKGLFTSGIHVLDELSVRALSRDIMKQNRVTVHPEKSVPRTAGYS
DAVSVLAQDRPSLAIVSGQGGAAGQRERVAELVMMAREQGREVQIIAADRRSQMNLKQDERLSGELITGR
RQLLEGMAFTPGSTVIVDQGEKLSLKETLTLLDGAARHNVQVLITDSGQRTGTGSALMAMKDAGVNTYRW
QGGEQRPATIISEPDRNVRYARLAGDFVASVKAGEESVAQVSGVREQAILTQAIRSELKTQGVLGHPEVT
MTALSPVWLDSRSRYLRDMYRPGMVMEQWNPETRSHDRYVIDRVTAQSHSLTLRDAQGETQVVRISSLDS
SWSLFRPEKMPVADGERLRVTGKIPGLRVSGGDRLQVASVSEDVMTVVVPGRAEPATLPVADSPFTALKL
ENGWVETPGHSVSDSATVFASVTQMAMDNATLNGLARSGRDVRLYSSLDETRTAEKLARHPSFTVVSEQI
KARAGETLLESAISHQKSALHTPAQQAIHLALPVLESKNLAFSMVDLLTEAKSFAAEGTGFTELGGEINA
QIKRGDLLYVDVAKGYGTGLLVSRASYEAEKSILRHILEGKEAVTPLMERVPGELMETLTSGQRAATRMI
LETSDRFTVVQGYAGVGKTTQFRAVMSAVNMLPASERPRVVGLGPTHRAVGEMRSAGVDAQTLASFLHDT
QLQQRSGETPDFSNTLFLLDESSMVGNTDMARAYALIAAGGGRAVASGDTDQLQAIAPGQPFRLQQTRSA
ADVAIMKEIVRQTPELREAVYSLINRDVERALSGLESVKPSQVPRQEGAWAPEHSVTEFSHSQEAKLAEA
QQKAMLKGETFPDVPMTLYEAIVRDYTGRTPEAREQTLIVTHLNEDRRVLNSMIHDAREKAGELGKEQVM
VPVLNTANIRDGELRRLSTWENNPDALALVDNVYHRIAGISRDDGLITLEDAEGNTRLISPREAVAEGVT
LYTPDKIRVGTGDRMRFTKSDRERGYVANSVWTVTAVSGDSVTLSDGQQTRVIRPGQEQAEQHIDLAYAI
TAHGAQGASETFAIALEGTEGNRKLMAGFESAYVALSRMKQHVQVYTDNRQGWTDAINNAVQKGTAHDVF
EPKPDREVMNAERLFSTARELRDVAAGRAVLRQAGLAGGDSPARFIAPGRKYPQPYVALPAFDRNGKSAG
IWLNPLTTDDGNGLRGFSGEGRVKGSGDAQFVALQGSRNGESLLADNMQDGVRIARDNPDSGVVVRIAGE
GRPWNPGAITGGRVWGDIPDNSVQPGAGNGEPVTAEVLAQRQAEEAIRRETERRADEIVRKMAENKPDLP
DGKTELAVRDIAGQERDRADITEREAALPESVLRESQREQEAVREVARENLLQERLQQMERDMVRDLQKE
KTLGGD

  Protein domains


Predicted by InterproScan.

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

(575-626)

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

(633-712)

DNA helicase TraI (TraI_C)

(1434-1557)

TrwC relaxase (TrwC)

(10-283)

AAA domain (AAA_30)

(968-1156)


  Protein structure



No available structure.




Auxiliary protein

ID   1656 GenBank   WP_001369361
Name   WP_001369361_p30177-1 insolico UniProt ID   B7LI64
Length   133 a.a. PDB ID   _
Note   Predicted by oriTfinder 2.0

  Auxiliary protein sequence


Download         Length: 133 a.a.        Molecular weight: 15409.70 Da        Isoelectric Point: 9.9240

>WP_001369361.1 MULTISPECIES: conjugal transfer relaxosome DNA-bindin protein TraY [Gammaproteobacteria]
MLLKRFGTRSATGKMVKLKLPVDVESLLIEASNRSGRSRSFEAVIRLKDHLHRYPKFNRAGNIYGKSLVK
YLTMRLDDETNQLLIAAKNRSGWCKTDEAADRVIDHLIKFPDFYNSEIFREADKEEDITFNTL

  Protein domains


Predicted by InterproScan.

TraY domain (TraY)

(18-61)

TraY domain (TraY)

(72-119)


  Protein structure


Source ID Structure
AlphaFold DB B7LI64

ID   1657 GenBank   WP_001151524
Name   WP_001151524_p30177-1 insolico UniProt ID   A0A5W2DT22
Length   127 a.a. PDB ID   _
Note   Predicted by oriTfinder 2.0

  Auxiliary protein sequence


Download         Length: 127 a.a.        Molecular weight: 14517.48 Da        Isoelectric Point: 5.0516

>WP_001151524.1 MULTISPECIES: conjugal transfer relaxosome DNA-binding protein TraM [Gammaproteobacteria]
MAKVNLYISNDAYEKINAIIEKRRQEGAREKDVSFSATASMLLELGLRVHEAQMERKESAFNQTEFNKLL
LECVVKTQSSVAKILGIESLSPHVSGNPKFEYANMVEDIREKVSSEMERFFPKNDDE

  Protein domains


Predicted by InterproScan.

TraM protein, DNA-binding (Tra_M)

(1-126)


  Protein structure


Source ID Structure
AlphaFold DB A0A5W2DT22


T4CP

ID   3643 GenBank   WP_000009364
Name   traD_HFT18_RS22880_p30177-1 insolico UniProt ID   _
Length   735 a.a. PDB ID   _
Note   Predicted by oriTfinder 2.0

  T4CP protein sequence


Download         Length: 735 a.a.        Molecular weight: 83567.22 Da        Isoelectric Point: 5.0524

>WP_000009364.1 MULTISPECIES: type IV conjugative transfer system coupling protein TraD [Enterobacteriaceae]
MSFNAKDMTQGGQIASMRIRMFSQIANIMLYCLFIFFWILVGLVLWVKISWQTFVNGCIYWWCTTLEGMR
DLIKSQPVYEIQYYGKTFRMNAAQVLHDKYMIWCGEQLWSAFVLATVVALVICLITFFVVSWILGRQGKQ
QSENEVTGGRQLTENPKDVARMLKKDGKDSDIRIGDLPIIRDSEIQNFCLHGTVGAGKSEVIRRLANYAR
QRGDMVVIYDRSGEFVKSYYDPSIDKILNPLDARCAAWDLWKECLTQPDFDNTANTLIPMGTKEDPFWQG
SGRTIFAEAAYLMRNDPNRSYSKLVDTLLSIKIEKLRTFLRNSPAANLVEEKIEKTAISIRAVLTNYVKA
IRYLQGIEHNGESFTIRDWMRGVREDQKNGWLFISSNADTHASLKPVISMWLSIAIRGLLAMGENRNRRV
WFFCDELPTLHKLPDLVEILPEARKFGGCYVFGIQSYAQLEDIYGEKAAATLFDVMNTRAFFRSPSHKIA
EFAAGEIGEKEHLKASEQYSYGADPVRDGVSTGKDMERQTLVSYSDIQSLPDLTCYVTLPGPYPAVKLSL
KYQARPKVAPEFIPRDINPEMENRLSAVLAAREAEGRQMASLFEPDVPEVVSGEDVTQAEQPQQPQQPQQ
PQQPQQPQQPQQPVSPAINDKKSDSGVNVPAGGIEQELKMKPEEEMEQQLPPGISESGEVVDMAAYEAWQ
QENHPDIQQQMQRREEVNINVHRERGEDVEPGDDF

  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.



ID   3644 GenBank   WP_001064251
Name   traC_HFT18_RS22960_p30177-1 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: 99173.85 Da        Isoelectric Point: 5.9407

>WP_001064251.1 MULTISPECIES: type IV secretion system protein TraC [Enterobacteriaceae]
MNNPLEAVTQAVNSLVTALKLPDESAKANEVLGEMSFPQFSRLLPYRDYNQESGLFMNDTTMGFMLEAIP
INGANESIVEALDHMLRTKLPRGIPLCIHLMSSQLVGDRIEYGLREFSWSGEQAERFNAITRAYYMKAAA
TQFPLPEGMNLPLTLRHYRVFISYCSPSKKKSRADILEMENLVKIIRASLQGASITTQTVDAQAFIDIVG
EMINHNPDSLYPKRRQLDPYSDLNYQCVEDSFDLKVRADYLTLGLRESGRNSTARILNFHLARNPEIAFL
WNMADNYSNLLNPELSISCPFILTLTLVVEDQVKTHSEANLKYMDLEKKSKTSYAKWFPSVEKEAKEWGE
LRQRLGSGQSSVVSYFLNITAFCKDNNETALEVEQDILNSFRKNGFELISPRFNHMRNFLTCLPFMAGKG
LFKQLKEAGVVQRAESFNVANLMPLVADNPLTPAGLLAPTYRNQLAFIDIFFRGMNNTNYNMAVCGTSGA
GKTGLIQPLIRSVLDSGGFAVVFDMGDGYKSLCENMGGVYLDGETLRFNPFANITDIDQSAERVRDQLSV
MASPNGNLDEVHEGLLLQAVRASWLAKENRARIDDVVDFLKNASDSEQYAESPTIRSRLDEMIVLLDQYT
ANGTYGQYFNSDEPSLRDDAKMVVLELGGLEDRPSLLVAVMFSLIIYIENRMYRTPRNLKKLNVIDEGWR
LLDFKNHKVGEFIEKGYRTARRHTGAYITITQNIVDFDSDKASSAARAAWGNSSYKIILKQSAKEFAKYN
QLYPDQFLPLQRDMIGKFGAAKDQWFSSFLLHVENHSSWHRLFVDPLSRAMYSSDGPDFEFVQQKRKEGL
SIHEAVWQLAWKKSGPEMASLEAWLEEHEKYRSVA

  Protein domains


Predicted by InterproScan.

Family of unknown function (DUF5934) (DUF5934)

(289-446)

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: 19760..45568

Locus tag Coordinates Strand Size (bp) Protein ID Product Description
HFT18_RS22880 (HFT18_22870) 19760..21967 - 2208 WP_000009364 type IV conjugative transfer system coupling protein TraD virb4
HFT18_RS22885 (HFT18_22875) 22219..22950 - 732 WP_001447147 conjugal transfer complement resistance protein TraT -
HFT18_RS22890 (HFT18_22880) 22982..23485 - 504 WP_000605510 hypothetical protein -
HFT18_RS22895 (HFT18_22885) 23500..26322 - 2823 WP_001007012 conjugal transfer mating-pair stabilization protein TraG traG
HFT18_RS22900 (HFT18_22890) 26319..27695 - 1377 WP_000982833 conjugal transfer pilus assembly protein TraH traH
HFT18_RS22905 (HFT18_22895) 27692..28054 - 363 WP_071779407 P-type conjugative transfer protein TrbJ -
HFT18_RS22910 (HFT18_22900) 27984..28529 - 546 WP_000052618 type-F conjugative transfer system pilin assembly thiol-disulfide isomerase TrbB traF
HFT18_RS22915 (HFT18_22905) 28516..28800 - 285 WP_000624110 type-F conjugative transfer system pilin chaperone TraQ -
HFT18_RS22920 (HFT18_22910) 28919..29266 - 348 WP_001287676 conjugal transfer protein TrbA -
HFT18_RS22925 (HFT18_22915) 29282..30025 - 744 WP_001030389 type-F conjugative transfer system pilin assembly protein TraF traF
HFT18_RS22930 (HFT18_22920) 30018..30275 - 258 WP_000864325 conjugal transfer protein TrbE -
HFT18_RS22935 (HFT18_22925) 30302..32110 - 1809 WP_000821846 type-F conjugative transfer system mating-pair stabilization protein TraN traN
HFT18_RS22940 (HFT18_22930) 32107..32745 - 639 WP_022630459 type-F conjugative transfer system pilin assembly protein TrbC trbC
HFT18_RS22945 (HFT18_22935) 32754..33746 - 993 WP_000830839 conjugal transfer pilus assembly protein TraU traU
HFT18_RS22950 (HFT18_22940) 33743..34375 - 633 WP_001203720 type-F conjugative transfer system protein TraW traW
HFT18_RS22955 (HFT18_22945) 34372..34758 - 387 WP_000214082 type-F conjugative transfer system protein TrbI -
HFT18_RS22960 (HFT18_22950) 34755..37382 - 2628 WP_001064251 type IV secretion system protein TraC virb4
HFT18_RS22965 (HFT18_22955) 37542..37763 - 222 WP_001278689 conjugal transfer protein TraR -
HFT18_RS22970 (HFT18_22960) 37898..38413 - 516 WP_000809841 type IV conjugative transfer system lipoprotein TraV traV
HFT18_RS22975 (HFT18_22965) 38410..38661 - 252 WP_001038342 conjugal transfer protein TrbG -
HFT18_RS22980 (HFT18_22970) 38673..38870 - 198 WP_001324648 conjugal transfer protein TrbD -
HFT18_RS22985 (HFT18_22975) 38857..39447 - 591 WP_000002796 conjugal transfer pilus-stabilizing protein TraP -
HFT18_RS22990 (HFT18_22980) 39437..40864 - 1428 WP_000146685 F-type conjugal transfer pilus assembly protein TraB traB
HFT18_RS22995 (HFT18_22985) 40864..41592 - 729 WP_001230787 type-F conjugative transfer system secretin TraK traK
HFT18_RS23000 (HFT18_22990) 41579..42145 - 567 WP_000399785 type IV conjugative transfer system protein TraE traE
HFT18_RS23005 (HFT18_22995) 42167..42478 - 312 WP_000012106 type IV conjugative transfer system protein TraL traL
HFT18_RS23010 (HFT18_23000) 42493..42858 - 366 WP_000994779 type IV conjugative transfer system pilin TraA -
HFT18_RS23015 (HFT18_23005) 42891..43286 - 396 WP_001309237 conjugal transfer relaxosome DNA-bindin protein TraY -
HFT18_RS23020 (HFT18_23010) 43385..44074 - 690 WP_000283385 conjugal transfer transcriptional regulator TraJ -
HFT18_RS23025 (HFT18_23015) 44261..44644 - 384 WP_001151524 conjugal transfer relaxosome DNA-binding protein TraM -
HFT18_RS23030 (HFT18_23020) 45059..45568 + 510 WP_000759163 transglycosylase SLT domain-containing protein virB1
HFT18_RS23035 (HFT18_23025) 45864..46685 - 822 WP_001234468 DUF932 domain-containing protein -
HFT18_RS23040 (HFT18_23030) 46804..47091 - 288 WP_000107520 hypothetical protein -
HFT18_RS23045 (HFT18_23040) 47392..47689 + 298 Protein_52 hypothetical protein -
HFT18_RS23050 (HFT18_23045) 47990..48112 - 123 WP_223195199 Hok/Gef family protein -
HFT18_RS24080 48057..48209 - 153 Protein_54 DUF5431 family protein -
HFT18_RS23055 (HFT18_23050) 48360..49146 - 787 Protein_55 plasmid SOS inhibition protein A -
HFT18_RS23060 (HFT18_23055) 49143..49577 - 435 WP_000845922 conjugation system SOS inhibitor PsiB -

Host bacterium

ID   5812 GenBank   NZ_CP051347
Plasmid name   p30177-1 Incompatibility group   IncFIB
Plasmid size   146811 bp Coordinate of oriT [Strand]   44645..44997 [-]
Host baterium   Salmonella enterica subsp. enterica serovar Kentucky strain CVM 30177

Cargo genes

Drug resistance gene   tet(B), sitABCD, aph(6)-Id, aph(3'')-Ib
Virulence gene   iutA, iucC, iucB, iucA, iroB, iroC, iroD, iroE, iroN
Metal resistance gene   -
Degradation gene   -
Symbiosis gene   -
Anti-CRISPR   -