Detailed information of oriT

oriT

The information of the oriT region


oriTDB ID   103088
Name   oriT_pEC14II_1 in_silico
Organism   Escherichia coli
Sequence Completeness      -
NCBI accession of oriT (coordinates [strand])   NZ_KU932026 (64033..64121 [-], 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_1
GGGGTGTCGGGGCGAAGCCCTGACCAGATGGCAATTGTAATAGCGTCGCGTGTGACGGTATTACAATTGCACATCCTGTCCCGTTTTTC

Visualization of oriT structure

  oriT secondary structure

Predicted by RNAfold.

Download structure file


Relaxase

ID   2311 GenBank   WP_001360283
Name   nikB_HTI60_RS00405_pEC14II_1 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   974 GenBank   WP_001283947
Name   WP_001283947_pEC14II_1 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   2035 GenBank   WP_024255997
Name   trbC_HTI60_RS00410_pEC14II_1 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..19989

Locus tag Coordinates Strand Size (bp) Protein ID Product Description
HTI60_RS00010 439..786 - 348 WP_001055900 conjugal transfer protein traL
HTI60_RS00015 804..4571 - 3768 WP_181365823 LPD7 domain-containing protein -
HTI60_RS00020 4662..5213 - 552 WP_000014584 phospholipase D family protein -
HTI60_RS00025 5228..5518 - 291 WP_001299214 hypothetical protein traK
HTI60_RS00030 5515..6663 - 1149 WP_001024972 plasmid transfer ATPase TraJ virB11
HTI60_RS00035 6660..7478 - 819 WP_000646097 IncI1-type conjugal transfer lipoprotein TraI traI
HTI60_RS00040 7475..7933 - 459 WP_001079808 IncI1-type conjugal transfer lipoprotein TraH -
HTI60_RS00045 8328..8912 - 585 WP_000977523 histidine phosphatase family protein -
HTI60_RS00050 8972..10174 - 1203 WP_000976353 conjugal transfer protein TraF -
HTI60_RS00055 10259..11083 - 825 WP_001238935 conjugal transfer protein TraE traE
HTI60_RS00060 11234..12388 - 1155 WP_001139958 site-specific integrase -
HTI60_RS00510 12372..12671 + 300 WP_223873359 pilus assembly protein PilV -
HTI60_RS00070 13517..13774 + 258 WP_001302706 hypothetical protein -
HTI60_RS00075 13909..14160 + 252 WP_236922475 hypothetical protein -
HTI60_RS00080 14164..15483 - 1320 WP_236926554 shufflon system plasmid conjugative transfer pilus tip adhesin PilV -
HTI60_RS00085 15483..16139 - 657 WP_001193554 prepilin peptidase -
HTI60_RS00090 16124..16684 - 561 WP_001774171 lytic transglycosylase domain-containing protein virB1
HTI60_RS00095 16694..17308 - 615 WP_001542527 type 4 pilus major pilin -
HTI60_RS00100 17326..18423 - 1098 WP_001492931 type II secretion system F family protein -
HTI60_RS00105 18436..19989 - 1554 WP_001492932 ATPase, T2SS/T4P/T4SS family virB11
HTI60_RS00110 20000..20452 - 453 WP_001247870 type IV pilus biogenesis protein PilP -
HTI60_RS00115 20439..21734 - 1296 WP_001774172 type 4b pilus protein PilO2 -
HTI60_RS00120 21727..23409 - 1683 WP_000748143 PilN family type IVB pilus formation outer membrane protein -
HTI60_RS00125 23423..23860 - 438 WP_000539807 type IV pilus biogenesis protein PilM -
HTI60_RS00130 23860..24927 - 1068 WP_001492935 type IV pilus biogenesis lipoprotein PilL -

Region 2: 69499..87587

Locus tag Coordinates Strand Size (bp) Protein ID Product Description
HTI60_RS00410 67215..69506 - 2292 WP_024255997 F-type conjugative transfer protein TrbC -
HTI60_RS00415 69499..70569 - 1071 WP_000151583 IncI1-type conjugal transfer protein TrbB trbB
HTI60_RS00420 70588..71796 - 1209 WP_024255995 IncI1-type conjugal transfer protein TrbA trbA
HTI60_RS00425 72088..72240 + 153 WP_001387489 Hok/Gef family protein -
HTI60_RS00430 72312..72563 - 252 WP_001291964 hypothetical protein -
HTI60_RS00520 73062..73157 + 96 WP_001303310 DinQ-like type I toxin DqlB -
HTI60_RS00435 73222..73506 - 285 WP_181365821 hypothetical protein -
HTI60_RS00440 73790..73999 + 210 WP_000062603 HEAT repeat domain-containing protein -
HTI60_RS00445 74071..74745 - 675 WP_223866377 plasmid IncI1-type surface exclusion protein ExcA -
HTI60_RS00450 74795..76963 - 2169 WP_001774191 DotA/TraY family protein traY
HTI60_RS00455 77060..77644 - 585 WP_001037987 IncI1-type conjugal transfer protein TraX -
HTI60_RS00460 77673..78875 - 1203 WP_001385654 IncI1-type conjugal transfer protein TraW traW
HTI60_RS00465 78842..79456 - 615 WP_000337399 IncI1-type conjugal transfer protein TraV traV
HTI60_RS00470 79456..82500 - 3045 WP_001024786 IncI1-type conjugal transfer protein TraU traU
HTI60_RS00475 82590..83390 - 801 WP_181365824 IncI1-type conjugal transfer protein TraT traT
HTI60_RS00480 83374..83562 - 189 WP_001277255 putative conjugal transfer protein TraS -
HTI60_RS00485 83626..84030 - 405 WP_000086959 IncI1-type conjugal transfer protein TraR traR
HTI60_RS00490 84081..84608 - 528 WP_001055569 conjugal transfer protein TraQ traQ
HTI60_RS00495 84608..85312 - 705 WP_000801920 IncI1-type conjugal transfer protein TraP traP
HTI60_RS00500 85312..86601 - 1290 WP_001774189 conjugal transfer protein TraO traO
HTI60_RS00505 86604..87587 - 984 WP_001191879 IncI1-type conjugal transfer protein TraN traN

Host bacterium

ID   3531 GenBank   NZ_KU932026
Plasmid name   pEC14II_1 Incompatibility group   IncI1
Plasmid size   87848 bp Coordinate of oriT [Strand]   64033..64121 [-]
Host baterium   Escherichia coli

Cargo genes

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