Detailed information of oriT

oriT

The information of the oriT region


oriTDB ID   101656
Name   oriT_pLV27950 in_silico
Organism   Escherichia coli strain LV27950
Sequence Completeness      -
NCBI accession of oriT (coordinates [strand])   NZ_LRXJ01000157 (26487..26610 [-], 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_pLV27950
GGTTGGTGGTTCTCACCACCAAAAGCACCACACCCCACGCAAAAACAAGTTTTTGCTGATTTGCTATTTGAATCATTAACTTATGTTTTAAATAATGTATTTTAATTTATTTTACATTATAAAA

Visualization of oriT structure

  oriT secondary structure

Predicted by RNAfold.

Download structure file


T4CP

ID   1109 GenBank   WP_021538890
Name   traD_AXE69_RS22630_pLV27950 insolico UniProt ID   _
Length   738 a.a. PDB ID   _
Note   Predicted by oriTfinder 2.0

  T4CP protein sequence


Download         Length: 738 a.a.        Molecular weight: 84000.81 Da        Isoelectric Point: 5.1048

>WP_021538890.1 MULTISPECIES: type IV conjugative transfer system coupling protein TraD [Enterobacteriaceae]
MSFNAKDMTQGGQIASMRIRMFSQIANIMLYCLFIFFWILVGLVLWVKISWQTFVNGCIYWWCTTLEGMR
DLIKSQPVYEIQYYGKTFRMNAAQVLHDKYMIWCGEQLWSAFVLASVVALVICLITFFVVSWILGRQGKQ
QSENEVTGGRQLTDNPKDVARMLKKDGKDSDIRIGDLPIIRDSEIQNFCLHGTVSTGKSEVIRRLANYAR
KRGDMVVIYDRSCEFVKSYYDPSIDKILNPLDARCAAWDLWKECLTQPDFDNVANTLIPMGTKEDPFWQG
SGRTIFAEAAYLMRNDPNRSYSKLVDTLLSIKIEKLRTFLRNSPAANLVEEKIEKTAISIRAVLTNYVKA
IRYLQGIEHNGEPFTIRDWMRGVREDQKNGWLFISSNADTHASLKPVVSMWLSIAIRGLLAMGENRNRRV
WFFCDELPTLHKLPDLVEILPEARKFGGCYVFGIQSYAQLEDIYGEKAAATLFDVLNTRAFFRSPSHQIA
EFAAGEIGEKEHLKASLQYSYGADPVRDGISTGKEMERQTLVSYSDIQSLPDLTCYVTLPGPYPAVKLSL
KYQARPKVAPEFIPRDINPEMENRLSAVLAAREAEGRQMASLFEPDVPEVVSGEDVTQAEQPQQPQQPQQ
PQQPQQPQQPQQPQQPVSPAINDKKSDSGVNIPAGGIEQELKMKPEEEMEQQLPPGISESGEVVDMAAYE
AWQQENHPDIQQQMQRREEVNINVHRERGEDVEPGDDF

  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   1110 GenBank   WP_001064239
Name   traC_AXE69_RS22715_pLV27950 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: 99485.47 Da        Isoelectric Point: 6.6265

>WP_001064239.1 MULTISPECIES: type IV secretion system protein TraC [Enterobacteriaceae]
MNNPLEAVTQAVNSLVTALKLPDESAKANEVLGEMSFPQFSRLLPYRDYNQESGLFMNDTTMGFMLEAIP
INGANESIVEALDHMLRTKLPRGIPLCIHLMSSQLVGDRIEYGLREFSWSGEQAERFNAITRAYYMKAAA
TQFPLPEGMNLPLTLRHYRVFISYCSPSKKKSRADILEMENLVKIIRASFHGAKITTQTVDAQAFIEIVG
EMINHNPDSLYPKRRQLDPYSDLNYQCVEDSFDLKVRADYLTLGLRENGRNSTARILNFHLARNPEIAFL
WNMADNYSNLLNPEMSISCPFILTLTLVVEDQVKTHSEANLKYMDLEKKSKTSYAKWFPSVEKEAKEWGE
LRQRLGSGQSSVVSYFLNITAFCKDNNETALEVEQDILNSFRKNGFELISPRFNHMRNFLTCLPFMAGKG
LFKQLKEAGVVQRAESFNVANLMPLVADNPLTPAGLLAPTYRNQLAFIDIFFKGMNNTNYNMAVCGTSGA
GKTGLIQPLIRSVLDSGGFAVVFDMGDGYKSLCENMGGVYLDGETLRFNPFANITDIDQSAERVRDQLSV
MASPNGNLDEVHEGLLLQAVRASWLAKKKQARIDDVVDFLKNARDNDQYVESPTIRSRLDEMIVLLDQYT
ANGTYGRYFNSDEPSLRDDAKMVVLELGGLEDRPSLLVAVMFSLIIYIENRMYRTPRTLKKLNVIDEGWR
LLDFKNRKVGEFIQKGYRTCRRHTGAYITITQNIVDFDSDKASSAARAAWGNSSYKIILKQSAKEFAKYN
QLFPDQFQPLQRDMIGKFGAAKDQWFSSFLLQVENHSSWHRLFVDPLSRAMYSSDGPDFEFVQQKRREGM
SIHEAVWQLAWKKSGPEMASLEAWLEEHEKYRSVA

  Protein domains


Predicted by InterproScan.

TraG P-loop domain (P-loop_TraG)

(467-771)

Family of unknown function (DUF5934) (DUF5934)

(290-446)

TraC protein (TraC_F_IV)

(38-276)

  Protein structure



No available structure.




T4SS

T4SS were predicted by using oriTfinder2.

Region 1: 1023..27182

Locus tag Coordinates Strand Size (bp) Protein ID Product Description
AXE69_RS22625 (AXE69_22685) 19..1023 - 1005 Protein_0 MobF family relaxase -
AXE69_RS22630 (AXE69_22690) 1023..3239 - 2217 WP_021538890 type IV conjugative transfer system coupling protein TraD prgC
AXE69_RS22635 (AXE69_22695) 3492..4223 - 732 WP_000850422 conjugal transfer complement resistance protein TraT -
AXE69_RS22640 (AXE69_22700) 4255..4752 - 498 WP_000605861 hypothetical protein -
AXE69_RS22645 (AXE69_22705) 4771..7590 - 2820 WP_001007057 conjugal transfer mating-pair stabilization protein TraG traG
AXE69_RS22650 (AXE69_22710) 7587..8960 - 1374 WP_001137364 conjugal transfer pilus assembly protein TraH traH
AXE69_RS22655 (AXE69_22715) 8947..9339 - 393 WP_000660703 F-type conjugal transfer protein TrbF -
AXE69_RS28310 (AXE69_22720) 9320..9661 - 342 WP_001448115 P-type conjugative transfer protein TrbJ -
AXE69_RS22660 (AXE69_22725) 9591..10136 - 546 WP_000059824 type-F conjugative transfer system pilin assembly thiol-disulfide isomerase TrbB traF
AXE69_RS22665 (AXE69_22730) 10123..10407 - 285 WP_001448202 type-F conjugative transfer system pilin chaperone TraQ -
AXE69_RS22670 (AXE69_22735) 10534..10872 - 339 WP_001287905 conjugal transfer protein TrbA -
AXE69_RS22675 (AXE69_22740) 10888..11631 - 744 WP_001030371 type-F conjugative transfer system pilin assembly protein TraF traF
AXE69_RS22680 (AXE69_22745) 11624..11881 - 258 WP_000864320 conjugal transfer protein TrbE -
AXE69_RS22685 (AXE69_22750) 11908..13518 - 1611 WP_059219397 type-F conjugative transfer system mating-pair stabilization protein TraN traN
AXE69_RS22690 (AXE69_22755) 13484..14098 - 615 WP_061103956 type-F conjugative transfer system pilin assembly protein TrbC trbC
AXE69_RS22695 (AXE69_22760) 14107..14412 - 306 WP_000224411 hypothetical protein -
AXE69_RS22700 (AXE69_22765) 14442..15434 - 993 WP_000830838 conjugal transfer pilus assembly protein TraU traU
AXE69_RS22705 (AXE69_22770) 15431..16063 - 633 WP_001203720 type-F conjugative transfer system protein TraW traW
AXE69_RS22710 (AXE69_22775) 16060..16446 - 387 WP_000214082 type-F conjugative transfer system protein TrbI -
AXE69_RS22715 (AXE69_22780) 16443..19070 - 2628 WP_001064239 type IV secretion system protein TraC virb4
AXE69_RS28315 19230..19451 - 222 WP_001278978 conjugal transfer protein TraR -
AXE69_RS22720 (AXE69_22785) 19586..20101 - 516 WP_000809893 type IV conjugative transfer system lipoprotein TraV traV
AXE69_RS22725 (AXE69_22790) 20098..20349 - 252 WP_001038341 conjugal transfer protein TrbG -
AXE69_RS22730 (AXE69_22795) 20342..20662 - 321 WP_001057302 conjugal transfer protein TrbD virb4
AXE69_RS22735 (AXE69_22800) 20649..21233 - 585 WP_000002795 conjugal transfer pilus-stabilizing protein TraP -
AXE69_RS22740 (AXE69_22805) 21223..22650 - 1428 WP_000146638 F-type conjugal transfer pilus assembly protein TraB traB
AXE69_RS22745 (AXE69_22810) 22650..23378 - 729 WP_001230787 type-F conjugative transfer system secretin TraK traK
AXE69_RS22750 (AXE69_22815) 23365..23931 - 567 WP_000399804 type IV conjugative transfer system protein TraE traE
AXE69_RS22755 (AXE69_22820) 23953..24264 - 312 WP_000012106 type IV conjugative transfer system protein TraL traL
AXE69_RS22760 (AXE69_22825) 24269..24631 - 363 WP_001098998 type IV conjugative transfer system pilin TraA -
AXE69_RS22765 (AXE69_22830) 24665..24892 - 228 WP_001254388 conjugal transfer relaxosome protein TraY -
AXE69_RS22770 (AXE69_22835) 24986..25672 - 687 WP_000332487 PAS domain-containing protein -
AXE69_RS22775 (AXE69_22840) 25866..26249 - 384 WP_001151564 conjugal transfer relaxosome DNA-binding protein TraM -
AXE69_RS22780 (AXE69_22845) 26535..27182 + 648 WP_000614282 transglycosylase SLT domain-containing protein virB1
AXE69_RS22785 (AXE69_22850) 27467..28288 - 822 WP_001234469 DUF932 domain-containing protein -
AXE69_RS22790 (AXE69_22855) 28409..28696 - 288 WP_000107537 hypothetical protein -

Host bacterium

ID   2100 GenBank   NZ_LRXJ01000157
Plasmid name   pLV27950 Incompatibility group   -
Plasmid size   28737 bp Coordinate of oriT [Strand]   26487..26610 [-]
Host baterium   Escherichia coli strain LV27950

Cargo genes

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