Detailed information of oriT

oriT

The information of the oriT region


oriTDB ID   101858
Name   oriT_FWSEC0399|unnamed7 in_silico
Organism   Escherichia coli strain FWSEC0399
Sequence Completeness      -
NCBI accession of oriT (coordinates [strand])   NZ_RRNW01000089 (6750..6873 [+], 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)
 57..62, 70..75  (TGATTT..AAATCA)
 41..48, 61..68  (AAAAACAA..TTGTTTTT)
 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_FWSEC0399|unnamed7
GGTTGGTGGTTCTCACCACCAAAAGCACCACACCCCACGCAAAAACAAGTTTTTGCTGATTTGTTTTTTAAATCATTAGTTTATGTTCTAAATAATGTATTTTAATTTATTTTACATTATTAAA

Visualization of oriT structure

  oriT secondary structure

Predicted by RNAfold.

Download structure file


Relaxase

ID   1535 GenBank   WP_025670715
Name   traI_C9174_RS26550_FWSEC0399|unnamed7 insolico UniProt ID   _
Length   1755 a.a. PDB ID   
Note   Predicted by oriTfinder 2.0

  Relaxase protein sequence


Download         Length: 1755 a.a.        Molecular weight: 191901.82 Da        Isoelectric Point: 6.1910

>WP_025670715.1 conjugative transfer relaxase/helicase TraI [Escherichia coli]
MMSIAQVRSAGSAGNYYTDKDNYYVLGSMGERWAGRGAEQLGLQGSVDKDVFTRLLEGKLPDGADLSRMQ
DGSNKHRPGYDLTFSAPKSVSVMAMLGGDKRLIDAHNQAVDFAVRQVEALASTRVMTDGQSETVLTGNLV
MALFNHDTSRDQEPQLHTHAVVANVTQHNGEWKTLSSDKVGKTGFIENVYANQIAFGRLYREKLKEQVEA
LGYETVVGKHGMWEMPGVPVEAFSGRSQAIREAVGEDASLKSRDVAALDTRKSKQHVDPEVRMAEWMQTL
KETGFDIRAYRDAADQRAETRTQTPGPASQDGPDVQQTVTQAIAGLSERKVQFTYTDVLARTVGILPPEN
GVIERARAGIDEAISREQLIPLDREKGLFTSGIHVLDELSVRALSRDIMKQNRVTVHPEKSVPRTAGYSD
AVSVLAQDRPSLAIVSGQGGAAGQRERVAELVMMAREQGREVQIIAADRRSQMNLKQDERLSGELITGRR
QLQEGMAFTPGNTVIVDQGEKLSLKETLTLLDGAARHNVQVLITDSGQRTGTGSALMAMKDAGVNTYRWQ
GGEQRPATIISEPDRNVRYARLAGDFAASVKAGEESVAQVSGVREQAILTQAIRSELKTQGVLGRPEVTM
TALSPVWLDSRSRYLRDMYRPGMVMEQWNPETRSHDRYVIDRVTAQSNSLTLRDAQGETQVVRISSLDSS
WSLFRPEKMPVADGERLRVTGKIPGLRVSGGDRLQVASVSEDAMTVVVPGRAEPASLPVSDSPFMALKLE
NGWVETPGHSVSDSAKVFASVTQMAMDNATLNGLARSGRDVRLYSSLDETRTAEKLARHPSFTVVSEQIK
ARAGETLLETAISLQKTGLHTPAQQAIHLALPVVESKNLAFSMVDLLTEAKSFAAEGTSFTELGGEINAQ
IKRGDLLYVDVAKGYGTGLLVSRASYEAEKSILRHILEGKEAVTPLMERVPGELMEKLTSGQRAATRMIL
ETSDRFTVVQGYAGVGKTTQFRAVMSAVNMLPESERPRVVGLGPTHRAVGEMRSAGVDAQTLASFLHDTQ
LLQRSGETPNFSNTLFLLDESSMVGNTDMARAYALIAAGGGRAVASGDTDQLQAIAPGQPFRLQQTRSAA
DVAIMKEIVRQTPELREAVYSLINRDVERALSGLESVKPSQVPRQEGAWVPEHSVTEFSHSQEAKLAEAQ
QKAMLKGEAFPDIPMTLYEAIVRDYTGRTPEAREQTLIVTHLNEDRRVLNSMIHDAREKAGELGKEQVMV
PVLNTANIRDGELRRLSTWETHRDALALVDNVYHRIAGISKDDGLITLQDAEGNTRLISPREAVAEGVTL
YTPDTIRVGTGDRMRFTKSDRERGYVANSVWTVTAVSGDSVTLSDGQQTRVIRPGQERAEQHIGLAYAIT
AHGAQGASETFAIALEGTEGNRKQMAGFESAYVALSRMKQHVQVYTDNRQGWTDAINNAVQKGTAHDVLE
PKSDREVMNAERLFSTARELRDVVAGRAVLRQAGLAGGDSPARFIAPGRKYPQPYVALPAFDRNGKSAGI
WLNPLTTDDGNGLRGFSGEGRVKGSGDAQFVALQGSRNGESLLADNMQDGVRIARDNPDSGVVVRIAGEG
RPWNPRTITGGRVWGDIPDNSVQPGAGNGEPVTAEVLAQRQAEEAIRRETERRADEIVRKMAENKPDLPD
GKTEQAVRDIAGLERDRSAISEREAALPESVLREPQRVREAVREVARENLLQERLQQMERDMVRDLQKEK
TLGGD

  Protein domains


Predicted by InterproScan.

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

(574-625)

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

(632-711)

TrwC relaxase (TrwC)

(10-282)

DNA helicase TraI (TraI_C)

(1433-1556)

AAA domain (AAA_30)

(968-1155)


  Protein structure



No available structure.




Auxiliary protein

ID   614 GenBank   WP_000124981
Name   WP_000124981_FWSEC0399|unnamed7 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   615 GenBank   WP_001442099
Name   WP_001442099_FWSEC0399|unnamed7 insolico UniProt ID   A0A9X7EN69
Length   75 a.a. PDB ID   _
Note   Predicted by oriTfinder 2.0

  Auxiliary protein sequence


Download         Length: 75 a.a.        Molecular weight: 8991.08 Da        Isoelectric Point: 10.1422

>WP_001442099.1 MULTISPECIES: conjugal transfer relaxosome protein TraY [Enterobacteriaceae]
MRRRNARGGVSRTVSVYLDEDTNNRLIKAKDRSGRSKTIEVQIRLRDHLKRFPDFYNEEIFREVTEESES
TFKEL

  Protein domains


Predicted by InterproScan.

TraY domain (TraY)

(14-61)


  Protein structure



No available structure.




T4CP

ID   1206 GenBank   WP_001064245
Name   traC_C9174_RS26435_FWSEC0399|unnamed7 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: 99159.81 Da        Isoelectric Point: 5.8486

>WP_001064245.1 MULTISPECIES: type IV secretion system protein TraC [Enterobacteriaceae]
MNNPLEAVTQAVNSLVTALKLPDESAKANEVLGEMSFPQFSRLLPYRDYNQESGLFMNDTTMGFMLEAIP
INGANESIVEALDHMLRTKLPRGIPLCIHLMSSQLVGDRIEYGLREFSWSGEQAERFNAITRAYYMKAAA
TQFPLPEGMNLPLTLRHYRVFISYCSPSKKKSRADILEMENLVKIIRASLQGASITTQTVDAQAFIDIVG
EMINHNPDSLYPKRRQLDPYSDLNYQCVEDSFDLKVRADYLTLGLRENGRNSTARILNFHLARNPEIAFL
WNVADNYSNLLNPELSISCPFILTLTLVVEDQVKTHSEANLKYMDLEKKSKTSYAKWFPSVEKEAKEWGE
LRQRLGSGQSSVVSYFLNITAFCKDNNETALEVEQDILNSFRKNGFELISPRFNHMRNFLTCLPFMAGKG
LFKQLKEAGVVQRAESFNVANLMPLVADNPLTPAGLLAPTYRNQLAFIDIFFRGMNNTNYNMAVCGTSGA
GKTGLIQPLIRSVLDSGGFAVVFDMGDGYKSLCENMGGVYLDGETLRFNPFANITDIDQSAERVRDQLSV
MASPNGNLDEVHEGLLLQAVRASWLAKENRARIDDVVDFLKNASDSEQYAESPTIRSRLDEMIVLLDQYT
ANGTYGQYFNSDEPSLRDDAKMVVLELGGLEDRPSLLVAVMFSLIIYIENRMYRTPRNLKKLNVIDEGWR
LLDFKNHKVGEFIEKGYRTARRHTGAYITITQNIVDFDSDKASSAARAAWGNSSYKIILKQSAKEFAKYN
QLYPDQFLPLQRDMIGKFGAAKDQWFSSFLLQVENHSSWHRLFVDPLSRAMYSSDGPDFEFVQQKRKEGL
SIHEAVWQLAWKKSGPEMASLEAWLEEHEKYRSVA

  Protein domains


Predicted by InterproScan.

Family of unknown function (DUF5934) (DUF5934)

(289-446)

TraC protein (TraC_F_IV)

(38-276)

TraG P-loop domain (P-loop_TraG)

(467-771)

  Protein structure



No available structure.



ID   1207 GenBank   WP_032330953
Name   traD_C9174_RS26535_FWSEC0399|unnamed7 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: 5.1145

>WP_032330953.1 MULTISPECIES: type IV conjugative transfer system coupling protein TraD [Escherichia]
MSFNAKDMTQGGQIASMRIRMFSQIANIILYCLFIFFWILVGLVLWVKISWQTFVNGCIYWWCTTLEGMR
DLIRSQPVYEIQYYGKTFRMNAAQVLHDKYMIWCGEQLWSAFVLASVVALVICLITFFVVSWILGRQGKQ
QSENEITGGRQLTDNPKEVARMLKKDGKDSDIRIGDLPIIRDSEIQNFCLHGTVGAGKSEVIRRLANYAR
QRGDMVVIYDRSGEFVKSYYDPSIDKILNPLDARCAAWDLWKECLTQPDFDNTANTLIPMGTKEDPFWQG
SGRTIFAEAAYLMRNDPNRSYSKLVDTLLSIKIEKLRTFLRNSPAANLVEEKIEKTAISIRAVLTNYVKA
IRYLQGIEHNGEPFTIRDWMRGVREDQKNGWLFISSNADTHASLKPVISMWLSIAIRGLLAMGENRNRRV
WFFCDELPTLHKLPDLVEILPEARKFGGCYVFGIQSYAQLEDIYGEKAAATLFDVMNTRAFFRSPSHKIA
EFAAGEIGEKEHLKASEQYSYGADPVRDGVSTGKDMERQTLVSYSDIQSLPDLTCYVTLPGPYPAVKLSL
KYQTRPKVAPEFIPRDINPEMENRLSAVLAAREAEGREMASLFEPDVPEVVSGEDVTQAEQPQQPVSPAI
NDKKSDAGVNVPAGGIEQELKMKPEEEMEQQLPPGISESGEVVDMAVYEAWQREQNPDIQQKMQRREEVN
INVHRERGENVEPGDDF

  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: 6178..32319

Locus tag Coordinates Strand Size (bp) Protein ID Product Description
C9174_RS26320 (C9174_26350) 2169..2603 + 435 WP_000845922 conjugation system SOS inhibitor PsiB -
C9174_RS26325 (C9174_26355) 2600..3386 + 787 Protein_3 plasmid SOS inhibition protein A -
C9174_RS27820 3576..3689 + 114 Protein_4 DUF5431 family protein -
C9174_RS26330 (C9174_26360) 3634..3756 + 123 WP_223195199 Hok/Gef family protein -
C9174_RS26335 (C9174_26365) 4057..4354 - 298 Protein_6 hypothetical protein -
C9174_RS26350 (C9174_26380) 4655..4942 + 288 WP_000107520 hypothetical protein -
C9174_RS26355 (C9174_26385) 5061..5882 + 822 WP_001234468 DUF932 domain-containing protein -
C9174_RS26360 (C9174_26390) 6178..6687 - 510 WP_000759163 transglycosylase SLT domain-containing protein virB1
C9174_RS26370 (C9174_26400) 7102..7485 + 384 WP_000124981 conjugal transfer relaxosome DNA-binding protein TraM -
C9174_RS26375 (C9174_26405) 7675..8361 + 687 WP_000332490 PAS domain-containing protein -
C9174_RS26380 (C9174_26410) 8455..8682 + 228 WP_001442099 conjugal transfer relaxosome protein TraY -
C9174_RS26385 (C9174_26415) 8716..9081 + 366 WP_000340276 type IV conjugative transfer system pilin TraA -
C9174_RS26390 (C9174_26420) 9096..9407 + 312 WP_000012106 type IV conjugative transfer system protein TraL traL
C9174_RS26395 (C9174_26425) 9429..9995 + 567 WP_001563715 type IV conjugative transfer system protein TraE traE
C9174_RS26400 (C9174_26430) 9982..10710 + 729 WP_001230787 type-F conjugative transfer system secretin TraK traK
C9174_RS26405 (C9174_26435) 10710..12137 + 1428 WP_025670721 F-type conjugal transfer pilus assembly protein TraB traB
C9174_RS26410 (C9174_26440) 12127..12717 + 591 WP_000002787 conjugal transfer pilus-stabilizing protein TraP -
C9174_RS26415 (C9174_26445) 12704..12901 + 198 WP_001324648 conjugal transfer protein TrbD -
C9174_RS26420 (C9174_26450) 12913..13164 + 252 WP_001038351 conjugal transfer protein TrbG -
C9174_RS26425 (C9174_26455) 13161..13677 + 517 Protein_21 type IV conjugative transfer system lipoprotein TraV -
C9174_RS26430 (C9174_26460) 13812..14033 + 222 WP_032330955 conjugal transfer protein TraR -
C9174_RS26435 (C9174_26465) 14193..16820 + 2628 WP_001064245 type IV secretion system protein TraC virb4
C9174_RS26440 (C9174_26470) 16817..17203 + 387 WP_000099688 type-F conjugative transfer system protein TrbI -
C9174_RS26445 (C9174_26475) 17200..17832 + 633 WP_025670720 type-F conjugative transfer system protein TraW traW
C9174_RS26450 (C9174_26480) 17829..18821 + 993 WP_000830183 conjugal transfer pilus assembly protein TraU traU
C9174_RS26455 (C9174_26485) 18830..19468 + 639 WP_000777703 type-F conjugative transfer system pilin assembly protein TrbC trbC
C9174_RS26460 (C9174_26490) 19465..21273 + 1809 WP_025670719 type-F conjugative transfer system mating-pair stabilization protein TraN traN
C9174_RS26465 (C9174_26495) 21300..21557 + 258 WP_000864318 conjugal transfer protein TrbE -
C9174_RS26470 (C9174_26500) 21550..22293 + 744 WP_025670718 type-F conjugative transfer system pilin assembly protein TraF traF
C9174_RS26475 (C9174_26505) 22309..22656 + 348 WP_001287907 conjugal transfer protein TrbA -
C9174_RS26480 (C9174_26510) 22658..22933 - 276 WP_001513501 hypothetical protein -
C9174_RS26485 (C9174_26515) 23014..23298 + 285 WP_000624108 type-F conjugative transfer system pilin chaperone TraQ -
C9174_RS26490 (C9174_26520) 23285..23830 + 546 WP_000059833 type-F conjugative transfer system pilin assembly thiol-disulfide isomerase TrbB traF
C9174_RS26495 (C9174_26525) 23760..24101 + 342 WP_001442101 P-type conjugative transfer protein TrbJ -
C9174_RS27825 24088..24480 + 393 Protein_36 F-type conjugal transfer protein TrbF -
C9174_RS26510 (C9174_26540) 24467..25840 + 1374 WP_000944319 conjugal transfer pilus assembly protein TraH traH
C9174_RS26515 (C9174_26545) 25837..28662 + 2826 WP_136764471 conjugal transfer mating-pair stabilization protein TraG traG
C9174_RS26520 (C9174_26550) 28659..29168 + 510 WP_000628105 conjugal transfer entry exclusion protein TraS -
C9174_RS26525 (C9174_26555) 29182..29913 + 732 WP_000850416 conjugal transfer complement resistance protein TraT -
C9174_RS26535 (C9174_26565) 30166..32319 + 2154 WP_032330953 type IV conjugative transfer system coupling protein TraD virb4
C9174_RS26540 (C9174_26570) 32328..32726 - 399 WP_000911333 tRNA(fMet)-specific endonuclease VapC -
C9174_RS26545 (C9174_26575) 32726..32953 - 228 WP_000450520 toxin-antitoxin system antitoxin VapB -

Host bacterium

ID   2302 GenBank   NZ_RRNW01000089
Plasmid name   FWSEC0399|unnamed7 Incompatibility group   IncFIC
Plasmid size   64250 bp Coordinate of oriT [Strand]   6750..6873 [+]
Host baterium   Escherichia coli strain FWSEC0399

Cargo genes

Drug resistance gene   aph(6)-Id, aph(3'')-Ib, tet(A)
Virulence gene   -
Metal resistance gene   -
Degradation gene   -
Symbiosis gene   -
Anti-CRISPR   -