Detailed information of oriT

oriT

The information of the oriT region


oriTDB ID   103085
Name   oriT_pEC14III in_silico
Organism   Escherichia coli
Sequence Completeness      -
NCBI accession of oriT (coordinates [strand])   NZ_KU932028 (6851..6974 [-], 124 nt)
oriT length   124 nt
IRs (inverted repeats)      92..99, 113..120  (ATAATGTA..TACATTAT)
 90..95, 107..112  (AAATAA..TTATTT)
 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_pEC14III
GGTTGGTGGTTCTCACCACCAAAAGCACCACACCCCACGCAAAAACAAGTTTTTGCTGATTTGCTATTTGAATCATTAACTTATGTTTTAAATAATGTATTTTAATTTATTTTACATTATAAAA

Visualization of oriT structure

  oriT secondary structure

Predicted by RNAfold.

Download structure file


Auxiliary protein

ID   970 GenBank   WP_001254388
Name   WP_001254388_pEC14III insolico UniProt ID   W9A0Z2
Length   75 a.a. PDB ID   _
Note   Predicted by oriTfinder 2.0

  Auxiliary protein sequence


Download         Length: 75 a.a.        Molecular weight: 9072.20 Da        Isoelectric Point: 10.2071

>WP_001254388.1 MULTISPECIES: conjugal transfer relaxosome protein TraY [Enterobacterales]
MRRRNARGGISRTVSVYLDEDTNNRLIRAKDRSGRSKTIEVQIRLRDHLKRFPDFYNEEIFREVIEENES
TFKEL

  Protein domains


Predicted by InterproScan.

TraY domain (TraY)

(14-61)


  Protein structure


Source ID Structure
AlphaFold DB W9A0Z2

ID   971 GenBank   WP_001151564
Name   WP_001151564_pEC14III insolico UniProt ID   A0AA36PD43
Length   127 a.a. PDB ID   _
Note   Predicted by oriTfinder 2.0

  Auxiliary protein sequence


Download         Length: 127 a.a.        Molecular weight: 14446.39 Da        Isoelectric Point: 4.7197

>WP_001151564.1 MULTISPECIES: conjugal transfer relaxosome DNA-binding protein TraM [Enterobacterales]
MAKVQAYVSDEIVYKINKIVERRRAEGAKSTDVSFSSISTMLLELGLRVYEAQMERKESAFNQAEFNKVL
LECAVKTQSTVAKILGIESLSPHVSGNPKFEYANMVEDIRDKVSSEMERFFPENDEE

  Protein domains


Predicted by InterproScan.

TraM protein, DNA-binding (Tra_M)

(1-126)


  Protein structure



No available structure.




T4CP

ID   2030 GenBank   WP_072749386
Name   traD_HTH55_RS00370_pEC14III insolico UniProt ID   _
Length   729 a.a. PDB ID   _
Note   Predicted by oriTfinder 2.0

  T4CP protein sequence


Download         Length: 729 a.a.        Molecular weight: 82874.49 Da        Isoelectric Point: 5.0524

>WP_072749386.1 MULTISPECIES: type IV conjugative transfer system coupling protein TraD [Enterobacteriaceae]
MSFNAKDMTQGGQIASMRIRMFSQIANIMLYCLFIFFWILVGLVLWVKISWQTFVNGCIYWWCTTLEGMR
DLIKSQPVYEIQYYGKTFRMNAAQVLHDKYMIWCGEQLWSAFVLATVVALVICLITFFVVSWILGRQGKQ
QSENEVTGGRQLTENPKDVARMLKKDGKDSDIRIGDLPIIRDSEIQNFCLHGTVGAGKSEVIRRLANYAR
QRGDMVVIYDRSGEFVKSYYDPSIDKILNPLDARCAAWDLWKECLTQPDFDNTANTLIPMGTKEDPFWQG
SGRTIFAEAAYLMRNDPNRSYSKLVDTLLSIKIEKLRTFLRNSPAANLVEEKIEKTAISIRAVLTNYVKA
IRYLQGIEHNGESFTIRDWMRGVREDQKNGWLFISSNADTHASLKPVISMWLSIAIRGLLAMGENRNRRV
WFFCDELPTLHKLPDLVEILPEARKFGGCYVFGIQSYAQLEDIYGEKAAATLFDVMNTRAFFRSPSHKIA
EFAAGEIGEKEHLKASEQYSYGADPVRDGVSTGKDMERQTLVSYSDIQSLPDLTCYVTLPGPYPAVKLSL
KYQARPKVAPEFIPRDINPEMENRLSAVLAAREAEGRQMASLFEPDVPEVISGEDVTQAEQPQQPQQPQQ
PQQPQQPVSPAINDKKSDSGVNVPAGGIEQELKMKPEEEMEQQLPPGISESGEVVDMAAYEAWQQENHPD
IQQQMQRREEVNINVHRERGEDVEPGDDF

  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   2031 GenBank   WP_064558378
Name   traC_HTH55_RS00470_pEC14III insolico UniProt ID   _
Length   876 a.a. PDB ID   _
Note   Predicted by oriTfinder 2.0

  T4CP protein sequence


Download         Length: 876 a.a.        Molecular weight: 99275.99 Da        Isoelectric Point: 6.3025

>WP_064558378.1 MULTISPECIES: type IV secretion system protein TraC [Enterobacteriaceae]
MSNNPLEAVTQAVNSLVTALKLPDESAKANEVLGEMSFPQFSRLLPYRDYNQESGLFMNDTTMGFMLEAI
PINGANKSIVEALDHMLRTKLPRDIPLCIHLMSSQLVGDRIEYGLREFSWSGEQAERFNAITRAYYMKAA
ATQFPLPEGMNLPLTLRHYRVFISYCSPSKKKSRADILEMENLVKIIRASLQGASIATQTVDAQAFIDIV
GEMINHNPDSLYPKRRQLDPYSDLNYQCVEDSFDLKVRADYLTLGLRENGRNSTARILNFHLARNPEIAF
LWNMADNYSNLLNPELSISCPFILTLTLVVEDQVKTHSEANLKYMDLEKKSKTSYAKWFPSVEKEAKEWG
ELRQRLGSGQSSVVSYFLNITAFCKDNNETALKVEQDILNSFRKNGFELISPRFNHMRNFLTCLPFMAGK
GLFKQLKEAGVVQRAESFNVANLMPLVADNPLTPAGLLAPTYRNQLAFIDIFFRGMNNTNYNMAVCGTSG
AGKTGLIQPLIRSVLDSGGFAVVFDMGDGYKSLCENMGGVYLDGETLRFNPFANITDIDQSAERVRDQLS
VMASPNGNLDEVHEGLLLQAVRASWLAKENRARIDDVVDFLKNASDSEQYAGSPTIRSRLDEMIVLLDQY
TANGTYGQYFNSDEPSLRDDAKMVVLELGGLEDRPSLLVAVMFSLIIYIENRMYRTPRNLKKLNVIDEGW
RLLDFKNHKVGEFIEKGYRTARRHTGAYITITQNIVDFDSDKASSAARAAWGNSSYKIILRQSAKEFAKY
NQLYPDQFQPLQRDMIGKFGAAKDQWFSSFLLQVENHSSWHRLFVDPLSRAMYSSDGPDFEFVQQKRKEG
LSIHEAVWQLAWKKSGPEMASLEAWLEEHEKYRSVA

  Protein domains


Predicted by InterproScan.

TraG P-loop domain (P-loop_TraG)

(469-764)

TraC protein (TraC_F_IV)

(39-277)

Family of unknown function (DUF5934) (DUF5934)

(290-447)

  Protein structure



No available structure.




T4SS

T4SS were predicted by using oriTfinder2.

Region 1: 58901..78358

Locus tag Coordinates Strand Size (bp) Protein ID Product Description
HTH55_RS00370 58901..61090 - 2190 WP_072749386 type IV conjugative transfer system coupling protein TraD virb4
HTH55_RS00375 61141..61881 - 741 WP_021514832 hypothetical protein -
HTH55_RS00380 62084..62815 - 732 WP_000782451 conjugal transfer complement resistance protein TraT -
HTH55_RS00385 62864..63349 - 486 WP_000605868 hypothetical protein -
HTH55_RS00390 63365..66187 - 2823 WP_021532657 conjugal transfer mating-pair stabilization protein TraG traG
HTH55_RS00395 66184..67557 - 1374 WP_001137358 conjugal transfer pilus assembly protein TraH traH
HTH55_RS00400 67557..67919 - 363 WP_010379880 P-type conjugative transfer protein TrbJ -
HTH55_RS00405 67849..68394 - 546 WP_000052618 type-F conjugative transfer system pilin assembly thiol-disulfide isomerase TrbB traF
HTH55_RS00410 68381..68617 - 237 WP_001346259 type-F conjugative transfer system pilin chaperone TraQ -
HTH55_RS00415 68778..69521 - 744 WP_001030376 type-F conjugative transfer system pilin assembly protein TraF traF
HTH55_RS00420 69514..69771 - 258 WP_000864341 conjugal transfer protein TrbE -
HTH55_RS00425 69798..71648 - 1851 WP_021537336 type-F conjugative transfer system mating-pair stabilization protein TraN traN
HTH55_RS00430 71645..72067 - 423 WP_001229306 HNH endonuclease signature motif containing protein -
HTH55_RS00435 72092..72463 - 372 WP_021514849 hypothetical protein -
HTH55_RS00440 72460..73098 - 639 WP_021514850 type-F conjugative transfer system pilin assembly protein TrbC trbC
HTH55_RS00445 73339..73530 + 192 WP_032147853 hypothetical protein -
HTH55_RS00450 73527..73706 - 180 WP_032193743 hypothetical protein -
HTH55_RS00455 73727..74719 - 993 WP_000830838 conjugal transfer pilus assembly protein TraU traU
HTH55_RS00460 74716..75348 - 633 WP_001203720 type-F conjugative transfer system protein TraW traW
HTH55_RS00465 75345..75731 - 387 WP_021536235 type-F conjugative transfer system protein TrbI -
HTH55_RS00470 75728..78358 - 2631 WP_064558378 type IV secretion system protein TraC virb4
HTH55_RS00475 78484..78846 - 363 WP_021514859 hypothetical protein -
HTH55_RS00480 78874..79089 - 216 WP_000556747 hypothetical protein -
HTH55_RS00485 79169..79645 - 477 WP_000549580 hypothetical protein -
HTH55_RS00490 79638..79859 - 222 WP_001278695 conjugal transfer protein TraR -

Host bacterium

ID   3528 GenBank   NZ_KU932028
Plasmid name   pEC14III Incompatibility group   IncFII
Plasmid size   80057 bp Coordinate of oriT [Strand]   6851..6974 [-]
Host baterium   Escherichia coli

Cargo genes

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