Detailed information of oriT

oriT

The information of the oriT region


oriTDB ID   116262
Name   oriT_ESA302|p3 in_silico
Organism   Escherichia albertii strain ESA302
Sequence Completeness      -
NCBI accession of oriT (coordinates [strand])   NZ_CP136261 (51975..52324 [-], 350 nt)
oriT length   350 nt
IRs (inverted repeats)      190..196, 204..210  (TATAAAA..TTTTATA)
 102..108, 116..122  (TTTAAAT..ATTTAAA)
 104..109, 111..116  (TAAATC..GATTTA)
 91..96, 104..109  (GATTTA..TAAATC)
 38..45, 48..55  (GCAAAAAC..GTTTTTGC)
 2..9, 14..21  (TTGGTGGT..ACCACCAA)
Location of nic site      _
Conserved sequence flanking the
  nic site    		  _
Note   Predicted by oriTfinder 2.0

  oriT sequence  


Download         Length: 350 nt

>oriT_ESA302|p3
GTTGGTGGTTCTCACCACCAAAAGCACCACACCCCACGCAAAAACAAGTTTTTGCTGATTTATCTTTAATATCATTGAGTTGTATTTGTGGATTTATATTGTTTAAATCTGATTTATTTAAAGCAGCGTCGTTAACGCAGCTACAGCAACGCGCCGACACCGCTTTGTAGGGGTGGTACTGACTATTTTTATAAAAAACATTATTTTATATTAGGGGTGCTGCTAGCGGCGCGGTGTGTTTTTTTATAGGATACCGTCAGGGGCGCTGCTAGCGGTGCGTCCCTGTTTGCACTATGAATTCTAGTGTTTCGAAATTAACTTTGTTTTATGTTTAAAAAAGGTAATATCTA

Visualization of oriT structure

  oriT secondary structure

Predicted by RNAfold.

Download structure file


Relaxase

ID   10400 GenBank   WP_316441404
Name   traI_RXE34_RS25845_ESA302|p3 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: 191758.38 Da        Isoelectric Point: 5.7526

>WP_316441404.1 conjugative transfer relaxase/helicase TraI [Escherichia albertii]
MMSIAQVRSAGSAGNYYTDKDNYYVLGSMGERWAGRGAEQLGLQGSVDKDVFTRLLEGRLPDGADLSRMQ
DGSNRHRPGYDLTFSAPKSVSMMAMLGGDKRLIDAHNQAVDFAVRQVEALASTRVMTDGQSETVLTGNLV
MALFNHDTSRDQEPQLHTHAVVANVTQHNGEWKTLSSDKVGKTGFIENVYANQIAFGRLYREKLKEQVEA
LGYETEVVGKHGMWEMPGVPVEAFSGRSQTIREAVGEDASLKSRDVAALDTRKSKQHVDPEVRMAEWMQT
LKETGFDIRAYRDAADQRAETRTQAPGAVSQEGPDVQQAVTQAIAGLSERKVQFTYTDVLARTVGILPPE
NGVIERARAGIDEAISREQLIPLDREKGLFTSGIHVLDELSVRALSRDIMKQNRVTVHPEKSVPRTAGYS
DAVSVLAQDRPSLAIVSGQGGAAGQRERVAELVMMAREQGREVQIIAADRRSQMNLKQDERLSGELITGR
RQLLEGIAFTPGSTVIVDQGEKLSLKETLTLLDGAARHNVQVLITDSGQRTGTGSALMAMKDAGVNTYRW
QGGEQRPATIISEPDRNVRYARLAGDFAASVKAGEESVAQVSGVREQAILTQAIRSELKTQGVLGRPEVT
MTALSPVWLDSRSRYLRDMYRPGMVMEQWNPETRSHDRYVIDRVTAQSHSLTLRDAQGETQVVRISSLDS
SWSLFRPEKMPVADGERLRVTGKIPGLRVSGGDRLQVASVSEDAMTVVVPGRAEPATLPVADSPFTALKL
ENGWVETPGHSVSDSATVFASVTQMAMDNATLNGLARSGRDVRLYSSLDETRTAEKLARHPSFTVVSEQI
KARAGETSLETAISLQKTGLHTPAQQAIHLALPVLESKNLAFSMVDLLTEAKSFAAEGTGFTELGGEINA
QIKRGDLLYVDVAKGYGTGLLVSRASYEAEKSILRHILEGKEAVTPLMERVPGELMETLTSGQRAATRMI
LETSDRFTVVQGYAGVGKTTQFRAVMSAVNMLPASERPRVVGLGPTHRAVGEMRSAGVDAQTLASFLHDT
QLQQRSGETPDFSNTLFLLDESSMVGNTDMARAYALIAAGGGRAVASGDTDQLQAIAPGQPFRLQQTRSA
ADVVIMKEIVRQTPELREAVYSLINRDVERALSGLESVKPSQVPRQEGAWAPEHSVTEFSHSQEAKLAEA
QQKAMLKGETFPDVPMTLYEAIVRDYTGRTPEAREQTLIVTHLNEDRRVLNSMIHDAREKAGELGKEQVM
VPVLNTANIRDGELRRLSTWENNPDALALVDSVYHRIAGISKDDGLITLEDAEGNTRLISPREAVAEGVT
LYTPDKIRVGTGDRMRFTKSDRERGYVANSVWTVTAVSGDSVTLSDGQQTRVIRPGQERAEQHIDLAYAI
TAHGAQGASETFAIALEGTEGNRKLMAGFESAYVALSRMKQHVQVYTDNRQGWTDAINNAVQKGTAHDVL
EPKPDREVMNAQRLFSTARELRDVAAGRAVLRQAGLAGGDSPARFIAPGRKYPQPYVALPAFDRNGKSAG
IWLNPLTTDDGNGLRGFSGEGRVKGSGDAQFVALQGSRNGESLLADNMQDGVRIARDNPDSGVVVRIAGE
GRPWNPGAITGGRVWGDIPDSSVQPGAGNGEPVTAEVLAQRQAEEAIRRETERRADEIVRKMAENKPDLP
DGKTEQAVREIAGQERDRADITEREAALPESVLRESQREQEAVREVARENLLQERLQQIERDMVRDLQKE
KTLGGD

  Protein domains


Predicted by InterproScan.

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

(633-712)

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

(575-626)

AAA domain (AAA_30)

(968-1156)

DNA helicase TraI (TraI_C)

(1434-1557)

TrwC relaxase (TrwC)

(10-283)


  Protein structure



No available structure.




Auxiliary protein

ID   6112 GenBank   WP_001151530
Name   WP_001151530_ESA302|p3 insolico UniProt ID   A0A385JKG6
Length   127 a.a. PDB ID   _
Note   Predicted by oriTfinder 2.0

  Auxiliary protein sequence


Download         Length: 127 a.a.        Molecular weight: 14525.54 Da        Isoelectric Point: 4.8662

>WP_001151530.1 MULTISPECIES: conjugal transfer relaxosome DNA-binding protein TraM [Enterobacteriaceae]
MAKVNLYISNDAYEKINAIIEKRRQEGAREKDVSFSATASMLLELGLRVYEAQMERKESAFNQAEFNKLL
LECVVKTQSSVAKILGIESLSPHVSGNPKFEYANMVEDIREKVSVEMERFFPKNDDE

  Protein domains


Predicted by InterproScan.

TraM protein, DNA-binding (Tra_M)

(1-126)


  Protein structure


Source ID Structure
AlphaFold DB A0A385JKG6


T4CP

ID   12139 GenBank   WP_100036095
Name   traD_RXE34_RS25850_ESA302|p3 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_100036095.1 MULTISPECIES: type IV conjugative transfer system coupling protein TraD [Escherichia]
MSFNAKDMTQGGQIASMRIRMFSQIANIMLYCLFIFFWILVGLVLWVKISWQTFINGCIYWWCTTLEGMR
DLIKSQPVYEIQYYGKTFRMNAAQVLHEKYMIWCGEQLWSAFVLASVVALVICLITFFVVSWILGRQGKQ
QSENEVTGGRQLTDNPKDVARMLKKDGKDSDIRIGDLPIIRDSEIQNFCLHGTVGAGKSEVIRRLANYAR
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   12140 GenBank   WP_316441406
Name   traC_RXE34_RS25940_ESA302|p3 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: 99327.25 Da        Isoelectric Point: 6.5173

>WP_316441406.1 type IV secretion system protein TraC [Escherichia albertii]
MNNPLEAVTQAVNSLVTALKLPDESAKANEVLGEMSFPQFSRLLPYRDYNQESGLFMNDTTMGFMLEAIP
INGANESIVEALDHMLRTKLPRGIPLCIHLMSSQLVGDRIEYGLREFSWSGEQAERFNAITRAYYMKAAA
TQFPLPEGMNLPLTLRHYRVFLSYCSPSKKKSRADILEMENLVKIIRASFHGAKITTQTVDAQAFIEIVG
EMINHNPDSLYPKRRQLDPYSDLNYQCVEDSFDLKVRADYLTLGLRENGRNSTARILNFHLARNPEIAFL
WNMADNYSNLLNPEMSISCPFILTLTLVVEDQVKTHSEANLKYMDLEKKSKTSYAKWFPSVEKEAKEWGE
LRQRLGSGQSSVVSYFLNITAFCKDNNETALEVEQDILNSFRKNGFELISPRFNHMRNFLTCLPFMAGKG
LFKQLKEAGVVQRAESFNVANLMPLVADNPLTPAGLLAPTYRNQLAFIDIFFKGMNNTNYNMAVCGTSGA
GKTGLIQPLIRSVLDSGGFAVVFDMGDGYKSLCENMGGVYLDGETLRFNPFANITDIDQSAERVRDQLSV
MASPNGNLDEVHEGLLLQAVKASWLAKKNQARIDDVVNFLKNASDSEQYAESPTIRSRLDEMIVLLDQYT
ANGTYGRYFNSDEPSLRDDARMVVLELGGLEDRPSLLVAVMFSLIIYIENRMYRTPRTLKKLNVIDEGWR
LLDFKNRKVGEFIQKGYRTCRRHTGAYITITQNIVDFDSDKASSAARAAWGNSSYKIILKQSAKEFAKYN
QLFPDQFLPLQRDMIGKFGAAKDQWFSSFLLQVENHSSWHRLFVDPLSRAMYSSDGPDFEFVQQKRREGL
SIHEAVWQLAWKKSGPEMASLEAWLEEHEKYRSVA

  Protein domains


Predicted by InterproScan.

Family of unknown function (DUF5934) (DUF5934)

(290-446)

TraG P-loop domain (P-loop_TraG)

(467-763)

TraC protein (TraC_F_IV)

(38-276)

  Protein structure



No available structure.




T4SS

T4SS were predicted by using oriTfinder2.

Region 1: 26089..49991

Locus tag Coordinates Strand Size (bp) Protein ID Product Description
RXE34_RS25850 (RXE34_25850) 26089..28296 - 2208 WP_100036095 type IV conjugative transfer system coupling protein TraD virb4
RXE34_RS25855 (RXE34_25855) 28347..29084 - 738 WP_000199911 hypothetical protein -
RXE34_RS25860 (RXE34_25860) 29287..30018 - 732 WP_000850424 conjugal transfer complement resistance protein TraT -
RXE34_RS25865 (RXE34_25865) 30051..30548 - 498 WP_000605862 entry exclusion protein -
RXE34_RS25870 (RXE34_25870) 30567..33386 - 2820 WP_316441405 conjugal transfer mating-pair stabilization protein TraG traG
RXE34_RS25875 (RXE34_25875) 33383..34756 - 1374 WP_000944325 conjugal transfer pilus assembly protein TraH traH
RXE34_RS25880 (RXE34_25880) 34743..35135 - 393 WP_000126338 F-type conjugal transfer protein TrbF -
RXE34_RS25885 (RXE34_25885) 35089..35403 - 315 WP_001384255 P-type conjugative transfer protein TrbJ -
RXE34_RS25890 (RXE34_25890) 35393..35938 - 546 WP_089623095 type-F conjugative transfer system pilin assembly thiol-disulfide isomerase TrbB traF
RXE34_RS25895 (RXE34_25895) 35925..36209 - 285 WP_000624108 type-F conjugative transfer system pilin chaperone TraQ -
RXE34_RS25900 (RXE34_25900) 36328..36675 - 348 WP_021519759 conjugal transfer protein TrbA -
RXE34_RS25905 (RXE34_25905) 36691..37434 - 744 WP_001030376 type-F conjugative transfer system pilin assembly protein TraF traF
RXE34_RS25910 (RXE34_25910) 37427..37684 - 258 WP_000864325 conjugal transfer protein TrbE -
RXE34_RS25915 (RXE34_25915) 37711..39519 - 1809 WP_210173462 type-F conjugative transfer system mating-pair stabilization protein TraN traN
RXE34_RS25920 (RXE34_25920) 39516..40154 - 639 WP_000777687 type-F conjugative transfer system pilin assembly protein TrbC trbC
RXE34_RS25925 (RXE34_25925) 40163..41155 - 993 WP_001712363 conjugal transfer pilus assembly protein TraU traU
RXE34_RS25930 (RXE34_25930) 41152..41784 - 633 WP_021519756 type-F conjugative transfer system protein TraW traW
RXE34_RS25935 (RXE34_25935) 41781..42167 - 387 WP_000214098 type-F conjugative transfer system protein TrbI -
RXE34_RS25940 (RXE34_25940) 42164..44791 - 2628 WP_316441406 type IV secretion system protein TraC virb4
RXE34_RS25945 (RXE34_25945) 44951..45172 - 222 WP_103756879 conjugal transfer protein TraR -
RXE34_RS25950 (RXE34_25950) 45307..45822 - 516 WP_316441407 type IV conjugative transfer system lipoprotein TraV traV
RXE34_RS25955 (RXE34_25955) 45819..46070 - 252 WP_119187676 conjugal transfer protein TrbG -
RXE34_RS25960 (RXE34_25960) 46063..46383 - 321 WP_001057287 conjugal transfer protein TrbD virb4
RXE34_RS25965 (RXE34_25965) 46370..46960 - 591 WP_000002783 conjugal transfer pilus-stabilizing protein TraP -
RXE34_RS25970 (RXE34_25970) 46950..48377 - 1428 WP_316441408 F-type conjugal transfer pilus assembly protein TraB traB
RXE34_RS25975 (RXE34_25975) 48377..49105 - 729 WP_001230787 type-F conjugative transfer system secretin TraK traK
RXE34_RS25980 (RXE34_25980) 49092..49658 - 567 WP_000399792 type IV conjugative transfer system protein TraE traE
RXE34_RS25985 (RXE34_25985) 49680..49991 - 312 WP_210180373 type IV conjugative transfer system protein TraL traL
RXE34_RS25990 (RXE34_25990) 50006..50371 - 366 WP_000340274 type IV conjugative transfer system pilin TraA -
RXE34_RS25995 (RXE34_25995) 50405..50632 - 228 WP_000589558 conjugal transfer relaxosome protein TraY -
RXE34_RS26000 (RXE34_26000) 50752..51399 - 648 WP_316441409 transcriptional regulator TraJ family protein -
RXE34_RS26005 (RXE34_26005) 51591..51974 - 384 WP_001151530 conjugal transfer relaxosome DNA-binding protein TraM -
RXE34_RS26010 (RXE34_26010) 52328..52897 + 570 Protein_64 transglycosylase SLT domain-containing protein -
RXE34_RS26015 (RXE34_26015) 53195..54016 - 822 WP_063097562 DUF932 domain-containing protein -
RXE34_RS26020 (RXE34_26020) 54122..54418 - 297 WP_316441410 hypothetical protein -
RXE34_RS26025 (RXE34_26025) 54442..54648 - 207 WP_032342234 hypothetical protein -
RXE34_RS26030 (RXE34_26030) 54718..54890 + 173 Protein_68 hypothetical protein -

Host bacterium

ID   16695 GenBank   NZ_CP136261
Plasmid name   ESA302|p3 Incompatibility group   -
Plasmid size   63188 bp Coordinate of oriT [Strand]   51975..52324 [-]
Host baterium   Escherichia albertii strain ESA302

Cargo genes

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