Detailed information of oriT

oriT

The information of the oriT region


oriTDB ID   106760
Name   oriT_pESA139_1 in_silico
Organism   Escherichia albertii strain Sample 166
Sequence Completeness      -
NCBI accession of oriT (coordinates [strand])   NZ_CP070293 (84298..84647 [+], 350 nt)
oriT length   350 nt
IRs (inverted repeats)      190..196, 204..210  (TATAAAA..TTTTATA)
 195..200, 202..207  (AAAACA..TGTTTT)
 102..108, 116..122  (TTTAAAT..ATTTAAA)
 104..109, 111..116  (TAAATC..GATTTA)
 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_pESA139_1
GTTGGTGGTTCTCACCACCAAAAGCACCACACCCCACGCAAAAACAAGTTTTTGCTGATTTGATTTTAATATCATATGCTTATATTCATGAATTTATATTGTTTAAATCAGATTTATTTAAAACAGCGGTGTAGGCGCGGCTATGGCACCGTGTCTGCACCGCTTTGTAGGGGTGGTACTGACTATTTTTATAAAAAACATTGTTTTATATTAGGGGTGCTGCTAGCGGCGCGGTGTGTTTTTTTATAGGATACTGCTAGGGGCGCTGCTAGCGGCGCGTTCCTGTTTCCATTGTGAATTTTAGTGTTTCGAAATTAACTTTATTTTATGTTTAAAAAAGGTAATCTCTA

Visualization of oriT structure

  oriT secondary structure

Predicted by RNAfold.

Download structure file


T4CP

ID   4501 GenBank   WP_208634893
Name   traD_JRC43_RS23490_pESA139_1 insolico UniProt ID   _
Length   741 a.a. PDB ID   _
Note   Predicted by oriTfinder 2.0

  T4CP protein sequence


Download         Length: 741 a.a.        Molecular weight: 84218.94 Da        Isoelectric Point: 5.1676

>WP_208634893.1 type IV conjugative transfer system coupling protein TraD [Escherichia albertii]
MSFNAKDMTQGGQIASMRIRMFSQIANIMLYCLFIFFWILVGLILWVKISWQTFVNGCIYWWCTTLEGMR
DLIKSQPVYEIQYYGKTFRMNAAQVLHDKYMIWCGEQLWSAFVLASVVALVICLITFFVVSWILGRQGKQ
QSENEVTGGRQLTDNPKDVARMLKKDGKDSDIRIGDLPIIRDSEIQNFCLHGTVGAGKSEIIRRLANYAR
QRGDMVVIYDRSGEFVKSYYDPSIDKILNPLDARCAAWDLWKECLTQPDFDNTANTLIPMGTKEDPFWQG
SGRTIFAEAAYLMRNDPNRSYSKLVDTLLSIKIEKLRTFLRNSPAANLVEEKIEKTAISIRAVLTNYVKA
IRYLQGIEHNGESFTIRDWMRGVREDQKNGWLFISSNADTHASLKPVISMWLSIAIRGLLAMGENRNRRV
WFFCDELPTLHKLPELVEILPEARKFGGCYVFGIQSYAQLEDIYGEKAAATLFDVMNTRAFFRSPSHKIA
EFAAGEIGEKEHLKASEQYSYGADPVRDGVSTGKDMERQTLVSYSDIQSLPDLTCYVTLPGPYPAVKLSL
KYQARPKVAPEFIPRDINPEMENRLSAVLAAREAEGRQMASLFEPEVASGEGVTQAEQPQQPQQPQQPQQ
PQQPQQPQQPQQPQQPQQPVSSVINDKKSDAGVSVPAGGIEQELKMKPEEEMEQQLPPGISESGEVVDMA
AYEAWQQENHPDIQQQMQRREEVNINVHRERGEDVEPGDDF

  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   4502 GenBank   WP_208634886
Name   traC_JRC43_RS24050_pESA139_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: 99212.84 Da        Isoelectric Point: 5.8486

>WP_208634886.1 type IV secretion system protein TraC [Escherichia albertii]
MNNPLEAVTQAVNSLVTALKLPDESAKANEVLGEMSFPQFSRLLPYRDYNQESGLFMNDTTMGFMLEAIP
INGANESIVEALDHMLRTKLPRGIPFCIHLMSSQLVGDRIEYGLREFSWSGEQAERFNAITRAYYMKAAA
TQFPLPEGMNLPLTLRHYRVFISYCSPSKKKSRADILEMENLVKIIRASLQGASITTQTVDAQAFIDIVG
EMINHNPDSLYPKRRQLDPYSDLNYQCVEDSFDLKVRADYLTLGLRENGRNSTARILNFHLARNPEIAFL
WNMADNYSNLLNPELSISCPFILTLTLVVEDQVKTHSEANLKYMDLEKKSKTSYAKWFPSVEKEAKEWGE
LRQRLGSGQSSVVSYFLNITAFCKDNNETALEVEQDILNSFRKNGFELISPRFNHMRNFLTCLPFMAGKG
LFKQLKEAGVVQRAESFNVANLMPLVADNPLTPAGLLAPTYRNQLAFIDIFFRGMNNTNYNMAVCGTSGA
GKTGLIQPLIRSVLDSGGFAVVFDMGDGYKSLCENMGGVYLDGETLRFNPFANITDIDQSAERVRDQLSV
MASPNGNLDEVHEGLLLQAVKASWLAKENRARIDDVVDFLKNASDSEQYAESPTIRSRLDEMIVLLDQYT
ANGTYGQYFNSDEPSLRDDAKMVVLELGGLEDRPSLLVAVMFSLIIYIENRMYRTPRNLKKLNVIDEGWR
LLDFKNHKVGEFIEKGYRTARRHTGAYITITQNIVDFDSDKASSAARAAWGNSSYKIILKQSAKEFAKYN
QLYPDQFQPLQRDMIGKFGAAKDQWFSSFLLQVENHSSWHRLFVDPLSRAMYSSDGPDFEFVQQKRKEGL
SIHEAVWQLAWKKSGPEMASLEAWLEEHEKYRSVA

  Protein domains


Predicted by InterproScan.

Family of unknown function (DUF5934) (DUF5934)

(289-446)

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: 86644..107101

Locus tag Coordinates Strand Size (bp) Protein ID Product Description
JRC43_RS23975 (JRC43_23975) 82483..82671 - 189 WP_000957857 hypothetical protein -
JRC43_RS23980 (JRC43_23980) 82788..83427 + 640 Protein_108 DUF932 domain-containing protein -
JRC43_RS23985 (JRC43_23985) 83725..84294 - 570 Protein_109 transglycosylase SLT domain-containing protein -
JRC43_RS23990 (JRC43_23990) 84648..85031 + 384 WP_001151533 conjugal transfer relaxosome DNA-binding protein TraM -
JRC43_RS23995 (JRC43_23995) 85223..85870 + 648 WP_072855064 conjugal transfer transcriptional regulator TraJ -
JRC43_RS24000 (JRC43_24000) 86006..86221 + 216 WP_000086380 conjugal transfer relaxosome protein TraY -
JRC43_RS24005 (JRC43_24005) 86264..86629 + 366 WP_029397924 type IV conjugative transfer system pilin TraA -
JRC43_RS24010 (JRC43_24010) 86644..86955 + 312 WP_000012106 type IV conjugative transfer system protein TraL traL
JRC43_RS24015 (JRC43_24015) 86977..87543 + 567 WP_000399792 type IV conjugative transfer system protein TraE traE
JRC43_RS24020 (JRC43_24020) 87530..88258 + 729 WP_001230787 type-F conjugative transfer system secretin TraK traK
JRC43_RS24025 (JRC43_24025) 88258..89685 + 1428 WP_208634883 F-type conjugal transfer pilus assembly protein TraB traB
JRC43_RS24030 (JRC43_24030) 89675..90262 + 588 WP_208634884 conjugal transfer pilus-stabilizing protein TraP -
JRC43_RS24035 (JRC43_24035) 90249..90569 + 321 WP_244259565 conjugal transfer protein TrbD -
JRC43_RS24040 (JRC43_24040) 90566..91081 + 516 WP_000724020 type IV conjugative transfer system lipoprotein TraV traV
JRC43_RS24045 (JRC43_24045) 91216..91437 + 222 WP_001278692 conjugal transfer protein TraR -
JRC43_RS24050 (JRC43_24050) 91597..94224 + 2628 WP_208634886 type IV secretion system protein TraC virb4
JRC43_RS24055 (JRC43_24055) 94221..94607 + 387 WP_208634887 type-F conjugative transfer system protein TrbI -
JRC43_RS24060 (JRC43_24060) 94604..95236 + 633 WP_208634888 type-F conjugative transfer system protein TraW traW
JRC43_RS24065 (JRC43_24065) 95233..96225 + 993 WP_000830839 conjugal transfer pilus assembly protein TraU traU
JRC43_RS24070 (JRC43_24070) 96255..96560 + 306 WP_137649262 hypothetical protein -
JRC43_RS24075 (JRC43_24075) 96569..97207 + 639 WP_033807960 type-F conjugative transfer system pilin assembly protein TrbC trbC
JRC43_RS24080 (JRC43_24080) 97204..97584 + 381 WP_208634889 hypothetical protein -
JRC43_RS24085 (JRC43_24085) 97820..99682 + 1863 WP_244259566 type-F conjugative transfer system mating-pair stabilization protein TraN traN
JRC43_RS24090 (JRC43_24090) 99709..99966 + 258 WP_000864325 conjugal transfer protein TrbE -
JRC43_RS24095 (JRC43_24095) 99959..100702 + 744 WP_001030371 type-F conjugative transfer system pilin assembly protein TraF traF
JRC43_RS24100 (JRC43_24100) 100718..101011 + 294 WP_208634890 conjugal transfer protein TrbA -
JRC43_RS24105 (JRC43_24105) 101067..101381 - 315 WP_000415566 protein ArtA -
JRC43_RS24110 (JRC43_24110) 101462..101746 + 285 WP_000624109 type-F conjugative transfer system pilin chaperone TraQ -
JRC43_RS24115 (JRC43_24115) 101733..102278 + 546 WP_021553231 type-F conjugative transfer system pilin assembly thiol-disulfide isomerase TrbB traF
JRC43_RS24120 (JRC43_24120) 102208..102555 + 348 WP_244259567 P-type conjugative transfer protein TrbJ -
JRC43_RS24125 (JRC43_24125) 102536..102928 + 393 WP_208634892 F-type conjugal transfer protein TrbF -
JRC43_RS24130 (JRC43_24130) 102915..104288 + 1374 WP_000944325 conjugal transfer pilus assembly protein TraH traH
JRC43_RS24135 (JRC43_24135) 104285..107101 + 2817 WP_099588200 conjugal transfer mating-pair stabilization protein TraG traG

Host bacterium

ID   7197 GenBank   NZ_CP070293
Plasmid name   pESA139_1 Incompatibility group   IncFII
Plasmid size   107432 bp Coordinate of oriT [Strand]   84298..84647 [+]
Host baterium   Escherichia albertii strain Sample 166

Cargo genes

Drug resistance gene   fosA3, blaTEM-1B, blaCTX-M-55
Virulence gene   -
Metal resistance gene   -
Degradation gene   -
Symbiosis gene   -
Anti-CRISPR   -