Detailed information of oriT

oriT

The information of the oriT region


oriTDB ID   102353
Name   oriT_FWSEC0382|unnamed2 in_silico
Organism   Escherichia coli strain FWSEC0382
Sequence Completeness      -
NCBI accession of oriT (coordinates [strand])   NZ_RRNG01000139 (58030..58381 [-], 352 nt)
oriT length   352 nt
IRs (inverted repeats)      255..262, 271..278  (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: 352 nt

>oriT_FWSEC0382|unnamed2
AGGTTGGTGGTTCTCACCACCAAAAGCACCACACCCCACGCAAAAACAAGTTTTTGCTGATTTTTCTTTATAAATAGAGTGTTATGAAAAATTAGTTTCTCTTACTCTCTTTATGATATTTAAAAAAGCGGTGTCGGCGCGGCTACAACAACGCGCCGACACCGTTTTGTAGGGGTGGTACTGACTATTTTTATAAAAAACATTATTTTATATTAGGGGGGGCTGCTAGCGGCGCGGTGTGTTTTTTATAGGATACCGCTAGGGGCGCTGCTAGCGGTGCGTCCCTGTTTGCATTATGAATTTTAGTGTTTCGAAATTAACTTTATTTTATGTTCAAAAAAGGTAATCTCTA

Visualization of oriT structure

  oriT secondary structure

Predicted by RNAfold.

Download structure file


Relaxase

ID   1783 GenBank   WP_136765534
Name   traI_C9158_RS26805_FWSEC0382|unnamed2 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: 191889.65 Da        Isoelectric Point: 5.6943

>WP_136765534.1 conjugative transfer relaxase/helicase TraI [Escherichia coli]
MMSIAQVRSAGSAGNYYTDKDNYYVLGSMGERWAGRGAEQLGLQGSVDKDVFTRLLEGRLPDGADLSRMQ
DGSNRHRPGYDLTFSAPKSVSMMAMLGGDKRLIDAHNQAVDFAVRQVEALASTRVMTDGQSETVLTGNLV
MALFNHDTSRDQEPQLHTHAVVANVTQHNGEWKTLSSDKVGKTGFIENVYANQIAFGRLYREKLKEQVEA
LGYETEVVGKHGMWEMPGVPVEAFSGRSQAIREAVGEDASLKSRDVAALDTRKSKQHVDPEVRMAEWMQT
LKETGFDIRAYRDAADQRAETRTQAPGAVSQEGPDVQQAVTQAIAGLSERKVQFTYTDVLARTVGILPPE
NGVIERARAGIDEAISREQLIPLDREKGLFTSGIHVLDELSVRALSRDIMKQNRVTVHPEKSVPRTAGYS
DAVSVLAQDRPSLAIVSGQGGAAGQRERVAELVMMVREQGREVQIIAADRRSQMNLKQDERLSGELITGR
RQLLEGMAFTPGSTVIVDQGEKLSLKETLTLLDGAARHNVQVLITDSGQRTGTGSALMAMKDAGVNTYRW
QGGEQRPATIISEPDRNVRYARLAGDFAASVKAGEESVAQVSGVREQAILTQAIRSELKTQGVLGHQEVT
MTALSPVWLDSRSRYLRDMYRPGMVMEQWNPETRSHDRYVIDRVTAQSHSLTLRDAQGETQVVRISSLDS
SWSLFRPEKMPVADGERLRVTGKIPGLRVSGGDRLQVASVSEDAMTVVVPGRAEPATLPVADSPFTALKL
ENGWVETPGHSVSDSAKVFASVTQMAMDNATLNGLARSGRDVRLYSSLDETRTAEKLARHPSFTVVSEQI
KARAGETLLETAISLQKAWLHTPAQQAIHLALPVVESKNLAFSMVDLLTEVKSFAAEGTSFTELGGEINA
QIKRGDLLYVDVAKGYGTGLLVSRASYEAEKSILRHILEGKEAVTPLMERVPGELMEKLTSGQRAATRMI
LETSDRFTVVQGYAGVGKTTQFRAVMSAVNMLPESERPRVVGLGPTHRAVGEMRSAGVDAQTLASFLHDT
QLLQRSGETPDFSNTLFLLDESSMVGNTDMARAYALIAAGGGRAVASGDTDQLQAIAPGQPFRLQQTRSA
ADVAIMKEIVRQTPELREAVYSLINRDVERALSGLESVKPSQVPRQEGAWAPEHSVTEFSHSQEAKLAEA
QQKAMLKGEAFPDIPMTLYEAIVRDYTGRTPEAREQTLIVTHLNEDRRVLNSMIHDAREKAGELGKEQVM
VPVLNTANICDGELRRLSTWENNPDALALVDSVYHRIAGISKDDGLITLEDAEGNTRLISPREAVAEGVT
LYTPDTIRVGTGDRMRFTKSDRERGYVANSVWTVTAVSGDSVTLSDGQQTRVIRPGQERAEQHIDLAYAI
TAHGAQGASETFAIALEGTEGGRKQMAGFESAYVALSRMKQHVQVYTDNRQGWTDAINNAVQKGTAHDVL
EPGSDREVMNAERLFSTARELRDVAAGRAVLRQAGLAGGDSPARFIAPGRKYPQPYVALPAFDRNGKSAG
IWLNPLTTDDGNGLRGFSGEGRVKGSGDAQFVALQGSRNGESLLADNMQDGVRIARDNPDSGVVVRIAGE
GRPWNPGAITGGRVWGDIPDNSVQPGAGNGEPITAEVLAQRQAEEAIRRETERRADEIVRKMAENKPDLP
DGKTEQAVREITGQERDRAAITEREAALPESVLREPQREREAVREVARENLLQERLQQMERDMVRDLQKE
KTLGGD

  Protein domains


Predicted by InterproScan.

AAA domain (AAA_30)

(969-1156)

TrwC relaxase (TrwC)

(10-283)

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

(633-712)

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

(575-627)

DNA helicase TraI (TraI_C)

(1434-1557)


  Protein structure



No available structure.




Auxiliary protein

ID   704 GenBank   WP_001369361
Name   WP_001369361_FWSEC0382|unnamed2 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   705 GenBank   WP_001151524
Name   WP_001151524_FWSEC0382|unnamed2 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   1365 GenBank   WP_001369365
Name   traD_C9158_RS26810_FWSEC0382|unnamed2 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: 81446.95 Da        Isoelectric Point: 5.0524

>WP_001369365.1 MULTISPECIES: type IV conjugative transfer system coupling protein TraD [Gammaproteobacteria]
MSFNAKDMTQGGQIASMRIRMFSQIANIMLYCLFIFFWILVGLVLWVKISWQTFVNGCIYWWCTTLEGMR
DLIKSQPVYEIQYYGKTFRMNAAQVLHDKYMIWCGEQLWSAFVLATVVALVICLITFFVVSWILGRQGKQ
QSENEVTGGRQLTENPKDVARMLKKDGKDSDIRIGDLPIIRDSEIQNFCLHGTVGAGKSEVIRRLANYAR
QRGDMVVIYDRSGEFVKSYYDPSIDKILNPLDARCAAWDLWKECLTQPDFDNTANTLIPMGTKEDPFWQG
SGRTIFAEAAYLMRNDPNRSYSKLVDTLLSIKIEKLRTFLRNSPAANLVEEKIEKTAISIRAVLTNYVKA
IRYLQGIEHNGESFTIRDWMRGVREDQKNGWLFISSNADTHASLKPVISMWLSIAIRGLLAMGENRNRRV
WFFCDELPTLHKLPDLVEILPEARKFGGCYVFGIQSYAQLEDIYGEKAAATLFDVMNTRAFFRSPSHKIA
EFAAGEIGEKEHLKASEQYSYGADPVRDGVSTGKDMERQTLVSYSDIQSLPDLTCYVTLPGPYPAVKLSL
KYQARPKVAPEFIPRDINPEMENRLSAVLAAREAEGRQMASLFEPDVPEVVSGEDVTQAEQPQQPVSPAI
NDKKSDSGVNVPAGGIEQELKMKPEEEMEQQLPPGISESGEVVDMAAYEAWQQENHPDIQQQMQRREEVN
INVHRERGEDVEPGDDF

  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   1366 GenBank   WP_001064252
Name   traC_C9158_RS26895_FWSEC0382|unnamed2 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: 99164.84 Da        Isoelectric Point: 5.8486

>WP_001064252.1 MULTISPECIES: type IV secretion system protein TraC [Gammaproteobacteria]
MNNPLEAVTQAVNSLVTALKLPDESAKANEVLGEMSFPQFSRLLPYRDYNQESGLFMNDTTMGFMLEAIP
INGANESIVEALDHMLRTKLPRGIPLCIHLMSSQLVGDRIEYGLREFSWSGEQAERFNAITRAYYMKAAA
TQFPLPEGMNLPLTLRHYRVFISYCSPSKKKSRADILEMENLVKIIRASLQGASITTQTVDAQAFIDIVG
EMINHNPDSLYPKRRQLDPYSDLNYQCVEDSFDLKVRADYLTLGLRESGRNSTARILNFHLARNPEIAFL
WNMADNYSNLLNPELSISCPFILTLTLVVEDQVKTHSEANLKYMDLEKKSKTSYAKWFPSVEKEAKEWGE
LRQRLGSGQSSVVSYFLNITAFCKDNNETALEVEQDILNSFRKNGFELISPRFNHMRNFLTCLPFMAGKG
LFKQLKEAGVVQRAESFNVANLMPLVADNPLTPAGLLAPTYRNQLAFIDIFFRGMNNTNYNMAVCGTSGA
GKTGLIQPLIRSVLDSGGFAVVFDMGDGYKSLCENMGGVYLDGETLRFNPFANITDIDQSAERVRDQLSV
MASPNGNLDEVHEGLLLQAVRASWLAKENRARIDDVVDFLKNASDSEQYAESPTIRSRLDEMIVLLDQYT
ANGTYGQYFNSDEPSLRDDAKMVVLELGGLEDRPSLLVAVMFSLIIYIENRMYRTPRNLKKLNVIDEGWR
LLDFKNHKVGEFIEKGYRTARRHTGAYITITQNIVDFDSDKASSAARAAWGNSSYKIILKQSAKEFAKYN
QLYPDQFLPLQRDMIGKFGAAKDQWFSSFLLQVENHSSWHRLFVDPLSRAMYSSDGPDFEFVQQKRKEGL
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: 33225..58952

Locus tag Coordinates Strand Size (bp) Protein ID Product Description
C9158_RS26810 (C9158_26825) 33225..35378 - 2154 WP_001369365 type IV conjugative transfer system coupling protein TraD virb4
C9158_RS26820 (C9158_26835) 35631..36362 - 732 WP_000850424 conjugal transfer complement resistance protein TraT -
C9158_RS26825 (C9158_26840) 36376..36885 - 510 WP_000628099 conjugal transfer entry exclusion protein TraS -
C9158_RS26830 (C9158_26845) 36882..39707 - 2826 WP_001007045 conjugal transfer mating-pair stabilization protein TraG traG
C9158_RS26835 (C9158_26850) 39704..41077 - 1374 WP_001137358 conjugal transfer pilus assembly protein TraH traH
C9158_RS26840 (C9158_26855) 41077..41439 - 363 WP_010379880 P-type conjugative transfer protein TrbJ -
C9158_RS26845 (C9158_26860) 41369..41914 - 546 WP_042965062 type-F conjugative transfer system pilin assembly thiol-disulfide isomerase TrbB traF
C9158_RS26850 (C9158_26865) 41901..42185 - 285 WP_000624110 type-F conjugative transfer system pilin chaperone TraQ -
C9158_RS26855 (C9158_26870) 42304..42651 - 348 WP_001287677 conjugal transfer protein TrbA -
C9158_RS26860 (C9158_26875) 42667..43410 - 744 WP_001030376 type-F conjugative transfer system pilin assembly protein TraF traF
C9158_RS26865 (C9158_26880) 43403..43660 - 258 WP_000864325 conjugal transfer protein TrbE -
C9158_RS26870 (C9158_26885) 43687..45495 - 1809 WP_000821846 type-F conjugative transfer system mating-pair stabilization protein TraN traN
C9158_RS26875 (C9158_26890) 45492..46130 - 639 WP_000777693 type-F conjugative transfer system pilin assembly protein TrbC trbC
C9158_RS26880 (C9158_26895) 46139..47131 - 993 WP_000830839 conjugal transfer pilus assembly protein TraU traU
C9158_RS26885 (C9158_26900) 47128..47760 - 633 WP_001203720 type-F conjugative transfer system protein TraW traW
C9158_RS26890 (C9158_26905) 47757..48143 - 387 WP_000214082 type-F conjugative transfer system protein TrbI -
C9158_RS26895 (C9158_26910) 48140..50767 - 2628 WP_001064252 type IV secretion system protein TraC virb4
C9158_RS26900 (C9158_26915) 50927..51148 - 222 WP_001278689 conjugal transfer protein TraR -
C9158_RS26905 (C9158_26920) 51283..51798 - 516 WP_000809841 type IV conjugative transfer system lipoprotein TraV traV
C9158_RS26910 (C9158_26925) 51795..52046 - 252 WP_001038342 conjugal transfer protein TrbG -
C9158_RS26915 (C9158_26930) 52058..52255 - 198 WP_001324648 conjugal transfer protein TrbD -
C9158_RS26920 (C9158_26935) 52242..52832 - 591 WP_000002796 conjugal transfer pilus-stabilizing protein TraP -
C9158_RS26925 (C9158_26940) 52822..54249 - 1428 WP_000146685 F-type conjugal transfer pilus assembly protein TraB traB
C9158_RS26930 (C9158_26945) 54249..54977 - 729 WP_001230787 type-F conjugative transfer system secretin TraK traK
C9158_RS26935 (C9158_26950) 54964..55530 - 567 WP_000399785 type IV conjugative transfer system protein TraE traE
C9158_RS26940 (C9158_26955) 55552..55863 - 312 WP_000012106 type IV conjugative transfer system protein TraL traL
C9158_RS26945 (C9158_26960) 55878..56243 - 366 WP_000994779 type IV conjugative transfer system pilin TraA -
C9158_RS26950 (C9158_26965) 56276..56671 - 396 WP_001309237 conjugal transfer relaxosome DNA-bindin protein TraY -
C9158_RS26955 (C9158_26970) 56770..57459 - 690 WP_000283385 conjugal transfer transcriptional regulator TraJ -
C9158_RS26960 (C9158_26975) 57646..58029 - 384 WP_001151524 conjugal transfer relaxosome DNA-binding protein TraM -
C9158_RS26965 (C9158_26980) 58443..58952 + 510 WP_000759163 transglycosylase SLT domain-containing protein virB1
C9158_RS26970 (C9158_26985) 59248..60069 - 822 WP_001234468 DUF932 domain-containing protein -
C9158_RS26975 (C9158_26990) 60188..60474 - 287 Protein_71 hypothetical protein -
C9158_RS28065 60499..60639 - 141 WP_001445060 hypothetical protein -

Host bacterium

ID   2797 GenBank   NZ_RRNG01000139
Plasmid name   FWSEC0382|unnamed2 Incompatibility group   IncFII
Plasmid size   60669 bp Coordinate of oriT [Strand]   58030..58381 [-]
Host baterium   Escherichia coli strain FWSEC0382

Cargo genes

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