Detailed information of oriT

oriT

The information of the oriT region


oriTDB ID   118393
Name   oriT_p1RM9974 in_silico
Organism   Escherichia albertii strain RM9974
Sequence Completeness      -
NCBI accession of oriT (coordinates [strand])   NZ_CP043270 (25329..25680 [-], 352 nt)
oriT length   352 nt
IRs (inverted repeats)      192..198, 206..212  (TATAAAA..TTTTATA)
 128..134, 148..154  (GCGGTGT..ACACCGC)
 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_p1RM9974
AGGTTGGTGGTTCTCACCACCAAAAGCACCACACCCCACGCAAAAACAAGTTTTTGCTGATTTTTCTTTATAAATAGAGAGTTATGAAAAATTAGTTTCTCTTACTCTCTTTATGATATTTAAAAAAGCGGTGTCGGCGCGGCTACAACACCGCGCCGACACCGCTTTATAGGGGTGGTACTGACTATTTTTATAAAAAACATTATTTTATATTAGGGGCGCTGCTAGCGGCGCGGTGTGTTTTTTTATAGGATACCGCCAGGGGCGCTGCTAGCGGTGCGTCCCTGTTTGCATTATGAATTTTAGTGTTTCGAAATTAACTTTATTTTATGTTCAAAAAAGGTAATCTCTA

Visualization of oriT structure

  oriT secondary structure

Predicted by RNAfold.

Download structure file


Auxiliary protein

ID   6744 GenBank   WP_001309237
Name   WP_001309237_p1RM9974 insolico UniProt ID   A0A5W1N5T0
Length   131 a.a. PDB ID   _
Note   Predicted by oriTfinder 2.0

  Auxiliary protein sequence


Download         Length: 131 a.a.        Molecular weight: 15183.38 Da        Isoelectric Point: 9.9240

>WP_001309237.1 MULTISPECIES: conjugal transfer relaxosome DNA-bindin protein TraY [Gammaproteobacteria]
MKRFGTRSATGKMVKLKLPVDVESLLIEASNRSGRSRSFEAVIRLKDHLHRYPKFNRAGNIYGKSLVKYL
TMRLDDETNQLLIAAKNRSGWCKTDEAADRVIDHLIKFPDFYNSEIFREADKEEDITFNTL

  Protein domains


Predicted by InterproScan.

TraY domain (TraY)

(70-117)

TraY domain (TraY)

(16-59)


  Protein structure


Source ID Structure
AlphaFold DB A0A5W1N5T0

ID   6745 GenBank   WP_001151524
Name   WP_001151524_p1RM9974 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   13678 GenBank   WP_265451235
Name   traD_FYK18_RS25665_p1RM9974 insolico UniProt ID   _
Length   747 a.a. PDB ID   _
Note   Predicted by oriTfinder 2.0

  T4CP protein sequence


Download         Length: 747 a.a.        Molecular weight: 85047.93 Da        Isoelectric Point: 5.2406

>WP_265451235.1 type IV conjugative transfer system coupling protein TraD [Escherichia albertii]
MSFNAKDMTQGGQIASMRIRMFSQIANIMLYCLFIFFWILVGLVLWVKISWQTFVNGCIYWWCTTLEGMR
DLIKSQPVYEIQYYGKTFRMNAAQVLHDKYMIWCGEQLWSAFVLATVVALVICLITFFVVSWILGRQGKQ
QSENEVTGGRQLTDNPKDVARMLKKDGKDSDIRIGDLPIIRDSEIQNFCLHGTVSTGKSEVIRRLANYAR
KRGDMVVIYDRSCEFVKSYYDPSIDKILNPLDARCAAWDLWKECLTQPDFDNVANTLIPMGTKEDPFWQG
SGRTIFAEAAYLMRNDPNRSYSKLVDTLLSIKIEKLRTYLRNSPAANLVEEKIEKTAISIRAVLTNYVKA
IRYLQGIEHNGESFTIRDWMRGVREDKKNGWLFISSNADTHASLKPVVSMWLSIAIRGLLAMGENRNRRV
WFFCDELPTLHKLPDLVEILPEARKFGGCYVFGIQSYAQLEDIYGEKAAATLFDVLNTRAFFRSPSHQIA
EFAAGEIGEKEHLKASLQYSYGADPVRDGISTGKEMERQTLVSYSDIQSLPDLTCYVTLPGPYPAVKLSL
KYQARPKVAPEFIPRDINPEMENRLSAVLAAREAEGRQVASLFEPDVPEVVSGEDVTQAEQPQQPQQPQQ
PQQPQQPQQPQQPQQPQQPQQPQQPVSPAINDKKSDSGVNVPAGGIEQKLKMKPEEEMEQQLPPGISESG
EVVDMAAYEAWQQENYPDTQQQMQRREEVNINVHRERGEDVEPGDDF

  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   13679 GenBank   WP_265451246
Name   traC_FYK18_RS25760_p1RM9974 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: 99567.51 Da        Isoelectric Point: 6.6265

>WP_265451246.1 type IV secretion system protein TraC [Escherichia albertii]
MSNNPLEAVTQAVNSLVTALKLPDESAKANEVLGEMSFPQFSRLLPYRDYNQESGLFMNDTTMGFMLEAI
PINGANESIVEALDHMLRTKLPRGIPLCIHLMSSQLVGDRIEYGLREFSWSGEQAERFNAITRAYYMKAA
ATQFPLPEGMNLPLTLRHYRVFISYCSPSKKKSRADILEMENLVKIIRASFHGAKITTQTVDAQAFIEIV
GEMINHNPDSLYPKRRQLDPYSDLNYQCVEDSFDLKVRADYLTLGLRENGRNSTARILNFHLARNPEIAF
LWNMADNYSNLLNPEMSISCPFILTLTLVVEDQVKTHSEANLKYMDLEKKSKTSYAKWFPSVEKEAKEWG
ELRQRLGSGQSSVVSYFLNITAFCKDNNETALEVEQDILNSFRKNGFELISPRFNHMRNFLTCLPFMAGK
GLFKQLKEAGVVQRAESFNVANLMPLVADNPLTPAGLLAPTYRNQLAFIDIFFKGMNNTNYNMAVCGTSG
AGKTGLIQPLIRSVLDSGGFAVVFDMGDGYKSLCENMGGVYLDGETLRFNPFANITDIDQSAERVRDQLS
VMASPNGNLDEVHEGLLLQAVRASWLAKKKQARIDDVVDFLKNARDNDQYVESPTIRSRLDEMIVLLDQY
TANGTYGRYFNSDEPSLRDDARMVVLELGGLEDRPSLLVAVMFSLIIYIENRMYRTPRNLKKLNVIDEGW
RLLDFKNRKVGEFIQKGYRTCRRHTGAYITITQNIVDFDSDKASSAARAAWGNSSYKIILKQSAKEFAKY
NQLFPDQFQPLQRDMIGKFGAAKDQWFSSFLLQVENHSSWHRLFVDPLSRAMYSSDGPDFEFVQQKRKEG
LSIHEAVWQLAWKKSGPEMASLEAWLEEHEKYRSVA

  Protein domains


Predicted by InterproScan.

TraC protein (TraC_F_IV)

(39-277)

TraG P-loop domain (P-loop_TraG)

(468-768)

Family of unknown function (DUF5934) (DUF5934)

(291-447)

  Protein structure



No available structure.




T4SS

T4SS were predicted by using oriTfinder2.

Region 1: 1510..23168

Locus tag Coordinates Strand Size (bp) Protein ID Product Description
FYK18_RS25670 (FYK18_26145) 259..990 - 732 WP_000850424 conjugal transfer complement resistance protein TraT -
FYK18_RS25675 (FYK18_26150) 1004..1513 - 510 WP_000628099 conjugal transfer entry exclusion protein TraS -
FYK18_RS25680 (FYK18_26155) 1510..4335 - 2826 WP_265451237 conjugal transfer mating-pair stabilization protein TraG traG
FYK18_RS25685 (FYK18_26160) 4332..5705 - 1374 WP_021532658 conjugal transfer pilus assembly protein TraH traH
FYK18_RS25690 (FYK18_26165) 5705..6067 - 363 WP_265451239 P-type conjugative transfer protein TrbJ -
FYK18_RS25695 (FYK18_26170) 5997..6542 - 546 WP_000059815 type-F conjugative transfer system pilin assembly thiol-disulfide isomerase TrbB traF
FYK18_RS25700 (FYK18_26175) 6529..6813 - 285 WP_059249367 type-F conjugative transfer system pilin chaperone TraQ -
FYK18_RS25705 (FYK18_26180) 6932..7279 - 348 WP_265451242 conjugal transfer protein TrbA -
FYK18_RS25710 (FYK18_26185) 7295..8038 - 744 WP_001030376 type-F conjugative transfer system pilin assembly protein TraF traF
FYK18_RS25715 (FYK18_26190) 8031..8288 - 258 WP_000864325 conjugal transfer protein TrbE -
FYK18_RS25720 (FYK18_26195) 8315..10123 - 1809 WP_265451243 type-F conjugative transfer system mating-pair stabilization protein TraN traN
FYK18_RS25725 (FYK18_26200) 10120..10758 - 639 WP_001104086 type-F conjugative transfer system pilin assembly protein TrbC trbC
FYK18_RS25730 (FYK18_26205) 10786..11238 - 453 WP_027663276 hypothetical protein -
FYK18_RS25735 (FYK18_26210) 11231..11545 - 315 WP_265451245 hypothetical protein -
FYK18_RS25740 (FYK18_26215) 11556..12020 - 465 WP_042110600 hypothetical protein -
FYK18_RS25745 (FYK18_26220) 12046..13038 - 993 WP_000830839 conjugal transfer pilus assembly protein TraU traU
FYK18_RS25750 (FYK18_26225) 13035..13667 - 633 WP_001203720 type-F conjugative transfer system protein TraW traW
FYK18_RS25755 (FYK18_26230) 13664..14050 - 387 WP_021514856 type-F conjugative transfer system protein TrbI -
FYK18_RS25760 (FYK18_26235) 14047..16677 - 2631 WP_265451246 type IV secretion system protein TraC virb4
FYK18_RS25765 (FYK18_26240) 16803..17165 - 363 WP_039520300 hypothetical protein -
FYK18_RS25770 (FYK18_26245) 17193..17408 - 216 WP_000556749 hypothetical protein -
FYK18_RS25775 (FYK18_26250) 17488..17961 - 474 WP_000549595 hypothetical protein -
FYK18_RS25780 (FYK18_26255) 17954..18358 - 405 WP_265451247 hypothetical protein -
FYK18_RS25785 (FYK18_26260) 18351..18572 - 222 WP_003676426 conjugal transfer protein TraR -
FYK18_RS25790 (FYK18_26265) 18707..19222 - 516 WP_089700054 type IV conjugative transfer system lipoprotein TraV traV
FYK18_RS25795 (FYK18_26270) 19219..19539 - 321 WP_252370749 conjugal transfer protein TrbD -
FYK18_RS25800 (FYK18_26275) 19526..20116 - 591 WP_265451248 conjugal transfer pilus-stabilizing protein TraP -
FYK18_RS25805 (FYK18_26280) 20106..21554 - 1449 WP_265451249 F-type conjugal transfer pilus assembly protein TraB traB
FYK18_RS25810 (FYK18_26285) 21554..22282 - 729 WP_001230787 type-F conjugative transfer system secretin TraK traK
FYK18_RS25815 (FYK18_26290) 22269..22835 - 567 WP_000399792 type IV conjugative transfer system protein TraE traE
FYK18_RS25820 (FYK18_26295) 22857..23168 - 312 WP_000012106 type IV conjugative transfer system protein TraL traL
FYK18_RS25825 (FYK18_26300) 23183..23542 - 360 WP_000994781 type IV conjugative transfer system pilin TraA -
FYK18_RS25830 (FYK18_26305) 23575..23970 - 396 WP_001309237 conjugal transfer relaxosome DNA-bindin protein TraY -
FYK18_RS25835 (FYK18_26310) 24069..24758 - 690 WP_000283380 conjugal transfer transcriptional regulator TraJ -
FYK18_RS25840 (FYK18_26315) 24945..25328 - 384 WP_001151524 conjugal transfer relaxosome DNA-binding protein TraM -
FYK18_RS25845 (FYK18_26320) 25661..26251 + 591 WP_322588918 transglycosylase SLT domain-containing protein -
FYK18_RS25850 (FYK18_26325) 26547..27367 - 821 Protein_37 DUF932 domain-containing protein -
FYK18_RS25855 (FYK18_26330) 27485..27772 - 288 WP_000107538 hypothetical protein -

Host bacterium

ID   18826 GenBank   NZ_CP043270
Plasmid name   p1RM9974 Incompatibility group   IncFIA
Plasmid size   132007 bp Coordinate of oriT [Strand]   25329..25680 [-]
Host baterium   Escherichia albertii strain RM9974

Cargo genes

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