Detailed information of oriT

oriT

The information of the oriT region


oriTDB ID   103027
Name   oriT_pEC14II_2 in_silico
Organism   Escherichia coli
Sequence Completeness      -
NCBI accession of oriT (coordinates [strand])   NZ_KU932027 (63851..63939 [-], 89 nt)
oriT length   89 nt
IRs (inverted repeats)     _
Location of nic site      _
Conserved sequence flanking the
  nic site    		  _
Note   Predicted by oriTfinder 2.0

  oriT sequence  


Download         Length: 89 nt

>oriT_pEC14II_2
GGGGTGTCGGGGCGAAGCCCTGACCAGATGGCAATTGTAATAGCGTCGCGTGTGACGGTATTACAATTGCACATCCTGTCCCGTTTTTC

Visualization of oriT structure

  oriT secondary structure

Predicted by RNAfold.

Download structure file


Relaxase

ID   2263 GenBank   WP_001360283
Name   nikB_HTI78_RS00400_pEC14II_2 insolico UniProt ID   A0A637A499
Length   899 a.a. PDB ID   
Note   Predicted by oriTfinder 2.0

  Relaxase protein sequence


Download         Length: 899 a.a.        Molecular weight: 104011.40 Da        Isoelectric Point: 7.3426

>WP_001360283.1 MULTISPECIES: IncI1-type relaxase NikB [Enterobacteriaceae]
MNAVIPKKRRDGKSSFEDLVSYVSVRDDMTDEELDLSSSSQAEQPHRSRFSRLVDYATRLRNESFVALVD
VMKDGCEWVNFYGVTCFHNCTSLETAAADMEYIARQAHYAKDDTDPVFHYILSWQSHESPRPEQIYDSVR
HTLKSLGLADHQYVSAVHTDTDNLHVHVAVNRVHPETGYLNRLSWSQEKLSRACRELELKHGFAPDNGCW
VHAPGNRIVRKTAVERDRQNAWTRGKKQTFREYVAQTAVAGLRSEPVNDWLSLHRRLAEDGLYLSQMDGK
FLVMDGWDRNREGVQLDSFGPSWCAEKLMKKMGDYTPVPKDIFSQVEAPGRYNPDFIAADVRPEKIAETE
SLQQYACRHLGERLPEMAREGRLENCQAIHRTLAEAGLWMRVQHGHLVICDGYDHNQTPVRADSVWSLLT
LDNVNQLDGGWQPVPTDIFRQVTPTERFRGRRMESCPATDKEWHRMRTGTGPQGAIKRELFSDKESLWGY
SISHCSPQIEEMITQGEFTWQRCHELFAQQGLMLQKQHHGLVVVDAFNHEQTPVKASSIHPDLTLGRAEP
QAGPFVSAPADLFDRVQPESRYNPELAVSDRYGVSSKRDPMLRRQRREARAEARADLRARYLAWREQWRK
PDLRYGERCREIHQACRLRKSHIRAQYDDPALRKLHYHIAEVQRMQALIRLKEDIRDERQKLIADGKWYP
PSYRQWVEIQAAQGDRAAVSQLRGWDYRDRRKDRSRTTTTDRCVVLCEPGGTPVYGNTGDLEARLQKNGS
VRFRDRRTGEFVCTDYGDRVVFRNHHDRNALADKLDLIAPVLFGRDPRMGFEPEGNDKQFNQVFAEMVAW
HNVTGRTGHEDYRITRPDVDHHREGSERYYRDYIAANSNDDASLPPPEQDKRWEPPSPG

  Protein domains


Predicted by InterproScan.

Relaxase/Mobilisation nuclease domain (Relaxase)

(62-314)


  Protein structure


Source ID Structure
AlphaFold DB A0A637A499


Auxiliary protein

ID   925 GenBank   WP_001283947
Name   WP_001283947_pEC14II_2 insolico UniProt ID   A0A142CMC2
Length   110 a.a. PDB ID   _
Note   Predicted by oriTfinder 2.0

  Auxiliary protein sequence


Download         Length: 110 a.a.        Molecular weight: 12613.57 Da        Isoelectric Point: 10.7463

>WP_001283947.1 MULTISPECIES: IncI1-type relaxosome accessory protein NikA [Enterobacteriaceae]
MSDSAVRKKSEVRQKTVVRTLRFSPVEDETIRKKAEDSGLTVSAYIRNAALNKRINSRTDDAFLKELMRL
GRMQKHLFVQGKRTGDKEYAEVLVAITELTNTLRKQLMEG

  Protein domains



No domain identified.



  Protein structure


Source ID Structure
AlphaFold DB A0A142CMC2


T4CP

ID   1957 GenBank   WP_024255997
Name   trbC_HTI78_RS00405_pEC14II_2 insolico UniProt ID   _
Length   763 a.a. PDB ID   _
Note   Predicted by oriTfinder 2.0

  T4CP protein sequence


Download         Length: 763 a.a.        Molecular weight: 86940.16 Da        Isoelectric Point: 7.0662

>WP_024255997.1 MULTISPECIES: F-type conjugative transfer protein TrbC [Enterobacteriaceae]
MSEHRVNPELLHRTAWGNPVWNALQSLNIYGFCLVASLVASFIWPLALPACLLFTLITMLVFSLQRWRCP
LRMPMTLKCADPSQDRMIKRSLFSFWPTLFQYEVILESPASGIFYVGYQRVRDIGRELWLSMDDLTRHIM
FFATTGGGKTETIFAWAINPLCWARGFTLVDGKAQNDTARTIWYLARRFGREDDVEVINFMNGGKSRSEI
ILSGEKTRPQSNTWNPFCYSTEAFTAETMQSMLPQNVQGGEWQSRAIAMNKALVFGTKFWCVREGKTMSL
QMLREHMTLEGMAKLYCRGLDDQWPEEAIAPLRNYLQDVPGFDLSLVRTPSAWTEEPRKQHAYLSGQFSE
TFSTFTEAFGDIFAEDSGDIDIRDSIHSDRILMVMIPALDTSAHTTSALGRMFITQKSMILARDLGYRLE
GTDSDALEVKKYKGRFPYLCFLDEVGAYYTDRIAVEATQVRSLDFALILMAQDQERIEGQTTATNTATLM
QNTGTKFAGRIVSEGSTARTLKSAAGEEARARMNNLQRQDGIFGESWIDSPQISILMESKINVQELIELH
PGEFFSIFRGETVPSASFFIPDDEKSCSSDPVVINRYISVDAPRLDRLRRLVPRTTQRRIPSPENVSAII
GVLTAKPSRKRRKIRTEPHTIVDTFQQRIAGRQAAMAMLEEYDTDINARESALWETAVNTLKTTTREERR
IRYITLNRPELPETKEENQISVRAERAGINLLTLPQDNNHPTGRPVNGFHHKKTNRPDWDGMY

  Protein domains



No domain identified.


  Protein structure



No available structure.




T4SS

T4SS were predicted by using oriTfinder2.

Region 1: 439..19807

Locus tag Coordinates Strand Size (bp) Protein ID Product Description
HTI78_RS00010 439..786 - 348 WP_001055900 conjugal transfer protein traL
HTI78_RS00015 804..4571 - 3768 WP_181365823 LPD7 domain-containing protein -
HTI78_RS00020 4662..5213 - 552 WP_000014584 phospholipase D family protein -
HTI78_RS00025 5228..5518 - 291 WP_001299214 hypothetical protein traK
HTI78_RS00030 5515..6663 - 1149 WP_001024972 plasmid transfer ATPase TraJ virB11
HTI78_RS00035 6660..7478 - 819 WP_000646097 IncI1-type conjugal transfer lipoprotein TraI traI
HTI78_RS00040 7475..7933 - 459 WP_001079808 IncI1-type conjugal transfer lipoprotein TraH -
HTI78_RS00045 8328..8912 - 585 WP_000977523 histidine phosphatase family protein -
HTI78_RS00050 8972..10174 - 1203 WP_000976353 conjugal transfer protein TraF -
HTI78_RS00055 10259..11083 - 825 WP_001238935 conjugal transfer protein TraE traE
HTI78_RS00060 11234..12388 - 1155 WP_001139958 site-specific integrase -
HTI78_RS00505 12372..12671 + 300 WP_223873359 pilus assembly protein PilV -
HTI78_RS00070 13623..13826 + 204 WP_236922382 hypothetical protein -
HTI78_RS00075 14216..15301 - 1086 Protein_14 shufflon system plasmid conjugative transfer pilus tip adhesin PilV -
HTI78_RS00080 15301..15957 - 657 WP_001193554 prepilin peptidase -
HTI78_RS00085 15942..16502 - 561 WP_001774171 lytic transglycosylase domain-containing protein virB1
HTI78_RS00090 16512..17126 - 615 WP_001542527 type 4 pilus major pilin -
HTI78_RS00095 17144..18241 - 1098 WP_001492931 type II secretion system F family protein -
HTI78_RS00100 18254..19807 - 1554 WP_001492932 ATPase, T2SS/T4P/T4SS family virB11
HTI78_RS00105 19818..20270 - 453 WP_001247870 type IV pilus biogenesis protein PilP -
HTI78_RS00110 20257..21552 - 1296 WP_001774172 type 4b pilus protein PilO2 -
HTI78_RS00115 21545..23227 - 1683 WP_000748143 PilN family type IVB pilus formation outer membrane protein -
HTI78_RS00120 23241..23678 - 438 WP_000539807 type IV pilus biogenesis protein PilM -
HTI78_RS00125 23678..24745 - 1068 WP_001492935 type IV pilus biogenesis lipoprotein PilL -

Region 2: 69317..87405

Locus tag Coordinates Strand Size (bp) Protein ID Product Description
HTI78_RS00405 67033..69324 - 2292 WP_024255997 F-type conjugative transfer protein TrbC -
HTI78_RS00410 69317..70387 - 1071 WP_000151583 IncI1-type conjugal transfer protein TrbB trbB
HTI78_RS00415 70406..71614 - 1209 WP_024255995 IncI1-type conjugal transfer protein TrbA trbA
HTI78_RS00420 71906..72058 + 153 WP_001387489 Hok/Gef family protein -
HTI78_RS00425 72130..72381 - 252 WP_001291964 hypothetical protein -
HTI78_RS00515 72880..72975 + 96 WP_001303310 DinQ-like type I toxin DqlB -
HTI78_RS00430 73040..73324 - 285 WP_181365821 hypothetical protein -
HTI78_RS00435 73608..73817 + 210 WP_000062603 HEAT repeat domain-containing protein -
HTI78_RS00440 73889..74563 - 675 WP_223866377 plasmid IncI1-type surface exclusion protein ExcA -
HTI78_RS00445 74613..76781 - 2169 WP_001774191 DotA/TraY family protein traY
HTI78_RS00450 76878..77462 - 585 WP_001037987 IncI1-type conjugal transfer protein TraX -
HTI78_RS00455 77491..78693 - 1203 WP_001385654 IncI1-type conjugal transfer protein TraW traW
HTI78_RS00460 78660..79274 - 615 WP_000337399 IncI1-type conjugal transfer protein TraV traV
HTI78_RS00465 79274..82318 - 3045 WP_001024786 IncI1-type conjugal transfer protein TraU traU
HTI78_RS00470 82408..83208 - 801 WP_181365824 IncI1-type conjugal transfer protein TraT traT
HTI78_RS00475 83192..83380 - 189 WP_001277255 putative conjugal transfer protein TraS -
HTI78_RS00480 83444..83848 - 405 WP_000086959 IncI1-type conjugal transfer protein TraR traR
HTI78_RS00485 83899..84426 - 528 WP_001055569 conjugal transfer protein TraQ traQ
HTI78_RS00490 84426..85130 - 705 WP_000801920 IncI1-type conjugal transfer protein TraP traP
HTI78_RS00495 85130..86419 - 1290 WP_001774189 conjugal transfer protein TraO traO
HTI78_RS00500 86422..87405 - 984 WP_001191879 IncI1-type conjugal transfer protein TraN traN

Host bacterium

ID   3470 GenBank   NZ_KU932027
Plasmid name   pEC14II_2 Incompatibility group   IncI1
Plasmid size   87666 bp Coordinate of oriT [Strand]   63851..63939 [-]
Host baterium   Escherichia coli

Cargo genes

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